Citrus Sinensis ID: 038109

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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----
Protein Sequence
MSLLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRDYYEINVK
Secondary Structure (PSIPRED)
cccccHHHHcccHHHHHHHHHHHHHcccccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccccEEEEEcc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccccHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHcccc
Coil and Loop (DISEMBL)
msllrklptkflipqsvlvtrsftksgafpdeptsayyddlvnaagherDLETVRYLLNKRardccfntanTFNFITNTENSLSVLSDLCRTLARldkgfprksaYDTLIGRLCKLKKIDEALRVVDIMAeggfglsaitfhpilsvLTRGKRMEEAWGLMEVMKEIRvspdltayNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCggrdikldtelfgslgskliglerfNEANFILKEMNKRDLKMGFKLRDYYEINVK
Flexible Loop (DISEMBL)
msllrklptkflipqsvlvtrsftksgafpdeptsAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARldkgfprksaydtlIGRLCKLKKIDEALRVVDIMAEGgfglsaitfhPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILkemnkrdlkmgfklrdyyeinvk
Low Complexity Region (SEG)
MSLLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCfntantfnfitntENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRDYYEINVK
Disordered region (IsUnstruct)
********TKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRDYYEI***
Disordered Region (DISOPRED)
MSLLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRDYYEINVK
Disordered Region (DISEMBL)
MSLLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRDYYEINVK
Disordered Region (DISPRO)
MSLLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRDYYEINV*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSLLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRDYYEINVK
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	324	2.2.26 [Sep-21-2011]
Q9LY43	351	Pentatricopeptide repeat-	yes	no	0.990	0.914	0.498	2e-85
Q9S733	351	Pentatricopeptide repeat-	no	no	1.0	0.923	0.490	2e-83
Q9FKR3	596	Pentatricopeptide repeat-	no	no	0.626	0.340	0.303	1e-18
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.805	0.346	0.263	4e-18
Q9SFV9	880	Pentatricopeptide repeat-	no	no	0.641	0.236	0.290	3e-17
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.802	0.350	0.248	3e-17
Q9ZVX5	743	Pentatricopeptide repeat-	no	no	0.925	0.403	0.252	1e-16
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.848	0.427	0.256	2e-16
Q9SR00	602	Pentatricopeptide repeat-	no	no	0.716	0.385	0.252	6e-16
Q9LQ16	632	Pentatricopeptide repeat-	no	no	0.854	0.438	0.247	9e-16

>sp|Q9LY43|PP283_ARATH Pentatricopeptide repeat-containing protein At3g56030 OS=Arabidopsis thaliana GN=At3g56030 PE=2 SV=2

 Score =  315 bits (808), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 167/335 (49%), Positives = 227/335 (67%), Gaps = 14/335 (4%)

Query: 1   MSLLRKL-----PTKFLIPQSVLVTRSFT----KSGAFPDEPTSAYYDDLVNAAGHERDL 51
           MSLLR+       ++FL+ QS+   RSF+       A P   T   +D+L+  AG   D 
Sbjct: 16  MSLLRRFVKEANNSRFLL-QSI-SGRSFSTVNPNPTASPGRRTCVEFDNLIFKAGSSGDF 73

Query: 52  ETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIG 111
           E VR LLN R  + CFNT  TF F+TNT++  S L DL R L + D G+ RK +Y+TLI 
Sbjct: 74  EAVRRLLNSRVVNACFNTTATFKFLTNTDSYSSSLEDLRRILPQTDAGYTRKHSYETLIA 133

Query: 112 RLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSP 171
           RLCKL +ID+AL +++ MA G FGLS   FHPIL+ LT+  R+EEAW ++E+M+   +  
Sbjct: 134 RLCKLGRIDDALVLINDMAIGEFGLSTCVFHPILNTLTKKNRIEEAWRVVELMRSHAIPV 193

Query: 172 DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA---DARTYDALVLGACRAGRVEEAF 228
           D+T+YNY LT++C+ G++   S VL+KMEEE+ G    D RTYDALVLGAC++GRVE A 
Sbjct: 194 DVTSYNYFLTSHCYDGDVAEASRVLRKMEEEEEGVMSPDTRTYDALVLGACKSGRVEAAM 253

Query: 229 VLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKL 288
            +LRRM ++G SVLY+T+AHV+G ++  GYYA +V+FVM   G+D +LD E  GSL SKL
Sbjct: 254 AILRRMEEEGLSVLYATHAHVIGEMVESGYYALSVEFVMAYAGKDKRLDEENLGSLASKL 313

Query: 289 IGLERFNEANFILKEMNKRDLKMGFKLRDYYEINV 323
           I  +RF EA  +LKEM+ R L+MG  LR+++E NV
Sbjct: 314 IKRKRFKEAKMVLKEMSVRGLRMGDALREFHEKNV 348

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S733|PP196_ARATH Pentatricopeptide repeat-containing protein At2g40240, mitochondrial OS=Arabidopsis thaliana GN=At2g40240 PE=2 SV=1

 Score =  309 bits (792), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 161/328 (49%), Positives = 218/328 (66%), Gaps = 4/328 (1%)

Query: 1   MSLLR----KLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRY 56
           MSLLR    K     +    +L  RSF+     P    +  +D L+N AG   D ETVR 
Sbjct: 1   MSLLRRRFVKQSVNCITFLQILAERSFSTVKIPPGRRKTTEFDKLINEAGSSGDFETVRR 60

Query: 57  LLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKL 116
           LLN R     FNT++TF F+TNT +  S L DL R L ++D GF RK+AYD LI RLCKL
Sbjct: 61  LLNNRIVLGSFNTSDTFKFLTNTASYSSYLEDLRRVLPQIDGGFSRKNAYDILISRLCKL 120

Query: 117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY 176
            +ID+AL V+  M+ G  GL+  T+HPIL  LTR  ++EEAW ++E M+   VS D+TAY
Sbjct: 121 GRIDDALIVIGDMSNGRLGLTPSTYHPILCSLTRKYKIEEAWRVVESMRSKSVSMDVTAY 180

Query: 177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD 236
           NY LT++C+ G L + S V++K+EE+    D+R+YDALVLGACRAG+VE A  +LRRM +
Sbjct: 181 NYFLTSHCYDGELESASEVMRKIEEDGNSPDSRSYDALVLGACRAGKVEAAMAILRRMEE 240

Query: 237 DGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNE 296
           DG +VLYST+AHV+  L+  GYYA  ++FVM   G+D++LD+E FG L  KL+  +R+ E
Sbjct: 241 DGVTVLYSTHAHVITGLVEGGYYALGLEFVMAYAGKDLRLDSESFGFLAGKLVKRKRYEE 300

Query: 297 ANFILKEMNKRDLKMGFKLRDYYEINVK 324
           A  ++KEM  R L+MG +LR +YE NV+
Sbjct: 301 AMIVVKEMVMRGLRMGDELRQFYEGNVR 328

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKR3|PP404_ARATH Pentatricopeptide repeat-containing protein At5g38730 OS=Arabidopsis thaliana GN=At5g38730 PE=2 SV=1

 Score = 94.4 bits (233), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 62/204 (30%), Positives = 99/204 (48%)

Query: 106 YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMK 165
           Y TLI   C++  IDEALR+ ++M   GF    +T++ IL  L    R+ EA  L+  M 
Sbjct: 310 YTTLIDGYCRMNDIDEALRLREVMESRGFSPGVVTYNSILRKLCEDGRIREANRLLTEMS 369

Query: 166 EIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVE 225
             ++ PD    N L+ AYC   ++ +   V KKM E  L  D  +Y AL+ G C+   +E
Sbjct: 370 GKKIEPDNITCNTLINAYCKIEDMVSAVKVKKKMIESGLKLDMYSYKALIHGFCKVLELE 429

Query: 226 EAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLG 285
            A   L  M++ G S  Y+TY+ ++          +  K +     R +  D  L+  L 
Sbjct: 430 NAKEELFSMIEKGFSPGYATYSWLVDGFYNQNKQDEITKLLEEFEKRGLCADVALYRGLI 489

Query: 286 SKLIGLERFNEANFILKEMNKRDL 309
            ++  LE+ + A  + + M K+ L
Sbjct: 490 RRICKLEQVDYAKVLFESMEKKGL 513

Arabidopsis thaliana (taxid: 3702)

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

 Score = 92.4 bits (228), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 70/266 (26%), Positives = 119/266 (44%), Gaps = 5/266 (1%)

Query: 2   SLLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKR 61
           +L+  L  +  + ++  + R  T  G  PD  T   ++ L+      R+      L  + 
Sbjct: 370 TLISTLCKENQVEEATELARVLTSKGILPDVCT---FNSLIQGLCLTRNHRVAMELFEEM 426

Query: 62  ARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLD-KGFPRKS-AYDTLIGRLCKLKKI 119
               C     T+N + ++  S   L +    L +++  G  R    Y+TLI   CK  K 
Sbjct: 427 RSKGCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARSVITYNTLIDGFCKANKT 486

Query: 120 DEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYL 179
            EA  + D M   G   +++T++ ++  L + +R+E+A  LM+ M      PD   YN L
Sbjct: 487 REAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQKPDKYTYNSL 546

Query: 180 LTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQ 239
           LT +C  G++   + +++ M       D  TY  L+ G C+AGRVE A  LLR +   G 
Sbjct: 547 LTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLISGLCKAGRVEVASKLLRSIQMKGI 606

Query: 240 SVLYSTYAHVMGALLRLGYYAQAVKF 265
           ++    Y  V+  L R     +A+  
Sbjct: 607 NLTPHAYNPVIQGLFRKRKTTEAINL 632

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SFV9|PP218_ARATH Pentatricopeptide repeat-containing protein At3g07290, mitochondrial OS=Arabidopsis thaliana GN=At3g07290 PE=2 SV=1

 Score = 89.7 bits (221), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 65/224 (29%), Positives = 105/224 (46%), Gaps = 16/224 (7%)

Query: 76  ITNTENSLS---VLSDLCRTLARLDKGF------------PRKSAYDTLIGRLCKLKKID 120
           +T   NS+S   ++  LC  + RL++ F            P    Y  LI  LC    ID
Sbjct: 260 VTCAPNSVSYSILIHGLCE-VGRLEEAFGLKDQMGEKGCQPSTRTYTVLIKALCDRGLID 318

Query: 121 EALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLL 180
           +A  + D M   G   +  T+  ++  L R  ++EEA G+   M + R+ P +  YN L+
Sbjct: 319 KAFNLFDEMIPRGCKPNVHTYTVLIDGLCRDGKIEEANGVCRKMVKDRIFPSVITYNALI 378

Query: 181 TAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQS 240
             YC  G +     +L  ME+     + RT++ L+ G CR G+  +A  LL+RM+D+G S
Sbjct: 379 NGYCKDGRVVPAFELLTVMEKRACKPNVRTFNELMEGLCRVGKPYKAVHLLKRMLDNGLS 438

Query: 241 VLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSL 284
               +Y  ++  L R G+   A K +      DI+ D   F ++
Sbjct: 439 PDIVSYNVLIDGLCREGHMNTAYKLLSSMNCFDIEPDCLTFTAI 482

Arabidopsis thaliana (taxid: 3702)

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

 Score = 89.4 bits (220), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 69/278 (24%), Positives = 124/278 (44%), Gaps = 18/278 (6%)

Query: 3   LLRKLPTKFLIPQSVLVTR---SFTKSGAFPD-------------EPTSAYYDDLVNAAG 46
           L  ++  K L P SV  T     + K+G   D              P    Y  L++   
Sbjct: 408 LFHEMFCKGLEPDSVTFTELINGYCKAGHMKDAFRVHNHMIQAGCSPNVVTYTTLIDGLC 467

Query: 47  HERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDK-GFPRKSA 105
            E DL++   LL++  +        T+N I N       + +  + +   +  G    + 
Sbjct: 468 KEGDLDSANELLHEMWKIGLQPNIFTYNSIVNGLCKSGNIEEAVKLVGEFEAAGLNADTV 527

Query: 106 -YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVM 164
            Y TL+   CK  ++D+A  ++  M   G   + +TF+ +++       +E+   L+  M
Sbjct: 528 TYTTLMDAYCKSGEMDKAQEILKEMLGKGLQPTIVTFNVLMNGFCLHGMLEDGEKLLNWM 587

Query: 165 KEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRV 224
               ++P+ T +N L+  YC + NL A + + K M    +G D +TY+ LV G C+A  +
Sbjct: 588 LAKGIAPNATTFNSLVKQYCIRNNLKAATAIYKDMCSRGVGPDGKTYENLVKGHCKARNM 647

Query: 225 EEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQA 262
           +EA+ L + M   G SV  STY+ ++   L+   + +A
Sbjct: 648 KEAWFLFQEMKGKGFSVSVSTYSVLIKGFLKRKKFLEA 685

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZVX5|PP156_ARATH Pentatricopeptide repeat-containing protein At2g16880 OS=Arabidopsis thaliana GN=At2g16880 PE=2 SV=1

 Score = 87.4 bits (215), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 78/309 (25%), Positives = 146/309 (47%), Gaps = 9/309 (2%)

Query: 4   LRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRAR 63
           L + P+ F I  +  V     K G   +  T   ++ LVN    E  LE    +L +   
Sbjct: 176 LVRYPSSFSISSAREVFDDMVKIGVSLNVQT---FNVLVNGYCLEGKLEDALGMLERMVS 232

Query: 64  DCCFNTAN-TFNFITNTENSLSVLSDLCRTLARLDKG--FPRKSAYDTLIGRLCKLKKID 120
           +   N  N T+N I    +    LSDL   L  + K    P +  Y+ L+   CKL  + 
Sbjct: 233 EFKVNPDNVTYNTILKAMSKKGRLSDLKELLLDMKKNGLVPNRVTYNNLVYGYCKLGSLK 292

Query: 121 EALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLL 180
           EA ++V++M +        T++ +++ L     M E   LM+ MK +++ PD+  YN L+
Sbjct: 293 EAFQIVELMKQTNVLPDLCTYNILINGLCNAGSMREGLELMDAMKSLKLQPDVVTYNTLI 352

Query: 181 TAYCFKGNLTATS-GVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD-DG 238
              CF+  L+  +  ++++ME + + A+  T++  +   C+  + E     ++ +VD  G
Sbjct: 353 DG-CFELGLSLEARKLMEQMENDGVKANQVTHNISLKWLCKEEKREAVTRKVKELVDMHG 411

Query: 239 QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEAN 298
            S    TY  ++ A L++G  + A++ +   G + IK++T    ++   L    + +EA+
Sbjct: 412 FSPDIVTYHTLIKAYLKVGDLSGALEMMREMGQKGIKMNTITLNTILDALCKERKLDEAH 471

Query: 299 FILKEMNKR 307
            +L   +KR
Sbjct: 472 NLLNSAHKR 480

Arabidopsis thaliana (taxid: 3702)

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

 Score = 86.7 bits (213), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 71/277 (25%), Positives = 120/277 (43%), Gaps = 2/277 (0%)

Query: 33  PTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRT 92
           PT   ++ L +A    +  E V  L  +       ++  T + + N       LS    T
Sbjct: 86  PTVIDFNRLFSAIAKTKQYELVLALCKQMESKGIAHSIYTLSIMINCFCRCRKLSYAFST 145

Query: 93  LARLDK-GF-PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR 150
           + ++ K G+ P    ++TL+  LC   ++ EAL +VD M E G   + IT + +++ L  
Sbjct: 146 MGKIMKLGYEPDTVIFNTLLNGLCLECRVSEALELVDRMVEMGHKPTLITLNTLVNGLCL 205

Query: 151 GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADART 210
             ++ +A  L++ M E    P+   Y  +L   C  G       +L+KMEE  +  DA  
Sbjct: 206 NGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVMCKSGQTALAMELLRKMEERNIKLDAVK 265

Query: 211 YDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCG 270
           Y  ++ G C+ G ++ AF L   M   G      TY  ++G     G +    K +    
Sbjct: 266 YSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMI 325

Query: 271 GRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKR 307
            R I  +   F  L    +   +  EA+ +LKEM +R
Sbjct: 326 KRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQR 362

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SR00|PP213_ARATH Pentatricopeptide repeat-containing protein At3g04760, chloroplastic OS=Arabidopsis thaliana GN=At3g04760 PE=2 SV=1

 Score = 85.1 bits (209), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 66/261 (25%), Positives = 112/261 (42%), Gaps = 29/261 (11%)

Query: 33  PTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITN-------TENSLSV 85
           P +  Y+ ++ +      L+    +LN+   D C  T  T+  +          + +L +
Sbjct: 191 PDTVTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTVITYTILIEATMLEGGVDEALKL 250

Query: 86  LSDLCRTLARLDKGF-PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPI 144
           + ++      L +G  P    Y+T+I  +CK   +D A  +V  +   G     I+++ +
Sbjct: 251 MDEM------LSRGLKPDMFTYNTIIRGMCKEGMVDRAFEMVRNLELKGCEPDVISYNIL 304

Query: 145 LSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKL 204
           L  L    + EE   LM  M   +  P++  Y+ L+T  C  G +     +LK M+E+ L
Sbjct: 305 LRALLNQGKWEEGEKLMTKMFSEKCDPNVVTYSILITTLCRDGKIEEAMNLLKLMKEKGL 364

Query: 205 GADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVK 264
             DA +YD L+   CR GR++ A   L  M+ DG       Y  V+  L + G   QA+ 
Sbjct: 365 TPDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDIVNYNTVLATLCKNGKADQAL- 423

Query: 265 FVMVCGGRDIKLDTELFGSLG 285
                         E+FG LG
Sbjct: 424 --------------EIFGKLG 430

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ16|PPR94_ARATH Pentatricopeptide repeat-containing protein At1g62910 OS=Arabidopsis thaliana GN=At1g62910 PE=2 SV=1

 Score = 84.7 bits (208), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 69/279 (24%), Positives = 123/279 (44%), Gaps = 2/279 (0%)

Query: 33  PTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRT 92
           P+   ++ L++A       E V  L  +       +   T++   N     S LS     
Sbjct: 81  PSIVEFNKLLSAVAKMNKFELVISLGEQMQTLGISHDLYTYSIFINCFCRRSQLSLALAV 140

Query: 93  LARLDK-GF-PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR 150
           LA++ K G+ P      +L+   C  K+I +A+ +VD M E G+     TF  ++  L  
Sbjct: 141 LAKMMKLGYEPDIVTLSSLLNGYCHSKRISDAVALVDQMVEMGYKPDTFTFTTLIHGLFL 200

Query: 151 GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADART 210
             +  EA  L++ M +    PDL  Y  ++   C +G++     +LKKME+ K+ AD   
Sbjct: 201 HNKASEAVALVDQMVQRGCQPDLVTYGTVVNGLCKRGDIDLALSLLKKMEKGKIEADVVI 260

Query: 211 YDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCG 270
           Y+ ++ G C+   +++A  L   M + G      TY+ ++  L   G ++ A + +    
Sbjct: 261 YNTIIDGLCKYKHMDDALNLFTEMDNKGIRPDVFTYSSLISCLCNYGRWSDASRLLSDMI 320

Query: 271 GRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDL 309
            R I  +   F +L    +   +  EA  +  EM KR +
Sbjct: 321 ERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSI 359

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	324
255542538	619	pentatricopeptide repeat-containing prot	1.0	0.523	0.645	1e-118
147805136	330	hypothetical protein VITISV_037919 [Viti	0.990	0.972	0.609	1e-110
359486490	613	PREDICTED: uncharacterized protein LOC10	0.910	0.481	0.631	1e-104
297736579	527	unnamed protein product [Vitis vinifera]	0.907	0.557	0.626	1e-102
145339555	351	pentatricopeptide repeat-containing prot	0.990	0.914	0.498	1e-83
7573498	336	putative protein [Arabidopsis thaliana]	0.990	0.955	0.498	1e-83
15225665	351	pentatricopeptide repeat-containing prot	1.0	0.923	0.490	1e-81
297816928	334	hypothetical protein ARALYDRAFT_486042 [	0.990	0.961	0.486	2e-80
297823947	338	pentatricopeptide repeat-containing prot	1.0	0.958	0.472	4e-78
356529368	332	PREDICTED: pentatricopeptide repeat-cont	0.987	0.963	0.472	5e-75

>gi|255542538|ref|XP_002512332.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223548293|gb|EEF49784.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  429 bits (1104), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 213/330 (64%), Positives = 252/330 (76%), Gaps = 6/330 (1%)

Query: 1   MSLLRKLPTKFLIPQSVL--VTRSFT----KSGAFPDEPTSAYYDDLVNAAGHERDLETV 54
           +   RKL    L  QS+L   TR FT    K  +FPD+PT+AYYD LVNAAGHERD +T+
Sbjct: 287 LPFFRKLHHMPLNSQSILSLTTRCFTTQNDKLNSFPDKPTAAYYDGLVNAAGHERDFKTL 346

Query: 55  RYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLC 114
            +LLNKR RD CFNT NTF FITNT+NSLSVL DL +TLARLDKG PR SAY+ LI RLC
Sbjct: 347 HHLLNKRVRDHCFNTTNTFKFITNTDNSLSVLDDLIQTLARLDKGIPRMSAYNMLIARLC 406

Query: 115 KLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLT 174
           KL +I E+L +V IMA+  +GLS  +FHPILS LT+ K+ME++W ++E+M+ I V PDLT
Sbjct: 407 KLDRIQESLHIVHIMADEQYGLSTCSFHPILSSLTQKKKMEDSWKVIEMMRAIGVLPDLT 466

Query: 175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRM 234
           A+NYLLTAYC+ GNL     V+K++EEE LGADARTYDALVLGACR G+VE A V+LRRM
Sbjct: 467 AFNYLLTAYCYNGNLVDACKVMKRIEEEGLGADARTYDALVLGACRTGKVEAALVVLRRM 526

Query: 235 VDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERF 294
           VDDG  VLYST+ HV+ ALLRLG Y QA KFVM+ GGRDI  DTE+FG L SKLI LERF
Sbjct: 527 VDDGVHVLYSTHVHVINALLRLGCYVQATKFVMIFGGRDIAFDTEIFGILASKLIKLERF 586

Query: 295 NEANFILKEMNKRDLKMGFKLRDYYEINVK 324
            EA  +LKEM +R L MG KLRDY  +NVK
Sbjct: 587 EEAKLVLKEMEERGLVMGDKLRDYCYVNVK 616

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147805136|emb|CAN73347.1| hypothetical protein VITISV_037919 [Vitis vinifera]

 Score =  404 bits (1037), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 200/328 (60%), Positives = 250/328 (76%), Gaps = 7/328 (2%)

Query: 1   MSLLRKLPTKFLIPQSVLV----TRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRY 56
           MS+LRKL  K   P S  +    +R F      P EPT AYYD+L+N AG  RD  +V  
Sbjct: 1   MSILRKLARKN--PNSPFLLCNTSRFFNTQNPNPYEPTVAYYDNLINTAGRNRDFASVCN 58

Query: 57  LLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKL 116
           LLNKR RD CFNT +TF+FITNT+  LSVL +L + LA LDKGF RKSAYD+LI RLC+L
Sbjct: 59  LLNKRVRDGCFNTNHTFDFITNTDAGLSVLDELSQALAHLDKGFXRKSAYDSLIARLCRL 118

Query: 117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY 176
           K++DE+LR+VD M +   G++A TFHPIL+VLTR ++MEEAW +M +M+E  VSPD+TAY
Sbjct: 119 KRVDESLRLVDTMVQSDHGVNACTFHPILNVLTRKRKMEEAWRVMTIMRESGVSPDVTAY 178

Query: 177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD 236
           NYLLTAYCF GNL A  GVL +MEEE + ADARTYDALVLGAC+AG+VE A V+LRRM D
Sbjct: 179 NYLLTAYCFTGNLEAAVGVLTEMEEEGMAADARTYDALVLGACKAGKVEGAMVVLRRMED 238

Query: 237 DGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNE 296
           DG  +LYST+AHV+  LL+LGYYAQAV+FVM+CGG+D KLD E FG LGS+LI L+RF E
Sbjct: 239 DGVPILYSTHAHVINGLLKLGYYAQAVEFVMICGGKDKKLDEESFGILGSRLINLKRFEE 298

Query: 297 ANFILKEMNKRDLKM-GFKLRDYYEINV 323
           A  +LKEM +R + M   +L+D+YE+++
Sbjct: 299 AKLVLKEMRRRGIVMRSNELQDFYELHI 326

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486490|ref|XP_002272959.2| PREDICTED: uncharacterized protein LOC100251820 [Vitis vinifera]

 Score =  384 bits (987), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 190/301 (63%), Positives = 231/301 (76%), Gaps = 6/301 (1%)

Query: 1   MSLLRKLPTKFLIPQSVLV----TRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRY 56
           MS+LRKL  K   P S  +    +R F      P EPT AYYD+L+N AG  RD  +V  
Sbjct: 1   MSILRKLARKN--PNSPFLLCNTSRFFNTQNPNPYEPTVAYYDNLINTAGRNRDFASVCN 58

Query: 57  LLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKL 116
           LLNKR RD CFNT +TF+FITNT+  LSVL +L + LA LDKGF RKSAYD+LI RLC+L
Sbjct: 59  LLNKRVRDGCFNTNHTFDFITNTDAGLSVLDELSQALAHLDKGFLRKSAYDSLIARLCRL 118

Query: 117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY 176
           K++DE+LR+VD M +   G++A TFHPIL+VLTR ++MEEAW +M +M+E  VSPD+TAY
Sbjct: 119 KRVDESLRLVDTMVQSDHGVNACTFHPILNVLTRKRKMEEAWRVMTIMRESGVSPDVTAY 178

Query: 177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD 236
           NYLLTAYCF GNL A  GVL +MEEE + ADARTYDALVLGAC+AG+VE A V+LRRM D
Sbjct: 179 NYLLTAYCFTGNLEAAVGVLTEMEEEGMAADARTYDALVLGACKAGKVEGAMVVLRRMED 238

Query: 237 DGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNE 296
           DG  +LYST+AHV+  LL+LGYYAQAV+FVM+CGG+D KLD E FG LGS+LI L+RF E
Sbjct: 239 DGVPILYSTHAHVINGLLKLGYYAQAVEFVMICGGKDKKLDEESFGILGSRLINLKRFEE 298

Query: 297 A 297
           A
Sbjct: 299 A 299

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297736579|emb|CBI25450.3| unnamed protein product [Vitis vinifera]

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 188/300 (62%), Positives = 229/300 (76%), Gaps = 6/300 (2%)

Query: 1   MSLLRKLPTKFLIPQSVLV----TRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRY 56
           MS+LRKL  K   P S  +    +R F      P EPT AYYD+L+N AG  RD  +V  
Sbjct: 1   MSILRKLARKN--PNSPFLLCNTSRFFNTQNPNPYEPTVAYYDNLINTAGRNRDFASVCN 58

Query: 57  LLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKL 116
           LLNKR RD CFNT +TF+FITNT+  LSVL +L + LA LDKGF RKSAYD+LI RLC+L
Sbjct: 59  LLNKRVRDGCFNTNHTFDFITNTDAGLSVLDELSQALAHLDKGFLRKSAYDSLIARLCRL 118

Query: 117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY 176
           K++DE+LR+VD M +   G++A TFHPIL+VLTR ++MEEAW +M +M+E  VSPD+TAY
Sbjct: 119 KRVDESLRLVDTMVQSDHGVNACTFHPILNVLTRKRKMEEAWRVMTIMRESGVSPDVTAY 178

Query: 177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD 236
           NYLLTAYCF GNL A  GVL +MEEE + ADARTYDALVLGAC+AG+VE A V+LRRM D
Sbjct: 179 NYLLTAYCFTGNLEAAVGVLTEMEEEGMAADARTYDALVLGACKAGKVEGAMVVLRRMED 238

Query: 237 DGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNE 296
           DG  +LYST+AHV+  LL+LGYYAQAV+FVM+CGG+D KLD E FG LGS+LI L+R  E
Sbjct: 239 DGVPILYSTHAHVINGLLKLGYYAQAVEFVMICGGKDKKLDEESFGILGSRLINLKRTME 298

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|145339555|ref|NP_191162.2| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|218546756|sp|Q9LY43.2|PP283_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At3g56030 gi|332645947|gb|AEE79468.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  315 bits (808), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 167/335 (49%), Positives = 227/335 (67%), Gaps = 14/335 (4%)

Query: 1   MSLLRKL-----PTKFLIPQSVLVTRSFT----KSGAFPDEPTSAYYDDLVNAAGHERDL 51
           MSLLR+       ++FL+ QS+   RSF+       A P   T   +D+L+  AG   D 
Sbjct: 16  MSLLRRFVKEANNSRFLL-QSI-SGRSFSTVNPNPTASPGRRTCVEFDNLIFKAGSSGDF 73

Query: 52  ETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIG 111
           E VR LLN R  + CFNT  TF F+TNT++  S L DL R L + D G+ RK +Y+TLI 
Sbjct: 74  EAVRRLLNSRVVNACFNTTATFKFLTNTDSYSSSLEDLRRILPQTDAGYTRKHSYETLIA 133

Query: 112 RLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSP 171
           RLCKL +ID+AL +++ MA G FGLS   FHPIL+ LT+  R+EEAW ++E+M+   +  
Sbjct: 134 RLCKLGRIDDALVLINDMAIGEFGLSTCVFHPILNTLTKKNRIEEAWRVVELMRSHAIPV 193

Query: 172 DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA---DARTYDALVLGACRAGRVEEAF 228
           D+T+YNY LT++C+ G++   S VL+KMEEE+ G    D RTYDALVLGAC++GRVE A 
Sbjct: 194 DVTSYNYFLTSHCYDGDVAEASRVLRKMEEEEEGVMSPDTRTYDALVLGACKSGRVEAAM 253

Query: 229 VLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKL 288
            +LRRM ++G SVLY+T+AHV+G ++  GYYA +V+FVM   G+D +LD E  GSL SKL
Sbjct: 254 AILRRMEEEGLSVLYATHAHVIGEMVESGYYALSVEFVMAYAGKDKRLDEENLGSLASKL 313

Query: 289 IGLERFNEANFILKEMNKRDLKMGFKLRDYYEINV 323
           I  +RF EA  +LKEM+ R L+MG  LR+++E NV
Sbjct: 314 IKRKRFKEAKMVLKEMSVRGLRMGDALREFHEKNV 348

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|7573498|emb|CAB87857.1| putative protein [Arabidopsis thaliana] gi|26450191|dbj|BAC42214.1| unknown protein [Arabidopsis thaliana] gi|114050667|gb|ABI49483.1| At3g56030 [Arabidopsis thaliana]

 Score =  315 bits (808), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 167/335 (49%), Positives = 227/335 (67%), Gaps = 14/335 (4%)

Query: 1   MSLLRKL-----PTKFLIPQSVLVTRSFT----KSGAFPDEPTSAYYDDLVNAAGHERDL 51
           MSLLR+       ++FL+ QS+   RSF+       A P   T   +D+L+  AG   D 
Sbjct: 1   MSLLRRFVKEANNSRFLL-QSI-SGRSFSTVNPNPTASPGRRTCVEFDNLIFKAGSSGDF 58

Query: 52  ETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIG 111
           E VR LLN R  + CFNT  TF F+TNT++  S L DL R L + D G+ RK +Y+TLI 
Sbjct: 59  EAVRRLLNSRVVNACFNTTATFKFLTNTDSYSSSLEDLRRILPQTDAGYTRKHSYETLIA 118

Query: 112 RLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSP 171
           RLCKL +ID+AL +++ MA G FGLS   FHPIL+ LT+  R+EEAW ++E+M+   +  
Sbjct: 119 RLCKLGRIDDALVLINDMAIGEFGLSTCVFHPILNTLTKKNRIEEAWRVVELMRSHAIPV 178

Query: 172 DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA---DARTYDALVLGACRAGRVEEAF 228
           D+T+YNY LT++C+ G++   S VL+KMEEE+ G    D RTYDALVLGAC++GRVE A 
Sbjct: 179 DVTSYNYFLTSHCYDGDVAEASRVLRKMEEEEEGVMSPDTRTYDALVLGACKSGRVEAAM 238

Query: 229 VLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKL 288
            +LRRM ++G SVLY+T+AHV+G ++  GYYA +V+FVM   G+D +LD E  GSL SKL
Sbjct: 239 AILRRMEEEGLSVLYATHAHVIGEMVESGYYALSVEFVMAYAGKDKRLDEENLGSLASKL 298

Query: 289 IGLERFNEANFILKEMNKRDLKMGFKLRDYYEINV 323
           I  +RF EA  +LKEM+ R L+MG  LR+++E NV
Sbjct: 299 IKRKRFKEAKMVLKEMSVRGLRMGDALREFHEKNV 333

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15225665|ref|NP_181553.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75265350|sp|Q9S733.1|PP196_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At2g40240, mitochondrial; Flags: Precursor gi|4587998|gb|AAD25939.1|AF085279_12 hypothetical protein [Arabidopsis thaliana] gi|4586041|gb|AAD25659.1| hypothetical protein [Arabidopsis thaliana] gi|28393486|gb|AAO42164.1| unknown protein [Arabidopsis thaliana] gi|28973567|gb|AAO64108.1| unknown protein [Arabidopsis thaliana] gi|110737021|dbj|BAF00465.1| hypothetical protein [Arabidopsis thaliana] gi|330254707|gb|AEC09801.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  309 bits (792), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 161/328 (49%), Positives = 218/328 (66%), Gaps = 4/328 (1%)

Query: 1   MSLLR----KLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRY 56
           MSLLR    K     +    +L  RSF+     P    +  +D L+N AG   D ETVR 
Sbjct: 1   MSLLRRRFVKQSVNCITFLQILAERSFSTVKIPPGRRKTTEFDKLINEAGSSGDFETVRR 60

Query: 57  LLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKL 116
           LLN R     FNT++TF F+TNT +  S L DL R L ++D GF RK+AYD LI RLCKL
Sbjct: 61  LLNNRIVLGSFNTSDTFKFLTNTASYSSYLEDLRRVLPQIDGGFSRKNAYDILISRLCKL 120

Query: 117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY 176
            +ID+AL V+  M+ G  GL+  T+HPIL  LTR  ++EEAW ++E M+   VS D+TAY
Sbjct: 121 GRIDDALIVIGDMSNGRLGLTPSTYHPILCSLTRKYKIEEAWRVVESMRSKSVSMDVTAY 180

Query: 177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD 236
           NY LT++C+ G L + S V++K+EE+    D+R+YDALVLGACRAG+VE A  +LRRM +
Sbjct: 181 NYFLTSHCYDGELESASEVMRKIEEDGNSPDSRSYDALVLGACRAGKVEAAMAILRRMEE 240

Query: 237 DGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNE 296
           DG +VLYST+AHV+  L+  GYYA  ++FVM   G+D++LD+E FG L  KL+  +R+ E
Sbjct: 241 DGVTVLYSTHAHVITGLVEGGYYALGLEFVMAYAGKDLRLDSESFGFLAGKLVKRKRYEE 300

Query: 297 ANFILKEMNKRDLKMGFKLRDYYEINVK 324
           A  ++KEM  R L+MG +LR +YE NV+
Sbjct: 301 AMIVVKEMVMRGLRMGDELRQFYEGNVR 328

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297816928|ref|XP_002876347.1| hypothetical protein ARALYDRAFT_486042 [Arabidopsis lyrata subsp. lyrata] gi|297322185|gb|EFH52606.1| hypothetical protein ARALYDRAFT_486042 [Arabidopsis lyrata subsp. lyrata]

 Score =  305 bits (780), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 162/333 (48%), Positives = 225/333 (67%), Gaps = 12/333 (3%)

Query: 1   MSLLRKL-----PTKFLIPQSVLVTRSFT----KSGAFPDEPTSAYYDDLVNAAGHERDL 51
           M+LLR+       ++FL+ QS+   RSF+       A P   T   +D+L+  AG+  D 
Sbjct: 1   MALLRRFVKEANNSRFLL-QSI-SGRSFSTVNPNPTASPGRRTCVEFDNLIYEAGNSGDF 58

Query: 52  ETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIG 111
           E VR LLN R  + CFNT  TF F+TNT++  S L DL R L + + G+ RK AY+TLI 
Sbjct: 59  EAVRRLLNSRVVNACFNTTATFKFLTNTDSYSSSLEDLRRILPQTEAGYTRKHAYETLIA 118

Query: 112 RLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSP 171
           RLCKL +ID+AL +++ MA G F LS   FHPIL+ LT+  + EEAW + E+M+   +  
Sbjct: 119 RLCKLGRIDDALVLINDMAIGKFELSTSIFHPILNTLTKKNKFEEAWRVAELMRSHAIPM 178

Query: 172 DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK-LGADARTYDALVLGACRAGRVEEAFVL 230
           D+T+YNY LT++C++G++   S VL+K+EEE  +  D RTYDALVLGAC++G VE A V+
Sbjct: 179 DVTSYNYFLTSHCYEGDVAEASKVLRKLEEEGVMSPDTRTYDALVLGACKSGNVEAAMVI 238

Query: 231 LRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIG 290
           LRRM ++G SVLY+T+A+V+G LL  GYYA +V+FVM   G+D +LD E  GSL SKLI 
Sbjct: 239 LRRMEEEGLSVLYATHAYVIGELLESGYYALSVEFVMAYAGKDKRLDEENLGSLASKLIK 298

Query: 291 LERFNEANFILKEMNKRDLKMGFKLRDYYEINV 323
            +RF EA  +LKEM+ R L+MG  LR++++ NV
Sbjct: 299 RKRFKEAKLVLKEMSVRGLRMGDALREFHDTNV 331

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297823947|ref|XP_002879856.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297325695|gb|EFH56115.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  297 bits (761), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 155/328 (47%), Positives = 212/328 (64%), Gaps = 4/328 (1%)

Query: 1   MSLLR----KLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRY 56
           MSLLR    K P        +L  RSF+          +  +D L+N AG   D ETVR 
Sbjct: 1   MSLLRRRFLKQPVNSRTFLHILADRSFSTVKIPSGRRKTTEFDKLINEAGSSGDFETVRR 60

Query: 57  LLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKL 116
           LLN R     FNT+ TF F+TNT +  S L D+ R L ++D GF RK+AYD LI RLCKL
Sbjct: 61  LLNNRIVLGSFNTSETFKFLTNTVSYSSALEDIRRVLPQIDGGFSRKNAYDILISRLCKL 120

Query: 117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY 176
            +I++AL V+  M+ G   L+  TFHPIL  LTR  +++EAW ++E M+   V  D+TAY
Sbjct: 121 GRINDALIVIGDMSNGRLSLTPSTFHPILCSLTRKNKIDEAWRVVESMRSKSVPMDVTAY 180

Query: 177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD 236
           NY LT++C+ G + + S V++K+EE+ +  D+R+YDALVLGACRAG+VE A  +LRRM +
Sbjct: 181 NYFLTSHCYDGEMESASEVMRKIEEDGISTDSRSYDALVLGACRAGKVEAAMAILRRMEE 240

Query: 237 DGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNE 296
           D  +VLYST+AHV+  L+  GYYA  ++FVM   G+D+ LD E FG L  KL+  +RF E
Sbjct: 241 DCVTVLYSTHAHVIAGLVEGGYYALGLEFVMAYAGKDLGLDGESFGFLAGKLVKRKRFEE 300

Query: 297 ANFILKEMNKRDLKMGFKLRDYYEINVK 324
           A  ++KEM  R L+MG +LR ++E NV+
Sbjct: 301 AKIVVKEMVMRGLRMGDELRQFFEGNVR 328

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356529368|ref|XP_003533266.1| PREDICTED: pentatricopeptide repeat-containing protein At2g40240, mitochondrial-like [Glycine max]

 Score =  287 bits (734), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 153/324 (47%), Positives = 215/324 (66%), Gaps = 4/324 (1%)

Query: 1   MSLLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNK 60
           MS LRK P K L       T    K   FPD+PT+AYYD L  AAG   D   +R +LNK
Sbjct: 1   MSFLRKSPNKTLTTLRRFATTLAAKP--FPDDPTAAYYDQLAFAAGDSGDFHALRDVLNK 58

Query: 61  RARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKID 120
           R +D   NT  TFNF+ +T  S SV+ +L +TL+ L++G  R+SA D+L+ RLCKL++ D
Sbjct: 59  RIQDGFLNTKITFNFLKDTNFSPSVIDNLVQTLSHLNQGATRRSALDSLVTRLCKLRRAD 118

Query: 121 EALRVVDIMAEGGF-GLSAITFHPILSVLTRG-KRMEEAWGLMEVMKEIRVSPDLTAYNY 178
           EALRV+D +A       +A TF+P+L  LTR  K ++ A  +++ M  + ++ D+TA+N 
Sbjct: 119 EALRVIDSLARDNVCAPAACTFYPVLKCLTREEKSLDHARRVVDHMARLGIALDVTAHNI 178

Query: 179 LLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDG 238
            L A+C+ G L A +GVLK+MEE+ +GAD RT+DALVLGACRAG+VE A V++RRMVDDG
Sbjct: 179 FLMAHCYAGELDAAAGVLKRMEEDGVGADPRTFDALVLGACRAGKVEGAMVVVRRMVDDG 238

Query: 239 QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEAN 298
             +LYST+  ++G LL++  Y  A+K+V V  G+D  LD+EL G L  KL+ L+R  E  
Sbjct: 239 VPMLYSTHMCIIGTLLKMKCYELAMKYVRVFVGKDKLLDSELLGCLACKLVNLKRVKEGM 298

Query: 299 FILKEMNKRDLKMGFKLRDYYEIN 322
            +L+EM ++ + MG KL  +YE+N
Sbjct: 299 SVLEEMKQKGVPMGHKLNKFYEMN 322

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	324
TAIR|locus:2082023	351	AT3G56030 "AT3G56030" [Arabido	0.990	0.914	0.471	5.3e-72
TAIR|locus:2063053	351	AT2G40240 "AT2G40240" [Arabido	1.0	0.923	0.463	8.9e-70
TAIR|locus:2166610	596	AT5G38730 "AT5G38730" [Arabido	0.629	0.342	0.303	2.2e-19
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.799	0.343	0.257	2.4e-15
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.691	0.347	0.274	2.4e-15
TAIR|locus:2098495	880	AT3G07290 "AT3G07290" [Arabido	0.580	0.213	0.306	5.5e-15
TAIR|locus:2827891	463	AT2G17670 [Arabidopsis thalian	0.679	0.475	0.278	7.6e-15
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.654	0.283	0.274	1.1e-14
TAIR|locus:2034760	637	AT1G12300 [Arabidopsis thalian	0.682	0.346	0.274	1.5e-14
TAIR|locus:2039415	743	AT2G16880 "AT2G16880" [Arabido	0.682	0.297	0.256	2.7e-14

TAIR|locus:2082023 AT3G56030 "AT3G56030" [Arabidopsis thaliana (taxid:3702)]

 Score = 728 (261.3 bits), Expect = 5.3e-72, P = 5.3e-72
 Identities = 158/335 (47%), Positives = 217/335 (64%)

Query:     1 MSLLRKLP-----TKFLIPQSVLVTRSFTKSG----AFPDEPTSAYYDDLVNAAGHERDL 51
             MSLLR+       ++FL+ QS+   RSF+       A P   T   +D+L+  AG   D 
Sbjct:    16 MSLLRRFVKEANNSRFLL-QSIS-GRSFSTVNPNPTASPGRRTCVEFDNLIFKAGSSGDF 73

Query:    52 ETVRYLLNKRARDCCXXXXXXXXXXXXXENSLSVLSDLCRTLARLDKGFPRKSAYDTLIG 111
             E VR LLN R  + C             ++  S L DL R L + D G+ RK +Y+TLI 
Sbjct:    74 EAVRRLLNSRVVNACFNTTATFKFLTNTDSYSSSLEDLRRILPQTDAGYTRKHSYETLIA 133

Query:   112 RLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSP 171
             RLCKL +ID+AL +++ MA G FGLS   FHPIL+ LT+  R+EEAW ++E+M+   +  
Sbjct:   134 RLCKLGRIDDALVLINDMAIGEFGLSTCVFHPILNTLTKKNRIEEAWRVVELMRSHAIPV 193

Query:   172 DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA---DARTYDALVLGACRAGRVEEAF 228
             D+T+YNY LT++C+ G++   S VL+KMEEE+ G    D RTYDALVLGAC++GRVE A 
Sbjct:   194 DVTSYNYFLTSHCYDGDVAEASRVLRKMEEEEEGVMSPDTRTYDALVLGACKSGRVEAAM 253

Query:   229 VLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKL 288
              +LRRM ++G SVLY+T+AHV+G ++  GYYA +V+FVM   G+D +LD E  GSL SKL
Sbjct:   254 AILRRMEEEGLSVLYATHAHVIGEMVESGYYALSVEFVMAYAGKDKRLDEENLGSLASKL 313

Query:   289 IGLERFNEANFILKEMNKRDLKMGFKLRDYYEINV 323
             I  +RF EA  +LKEM+ R L+MG  LR+++E NV
Sbjct:   314 IKRKRFKEAKMVLKEMSVRGLRMGDALREFHEKNV 348

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2063053 AT2G40240 "AT2G40240" [Arabidopsis thaliana (taxid:3702)]

 Score = 707 (253.9 bits), Expect = 8.9e-70, P = 8.9e-70
 Identities = 152/328 (46%), Positives = 207/328 (63%)

Query:     1 MSLLRKLPTKFLIP----QSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRY 56
             MSLLR+   K  +       +L  RSF+     P    +  +D L+N AG   D ETVR 
Sbjct:     1 MSLLRRRFVKQSVNCITFLQILAERSFSTVKIPPGRRKTTEFDKLINEAGSSGDFETVRR 60

Query:    57 LLNKRARDCCXXXXXXXXXXXXXENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKL 116
             LLN R                   +  S L DL R L ++D GF RK+AYD LI RLCKL
Sbjct:    61 LLNNRIVLGSFNTSDTFKFLTNTASYSSYLEDLRRVLPQIDGGFSRKNAYDILISRLCKL 120

Query:   117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY 176
              +ID+AL V+  M+ G  GL+  T+HPIL  LTR  ++EEAW ++E M+   VS D+TAY
Sbjct:   121 GRIDDALIVIGDMSNGRLGLTPSTYHPILCSLTRKYKIEEAWRVVESMRSKSVSMDVTAY 180

Query:   177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD 236
             NY LT++C+ G L + S V++K+EE+    D+R+YDALVLGACRAG+VE A  +LRRM +
Sbjct:   181 NYFLTSHCYDGELESASEVMRKIEEDGNSPDSRSYDALVLGACRAGKVEAAMAILRRMEE 240

Query:   237 DGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNE 296
             DG +VLYST+AHV+  L+  GYYA  ++FVM   G+D++LD+E FG L  KL+  +R+ E
Sbjct:   241 DGVTVLYSTHAHVITGLVEGGYYALGLEFVMAYAGKDLRLDSESFGFLAGKLVKRKRYEE 300

Query:   297 ANFILKEMNKRDLKMGFKLRDYYEINVK 324
             A  ++KEM  R L+MG +LR +YE NV+
Sbjct:   301 AMIVVKEMVMRGLRMGDELRQFYEGNVR 328

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2166610 AT5G38730 "AT5G38730" [Arabidopsis thaliana (taxid:3702)]

 Score = 240 (89.5 bits), Expect = 2.2e-19, P = 2.2e-19
 Identities = 62/204 (30%), Positives = 99/204 (48%)

Query:   106 YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMK 165
             Y TLI   C++  IDEALR+ ++M   GF    +T++ IL  L    R+ EA  L+  M 
Sbjct:   310 YTTLIDGYCRMNDIDEALRLREVMESRGFSPGVVTYNSILRKLCEDGRIREANRLLTEMS 369

Query:   166 EIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVE 225
               ++ PD    N L+ AYC   ++ +   V KKM E  L  D  +Y AL+ G C+   +E
Sbjct:   370 GKKIEPDNITCNTLINAYCKIEDMVSAVKVKKKMIESGLKLDMYSYKALIHGFCKVLELE 429

Query:   226 EAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLG 285
              A   L  M++ G S  Y+TY+ ++          +  K +     R +  D  L+  L 
Sbjct:   430 NAKEELFSMIEKGFSPGYATYSWLVDGFYNQNKQDEITKLLEEFEKRGLCADVALYRGLI 489

Query:   286 SKLIGLERFNEANFILKEMNKRDL 309
              ++  LE+ + A  + + M K+ L
Sbjct:   490 RRICKLEQVDYAKVLFESMEKKGL 513

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 216 (81.1 bits), Expect = 2.4e-15, P = 2.4e-15
 Identities = 68/264 (25%), Positives = 113/264 (42%)

Query:     2 SLLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKR 61
             +L+  L  +  + ++  + R  T  G  PD  T   ++ L+      R+      L  + 
Sbjct:   370 TLISTLCKENQVEEATELARVLTSKGILPDVCT---FNSLIQGLCLTRNHRVAMELFEEM 426

Query:    62 ARDCCXXXXXXXXXXXXXENSLSVLSDLCRTLARLD-KGFPRKS-AYDTLIGRLCKLKKI 119
                 C               S   L +    L +++  G  R    Y+TLI   CK  K 
Sbjct:   427 RSKGCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARSVITYNTLIDGFCKANKT 486

Query:   120 DEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYL 179
              EA  + D M   G   +++T++ ++  L + +R+E+A  LM+ M      PD   YN L
Sbjct:   487 REAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQKPDKYTYNSL 546

Query:   180 LTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQ 239
             LT +C  G++   + +++ M       D  TY  L+ G C+AGRVE A  LLR +   G 
Sbjct:   547 LTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLISGLCKAGRVEVASKLLRSIQMKGI 606

Query:   240 SVLYSTYAHVMGALLRLGYYAQAV 263
             ++    Y  V+  L R     +A+
Sbjct:   607 NLTPHAYNPVIQGLFRKRKTTEAI 630

GO:0005739 "mitochondrion" evidence=ISM

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

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

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

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

GO:0048481 "ovule development" evidence=RCA

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

 Score = 215 (80.7 bits), Expect = 2.4e-15, P = 2.4e-15
 Identities = 62/226 (27%), Positives = 103/226 (45%)

Query:    86 LSDLCRTLARLDK-GF-PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHP 143
             LS    T+ ++ K G+ P    ++TL+  LC   ++ EAL +VD M E G   + IT + 
Sbjct:   139 LSYAFSTMGKIMKLGYEPDTVIFNTLLNGLCLECRVSEALELVDRMVEMGHKPTLITLNT 198

Query:   144 ILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK 203
             +++ L    ++ +A  L++ M E    P+   Y  +L   C  G       +L+KMEE  
Sbjct:   199 LVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVMCKSGQTALAMELLRKMEERN 258

Query:   204 LGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAV 263
             +  DA  Y  ++ G C+ G ++ AF L   M   G      TY  ++G     G +    
Sbjct:   259 IKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGA 318

Query:   264 KFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDL 309
             K +     R I  +   F  L    +   +  EA+ +LKEM +R +
Sbjct:   319 KLLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGI 364

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 214 (80.4 bits), Expect = 5.5e-15, P = 5.5e-15
 Identities = 58/189 (30%), Positives = 92/189 (48%)

Query:    97 DKGF-PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRME 155
             +KG  P    Y  LI  LC    ID+A  + D M   G   +  T+  ++  L R  ++E
Sbjct:   294 EKGCQPSTRTYTVLIKALCDRGLIDKAFNLFDEMIPRGCKPNVHTYTVLIDGLCRDGKIE 353

Query:   156 EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV 215
             EA G+   M + R+ P +  YN L+  YC  G +     +L  ME+     + RT++ L+
Sbjct:   354 EANGVCRKMVKDRIFPSVITYNALINGYCKDGRVVPAFELLTVMEKRACKPNVRTFNELM 413

Query:   216 LGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIK 275
              G CR G+  +A  LL+RM+D+G S    +Y  ++  L R G+   A K +      DI+
Sbjct:   414 EGLCRVGKPYKAVHLLKRMLDNGLSPDIVSYNVLIDGLCREGHMNTAYKLLSSMNCFDIE 473

Query:   276 LDTELFGSL 284
              D   F ++
Sbjct:   474 PDCLTFTAI 482

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2827891 AT2G17670 [Arabidopsis thaliana (taxid:3702)]

 Score = 209 (78.6 bits), Expect = 7.6e-15, P = 7.6e-15
 Identities = 66/237 (27%), Positives = 108/237 (45%)

Query:   101 PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSA--ITFHPILSVLTRGKRMEEAW 158
             P    Y+ L+  LCK K +      VD M +  F +    ++F  ++  +   K + EA 
Sbjct:   192 PDTYTYNFLLKHLCKCKDLHVVYEFVDEMRDD-FDVKPDLVSFTILIDNVCNSKNLREAM 250

Query:   159 GLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGA 218
              L+  +      PD   YN ++  +C     +   GV KKM+EE +  D  TY+ L+ G 
Sbjct:   251 YLVSKLGNAGFKPDCFLYNTIMKGFCTLSKGSEAVGVYKKMKEEGVEPDQITYNTLIFGL 310

Query:   219 CRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMV-----CGGRD 273
              +AGRVEEA + L+ MVD G     +TY  +M  + R G    A+  +       C   D
Sbjct:   311 SKAGRVEEARMYLKTMVDAGYEPDTATYTSLMNGMCRKGESLGALSLLEEMEARGCAPND 370

Query:   274 IKLDTELFGSLGSKLI--GLERFN--EANFILKEMNK-----RDLKMGFKLRDYYEI 321
                +T L G   ++L+  G+E +   +++ +  E N      R L    K+ + YE+
Sbjct:   371 CTYNTLLHGLCKARLMDKGMELYEMMKSSGVKLESNGYATLVRSLVKSGKVAEAYEV 427

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0006626 "protein targeting to mitochondrion" evidence=RCA

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

 Score = 211 (79.3 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 59/215 (27%), Positives = 101/215 (46%)

Query:    97 DKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKR-ME 155
             D  +   S +D ++    +L  ID+AL +V +    GF    ++++ +L    R KR + 
Sbjct:   128 DLCYSTSSVFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRNIS 187

Query:   156 EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV 215
              A  + + M E +VSP++  YN L+  +CF GN+     +  KME +    +  TY+ L+
Sbjct:   188 FAENVFKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLI 247

Query:   216 LGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMV-CGGRDI 274
              G C+  ++++ F LLR M   G      +Y  V+  L R G   + V FV+     R  
Sbjct:   248 DGYCKLRKIDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKE-VSFVLTEMNRRGY 306

Query:   275 KLDTELFGSLGSKLIGLERFNEANFILKEMNKRDL 309
              LD   + +L         F++A  +  EM +  L
Sbjct:   307 SLDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHGL 341

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

TAIR|locus:2034760 AT1G12300 [Arabidopsis thaliana (taxid:3702)]

 Score = 209 (78.6 bits), Expect = 1.5e-14, P = 1.5e-14
 Identities = 62/226 (27%), Positives = 96/226 (42%)

Query:    89 LCRTLARLDK----GF-PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHP 143
             LC   + + K    G+ P    + TLI  LC   ++ EAL +VD M E G     IT + 
Sbjct:   139 LCLAFSAMGKIIKLGYEPNTITFSTLINGLCLEGRVSEALELVDRMVEMGHKPDLITINT 198

Query:   144 ILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK 203
             +++ L    +  EA  L++ M E    P+   Y  +L   C  G       +L+KMEE  
Sbjct:   199 LVNGLCLSGKEAEAMLLIDKMVEYGCQPNAVTYGPVLNVMCKSGQTALAMELLRKMEERN 258

Query:   204 LGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAV 263
             +  DA  Y  ++ G C+ G ++ AF L   M   G +    TY  ++G     G +    
Sbjct:   259 IKLDAVKYSIIIDGLCKHGSLDNAFNLFNEMEMKGITTNIITYNILIGGFCNAGRWDDGA 318

Query:   264 KFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDL 309
             K +     R I  +   F  L    +   +  EA  + KEM  R +
Sbjct:   319 KLLRDMIKRKINPNVVTFSVLIDSFVKEGKLREAEELHKEMIHRGI 364

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2039415 AT2G16880 "AT2G16880" [Arabidopsis thaliana (taxid:3702)]

 Score = 208 (78.3 bits), Expect = 2.7e-14, P = 2.7e-14
 Identities = 58/226 (25%), Positives = 115/226 (50%)

Query:    86 LSDLCRTLARLDKG--FPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHP 143
             LSDL   L  + K    P +  Y+ L+   CKL  + EA ++V++M +        T++ 
Sbjct:   256 LSDLKELLLDMKKNGLVPNRVTYNNLVYGYCKLGSLKEAFQIVELMKQTNVLPDLCTYNI 315

Query:   144 ILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSG-VLKKMEEE 202
             +++ L     M E   LM+ MK +++ PD+  YN L+   CF+  L+  +  ++++ME +
Sbjct:   316 LINGLCNAGSMREGLELMDAMKSLKLQPDVVTYNTLIDG-CFELGLSLEARKLMEQMEND 374

Query:   203 KLGADARTYDALVLGACRAGRVEEAFVLLRRMVD-DGQSVLYSTYAHVMGALLRLGYYAQ 261
              + A+  T++  +   C+  + E     ++ +VD  G S    TY  ++ A L++G  + 
Sbjct:   375 GVKANQVTHNISLKWLCKEEKREAVTRKVKELVDMHGFSPDIVTYHTLIKAYLKVGDLSG 434

Query:   262 AVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKR 307
             A++ +   G + IK++T    ++   L    + +EA+ +L   +KR
Sbjct:   435 ALEMMREMGQKGIKMNTITLNTILDALCKERKLDEAHNLLNSAHKR 480

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9LY43	PP283_ARATH	No assigned EC number	0.4985	0.9907	0.9145	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	324
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.002
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.003
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.003
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.004

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

 Score = 48.7 bits (116), Expect = 2e-06
 Identities = 29/122 (23%), Positives = 57/122 (46%)

Query: 117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY 176
             +D+A  ++    + G  L  +++  ++   +  K  ++A  L E +K I++ P ++  
Sbjct: 663 GDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTM 722

Query: 177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD 236
           N L+TA C    L     VL +M+   L  +  TY  L++ + R    +    LL +  +
Sbjct: 723 NALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKE 782

Query: 237 DG 238
           DG
Sbjct: 783 DG 784

Length = 1060

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

 Score = 48.3 bits (115), Expect = 4e-06
 Identities = 34/140 (24%), Positives = 55/140 (39%), Gaps = 16/140 (11%)

Query: 133 GFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTAT 192
           G G      + +L +  R  RM  AW      ++     D+ ++N LLT Y   G  +  
Sbjct: 519 GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEK-----DVVSWNILLTGYVAHGKGSMA 573

Query: 193 SGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYST------Y 246
             +  +M E  +  D  T+ +L+    R+G V +       M +      YS       Y
Sbjct: 574 VELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEK-----YSITPNLKHY 628

Query: 247 AHVMGALLRLGYYAQAVKFV 266
           A V+  L R G   +A  F+
Sbjct: 629 ACVVDLLGRAGKLTEAYNFI 648

Length = 857

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

 Score = 42.4 bits (101), Expect = 7e-06
 Identities = 11/46 (23%), Positives = 25/46 (54%)

Query: 139 ITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC 184
           +T++ ++    +  ++EEA  L   MK+  + P++  Y+ L+   C
Sbjct: 4   VTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 40.8 bits (97), Expect = 1e-05
 Identities = 16/29 (55%), Positives = 19/29 (65%)

Query: 207 DARTYDALVLGACRAGRVEEAFVLLRRMV 235
           D  TY+ L+ G CRAGRV+EA  LL  M 
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEME 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 = 45.6 bits (108), Expect = 2e-05
 Identities = 31/117 (26%), Positives = 59/117 (50%), Gaps = 7/117 (5%)

Query: 114 CKLKK-IDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPD 172
           CK ++ + EA R   ++       +  TF+ ++SV    + ++ A  ++ +++E  +  D
Sbjct: 416 CKKQRAVKEAFRFAKLIRNP----TLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKAD 471

Query: 173 LTAYNYLLTAYCFK-GNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAF 228
              Y  L++  C K G + A   V  +M    + A+  T+ AL+ G  RAG+V +AF
Sbjct: 472 CKLYTTLIST-CAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAF 527

Length = 1060

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

 Score = 45.3 bits (107), Expect = 3e-05
 Identities = 35/124 (28%), Positives = 55/124 (44%), Gaps = 2/124 (1%)

Query: 106 YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMK 165
           Y TLI    K  K+D    V   M   G   +  TF  ++    R  ++ +A+G   +M+
Sbjct: 475 YTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR 534

Query: 166 EIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK--LGADARTYDALVLGACRAGR 223
              V PD   +N L++A    G +     VL +M+ E   +  D  T  AL+     AG+
Sbjct: 535 SKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ 594

Query: 224 VEEA 227
           V+ A
Sbjct: 595 VDRA 598

Length = 1060

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

 Score = 38.2 bits (90), Expect = 2e-04
 Identities = 15/50 (30%), Positives = 26/50 (52%)

Query: 171 PDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACR 220
           PD+  YN L+  YC KG +     +  +M++  +  +  TY  L+ G C+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 39.9 bits (93), Expect = 0.002
 Identities = 29/142 (20%), Positives = 58/142 (40%), Gaps = 4/142 (2%)

Query: 98  KGFPRKSAYDTLIGRLCKLK-KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEE 156
           KG P      T+    C  K   D AL + D M + G     + F  ++ V      +++
Sbjct: 611 KGTP---EVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK 667

Query: 157 AWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVL 216
           A+ +++  ++  +     +Y+ L+ A     N      + + ++  KL     T +AL+ 
Sbjct: 668 AFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALIT 727

Query: 217 GACRAGRVEEAFVLLRRMVDDG 238
             C   ++ +A  +L  M   G
Sbjct: 728 ALCEGNQLPKALEVLSEMKRLG 749

Length = 1060

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

 Score = 39.1 bits (91), Expect = 0.003
 Identities = 29/133 (21%), Positives = 64/133 (48%), Gaps = 4/133 (3%)

Query: 152 KRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTY 211
           + ++EA+   ++++     P L+ +N L++      ++     VL+ ++E  L AD + Y
Sbjct: 420 RAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLY 475

Query: 212 DALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGG 271
             L+    ++G+V+  F +   MV+ G      T+  ++    R G  A+A     +   
Sbjct: 476 TTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRS 535

Query: 272 RDIKLDTELFGSL 284
           +++K D  +F +L
Sbjct: 536 KNVKPDRVVFNAL 548

Length = 1060

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

 Score = 34.5 bits (80), Expect = 0.003
 Identities = 11/31 (35%), Positives = 16/31 (51%)

Query: 208 ARTYDALVLGACRAGRVEEAFVLLRRMVDDG 238
             TY+AL+L   +AG  + A  +L  M   G
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASG 31

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 = 34.4 bits (80), Expect = 0.003
 Identities = 15/30 (50%), Positives = 20/30 (66%)

Query: 209 RTYDALVLGACRAGRVEEAFVLLRRMVDDG 238
            TY+ L+ G C+AGRVEEA  L + M + G
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERG 30

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

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

 Score = 38.7 bits (90), Expect = 0.004
 Identities = 43/167 (25%), Positives = 68/167 (40%), Gaps = 7/167 (4%)

Query: 94  ARLDKGFPRKSAYD--TLIGRLCKLKKIDEALRVVDIM-AEGGFGLSAITFHPILSVLTR 150
           ARLD    RKS     + I +L    +  EAL + +I+ A   F L A T+  ++     
Sbjct: 76  ARLDDTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIA 135

Query: 151 GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADART 210
            K +     +   ++     PD    N +L  +   G L     +  +M E  L     +
Sbjct: 136 LKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL----AS 191

Query: 211 YDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLG 257
           +  ++ G   AG   EAF L R M +DG      T+  ++ A   LG
Sbjct: 192 WGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLG 238

Length = 697

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	324
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.93
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.89
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.88
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.82
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.74
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.73
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.72
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.7
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.69
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.68
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.67
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.67
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.66
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.65
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.65
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.64
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.63
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.63
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.61
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.6
PRK14574	822	hmsH outer membrane protein; Provisional	99.59
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.56
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.56
KOG1126	638	consensus DNA-binding cell division cycle control	99.54
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.54
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.54
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.53
PF13041	50	PPR_2: PPR repeat family	99.53
PF13041	50	PPR_2: PPR repeat family	99.53
KOG1126	638	consensus DNA-binding cell division cycle control	99.52
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.52
PRK14574	822	hmsH outer membrane protein; Provisional	99.51
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.5
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.48
PRK12370	553	invasion protein regulator; Provisional	99.48
PRK12370	553	invasion protein regulator; Provisional	99.47
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.47
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.44
KOG1129	478	consensus TPR repeat-containing protein [General f	99.44
KOG1129	478	consensus TPR repeat-containing protein [General f	99.42
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.4
KOG2003	840	consensus TPR repeat-containing protein [General f	99.32
KOG2076	895	consensus RNA polymerase III transcription factor	99.31
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.3
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.29
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.29
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.28
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.26
KOG2076	895	consensus RNA polymerase III transcription factor	99.24
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.24
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.21
PRK11189	296	lipoprotein NlpI; Provisional	99.19
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.19
PRK11189	296	lipoprotein NlpI; Provisional	99.18
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.17
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.16
KOG2003	840	consensus TPR repeat-containing protein [General f	99.13
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.12
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.1
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.1
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.09
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.07
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.06
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.03
PF12854	34	PPR_1: PPR repeat	99.02
PF12854	34	PPR_1: PPR repeat	99.0
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.99
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.98
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.97
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.95
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.93
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.92
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.88
KOG1125	579	consensus TPR repeat-containing protein [General f	98.81
PLN02789	320	farnesyltranstransferase	98.79
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.79
PLN02789	320	farnesyltranstransferase	98.78
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.76
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.73
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.72
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.68
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.66
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.65
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.64
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.63
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.62
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.61
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.61
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.61
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.59
PRK04841	903	transcriptional regulator MalT; Provisional	98.59
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.57
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.56
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.55
KOG1125	579	consensus TPR repeat-containing protein [General f	98.54
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.53
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.53
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.53
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.51
PRK15359	144	type III secretion system chaperone protein SscB;	98.51
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.49
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.48
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.48
PRK04841	903	transcriptional regulator MalT; Provisional	98.47
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.47
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.46
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.46
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.44
PRK15359	144	type III secretion system chaperone protein SscB;	98.43
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.43
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.41
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.41
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.39
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.39
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.39
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.38
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.38
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.37
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.36
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.35
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.34
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.34
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.33
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.33
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.32
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.3
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.28
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.28
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.26
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.22
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.21
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.2
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.18
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.17
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.14
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.12
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.12
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.03
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.01
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.98
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.97
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.96
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.95
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.93
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.93
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.92
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.9
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.9
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.86
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.86
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.85
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.84
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.84
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.84
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.8
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.76
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.74
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.72
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.72
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.71
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.71
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.7
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.69
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.68
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.68
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.68
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.63
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.62
PF12688	120	TPR_5: Tetratrico peptide repeat	97.58
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.52
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.52
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.48
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.44
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.42
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.41
PF12688	120	TPR_5: Tetratrico peptide repeat	97.4
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.38
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.36
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.33
KOG0553	304	consensus TPR repeat-containing protein [General f	97.31
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.29
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.28
KOG0553	304	consensus TPR repeat-containing protein [General f	97.25
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.24
PRK10803	263	tol-pal system protein YbgF; Provisional	97.19
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.17
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.15
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.09
KOG3941	406	consensus Intermediate in Toll signal transduction	97.08
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.05
PF13371	73	TPR_9: Tetratricopeptide repeat	96.99
KOG3941	406	consensus Intermediate in Toll signal transduction	96.98
PRK10803	263	tol-pal system protein YbgF; Provisional	96.97
PF13371	73	TPR_9: Tetratricopeptide repeat	96.92
PRK15331	165	chaperone protein SicA; Provisional	96.89
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.88
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.83
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.81
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.79
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.75
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.72
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.7
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.68
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.67
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.64
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.64
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.63
PRK15331	165	chaperone protein SicA; Provisional	96.61
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.6
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.6
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.54
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.51
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.49
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.45
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.45
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.43
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.38
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.32
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.31
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.29
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.24
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.22
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.17
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.17
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.1
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.01
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.96
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.85
PF13512	142	TPR_18: Tetratricopeptide repeat	95.83
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.79
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.74
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.71
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.71
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.6
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.59
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.55
PF13512	142	TPR_18: Tetratricopeptide repeat	95.51
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.4
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.21
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.19
PF13929	292	mRNA_stabil: mRNA stabilisation	95.11
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.08
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.02
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.95
PF13428	44	TPR_14: Tetratricopeptide repeat	94.87
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.83
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	94.82
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.75
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.7
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.5
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.46
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.28
KOG1585	308	consensus Protein required for fusion of vesicles	94.03
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.03
PF13428	44	TPR_14: Tetratricopeptide repeat	94.02
KOG4555	175	consensus TPR repeat-containing protein [Function	94.0
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.93
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.85
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.83
KOG2041	1189	consensus WD40 repeat protein [General function pr	93.77
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.75
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.69
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.67
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.61
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.48
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.37
COG3118	304	Thioredoxin domain-containing protein [Posttransla	93.32
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.23
COG1747	711	Uncharacterized N-terminal domain of the transcrip	92.73
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.72
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	92.59
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.54
KOG4555	175	consensus TPR repeat-containing protein [Function	92.46
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.44
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	92.41
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.27
COG0457	291	NrfG FOG: TPR repeat [General function prediction	92.22
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.05
PF13431	34	TPR_17: Tetratricopeptide repeat	91.95
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	91.78
PF13431	34	TPR_17: Tetratricopeptide repeat	91.62
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.55
KOG1550	552	consensus Extracellular protein SEL-1 and related	91.45
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	91.43
PF13762	145	MNE1: Mitochondrial splicing apparatus component	91.4
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	91.01
COG1747	711	Uncharacterized N-terminal domain of the transcrip	90.93
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.89
PRK11906	458	transcriptional regulator; Provisional	90.78
PRK11906	458	transcriptional regulator; Provisional	90.28
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.02
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.87
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	89.83
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	89.67
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.58
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	89.5
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	89.41
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.84
PRK09687	280	putative lyase; Provisional	88.77
KOG1585	308	consensus Protein required for fusion of vesicles	88.73
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	88.49
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	88.05
PHA02875	413	ankyrin repeat protein; Provisional	87.79
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	87.78
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	87.7
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	87.53
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	87.48
PF11838	324	ERAP1_C: ERAP1-like C-terminal domain; InterPro: I	87.34
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	87.23
COG3898	531	Uncharacterized membrane-bound protein [Function u	87.22
PF13929	292	mRNA_stabil: mRNA stabilisation	87.15
COG3947	361	Response regulator containing CheY-like receiver a	86.89
PF13762	145	MNE1: Mitochondrial splicing apparatus component	86.73
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	86.36
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	86.22
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	85.98
PF02847	113	MA3: MA3 domain; InterPro: IPR003891 This entry re	85.94
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	85.52
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	84.94
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	84.74
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	84.73
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	84.72
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	84.67
KOG1586	288	consensus Protein required for fusion of vesicles	84.56
PRK09687	280	putative lyase; Provisional	84.4
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	84.12
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	84.03
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	83.5
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	82.71
KOG1941	518	consensus Acetylcholine receptor-associated protei	82.13
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	82.06
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	81.81
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	81.41
COG5159	421	RPN6 26S proteasome regulatory complex component [	80.99
KOG4648	536	consensus Uncharacterized conserved protein, conta	80.74
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	80.7

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.3e-54  Score=397.95  Aligned_cols=285  Identities=13%  Similarity=0.109  Sum_probs=155.9

Q ss_pred             CCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhc----CCCCHHHH
Q 038109           31 DEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDK----GFPRKSAY  106 (324)
Q Consensus        31 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~p~~~~~  106 (324)
                      +.||..+|+.+|.+|++.|++++|.++|+.|.+.|+.||..+|+.++.+|++.|++++|.++|++|..    ..||..+|
T Consensus       503 v~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTy  582 (1060)
T PLN03218        503 VEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITV  582 (1060)
T ss_pred             CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHH
Confidence            44555555555555555555555555555555555555555555555555555555555555555532    12455555


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 038109          107 DTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFK  186 (324)
Q Consensus       107 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  186 (324)
                      +++|.+|++.|++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|++++.+|++.
T Consensus       583 naLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~  662 (1060)
T PLN03218        583 GALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHA  662 (1060)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC
Confidence            55555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 038109          187 GNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFV  266 (324)
Q Consensus       187 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  266 (324)
                      |++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|
T Consensus       663 G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf  742 (1060)
T PLN03218        663 GDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVL  742 (1060)
T ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            55555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhHHH
Q 038109          267 MVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKL  315 (324)
Q Consensus       267 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  315 (324)
                      ++|...|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.|+..+
T Consensus       743 ~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~t  791 (1060)
T PLN03218        743 SEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVM  791 (1060)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHH
Confidence            5555555555555555555555555555555555555555555554443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.3e-54  Score=396.93  Aligned_cols=312  Identities=15%  Similarity=0.196  Sum_probs=298.0

Q ss_pred             ccccCCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhh
Q 038109            3 LLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENS   82 (324)
Q Consensus         3 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~   82 (324)
                      +++.+.+.+.++.|..+++.+...   |+.||..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++
T Consensus       443 LL~a~~k~g~~e~A~~lf~~M~~~---Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k  519 (1060)
T PLN03218        443 LMSVCASSQDIDGALRVLRLVQEA---GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR  519 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            567788889988888877766554   58999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh--CCCCCChhhHHHHHHHHHccCcHHHHH
Q 038109           83 LSVLSDLCRTLARLDKG--FPRKSAYDTLIGRLCKLKKIDEALRVVDIMAE--GGFGLSAITFHPILSVLTRGKRMEEAW  158 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~g~~~~~~~~~~li~~~~~~~~~~~a~  158 (324)
                      .|++++|.++|+.|.+.  .||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+.+|.+|++.|++++|.
T Consensus       520 ~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~  599 (1060)
T PLN03218        520 AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAK  599 (1060)
T ss_pred             CcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999643  49999999999999999999999999999986  678999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 038109          159 GLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDG  238 (324)
Q Consensus       159 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  238 (324)
                      ++|+.|.+.|+.|+..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|
T Consensus       600 elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G  679 (1060)
T PLN03218        600 EVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG  679 (1060)
T ss_pred             HHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhHHHHH
Q 038109          239 QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRD  317 (324)
Q Consensus       239 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  317 (324)
                      +.||..+|+.+|.+|++.|++++|.++|++|...|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.|+..++.
T Consensus       680 ~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~  758 (1060)
T PLN03218        680 IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYS  758 (1060)
T ss_pred             CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999876543

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

Probab=100.00  E-value=1.4e-49  Score=362.43  Aligned_cols=305  Identities=15%  Similarity=0.106  Sum_probs=212.3

Q ss_pred             ccccCCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhh
Q 038109            3 LLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENS   82 (324)
Q Consensus         3 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~   82 (324)
                      ++..+...|++.+|+++++.+....  +..||..+|+.++.+|++.++++.+.+++..|.+.|+.||..+|+.++++|++
T Consensus        93 ~i~~l~~~g~~~~Al~~f~~m~~~~--~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k  170 (697)
T PLN03081         93 QIEKLVACGRHREALELFEILEAGC--PFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVK  170 (697)
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcC--CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhc
Confidence            3455667788888888887776433  46799999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHH
Q 038109           83 LSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLME  162 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~  162 (324)
                      .|+++.|.++|++|.+  ||..+||++|.+|++.|++++|+++|++|.+.|+.|+..+|+.++.+|++.|..+.+.+++.
T Consensus       171 ~g~~~~A~~lf~~m~~--~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~  248 (697)
T PLN03081        171 CGMLIDARRLFDEMPE--RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHC  248 (697)
T ss_pred             CCCHHHHHHHHhcCCC--CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHH
Confidence            9999999999999976  89999999999999999999999999999988887777766665555555555555555555


Q ss_pred             HHHhCCCCCCH-------------------------------HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHH
Q 038109          163 VMKEIRVSPDL-------------------------------TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTY  211 (324)
Q Consensus       163 ~m~~~~~~~~~-------------------------------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  211 (324)
                      .+.+.|+.||.                               .+||++|.+|++.|++++|.++|++|.+.|+.||..||
T Consensus       249 ~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~  328 (697)
T PLN03081        249 CVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTF  328 (697)
T ss_pred             HHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHH
Confidence            55555544444                               45555555555555555555555555555555555555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCc
Q 038109          212 DALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGL  291 (324)
Q Consensus       212 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  291 (324)
                      ++++.+|++.|++++|.+++..|.+.|+.||..+|+.|+.+|++.|++++|.++|+.|.+    ||..+|++||.+|++.
T Consensus       329 ~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~  404 (697)
T PLN03081        329 SIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNH  404 (697)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHc
Confidence            555555555555555555555555555555555555555555555555555555555532    3555555555555555


Q ss_pred             CCHHHHHHHHHHHHhCCCchhHHH
Q 038109          292 ERFNEANFILKEMNKRDLKMGFKL  315 (324)
Q Consensus       292 g~~~~a~~~~~~m~~~~~~~~~~~  315 (324)
                      |+.++|.++|++|.+.|+.|+..+
T Consensus       405 G~~~~A~~lf~~M~~~g~~Pd~~T  428 (697)
T PLN03081        405 GRGTKAVEMFERMIAEGVAPNHVT  428 (697)
T ss_pred             CCHHHHHHHHHHHHHhCCCCCHHH
Confidence            555555555555555555555444

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

Probab=100.00  E-value=3.6e-49  Score=359.72  Aligned_cols=274  Identities=15%  Similarity=0.166  Sum_probs=244.0

Q ss_pred             CCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHH
Q 038109           31 DEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLI  110 (324)
Q Consensus        31 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li  110 (324)
                      ..|+..+|+.++.+|++.|+.+.+.+++..+.+.|+.||..+++.|+++|++.|++++|.++|+.|..  +|..+||++|
T Consensus       220 ~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~--~~~vt~n~li  297 (697)
T PLN03081        220 SDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE--KTTVAWNSML  297 (697)
T ss_pred             CCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC--CChhHHHHHH
Confidence            44455555555555555555555555555555556666777788899999999999999999999965  6899999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChh
Q 038109          111 GRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLT  190 (324)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  190 (324)
                      .+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|++++++|+++|+++
T Consensus       298 ~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~  377 (697)
T PLN03081        298 AGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRME  377 (697)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhC
Q 038109          191 ATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       191 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (324)
                      +|.++|++|.+    ||..+||+||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.
T Consensus       378 ~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~  453 (697)
T PLN03081        378 DARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMS  453 (697)
T ss_pred             HHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Confidence            99999999964    69999999999999999999999999999999999999999999999999999999999999997


Q ss_pred             C-CCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhH
Q 038109          271 G-RDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGF  313 (324)
Q Consensus       271 ~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  313 (324)
                      + .|+.|+..+|+.++++|++.|++++|.+++++|   ++.|+.
T Consensus       454 ~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~  494 (697)
T PLN03081        454 ENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTV  494 (697)
T ss_pred             HhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCH
Confidence            5 699999999999999999999999999999876   445543

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=5.3e-49  Score=366.44  Aligned_cols=310  Identities=14%  Similarity=0.100  Sum_probs=291.0

Q ss_pred             ccccCCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhh
Q 038109            3 LLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENS   82 (324)
Q Consensus         3 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~   82 (324)
                      +++.+.+.|.+++|..+++.|...   |+.||..||+.+|++|+..+++..+.+++..|.+.|+.||..+++.++.+|++
T Consensus       158 li~~~~~~g~~~~A~~~f~~M~~~---g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k  234 (857)
T PLN03077        158 LVGGYAKAGYFDEALCLYHRMLWA---GVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVK  234 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHc---CCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhc
Confidence            345566677777777777666544   68899999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHH
Q 038109           83 LSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLME  162 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~  162 (324)
                      .|+++.|.++|++|..  ||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+.+.|.+++.
T Consensus       235 ~g~~~~A~~lf~~m~~--~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~  312 (857)
T PLN03077        235 CGDVVSARLVFDRMPR--RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHG  312 (857)
T ss_pred             CCCHHHHHHHHhcCCC--CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHH
Confidence            9999999999999975  78899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC
Q 038109          163 VMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL  242 (324)
Q Consensus       163 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  242 (324)
                      .|.+.|+.||..+||+++.+|++.|++++|.++|++|..    ||..+||++|.+|++.|++++|+++|++|.+.|+.||
T Consensus       313 ~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd  388 (857)
T PLN03077        313 YVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPD  388 (857)
T ss_pred             HHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCC
Confidence            999999999999999999999999999999999999964    6999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhHHHHHHHhh
Q 038109          243 YSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRDYYEI  321 (324)
Q Consensus       243 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~  321 (324)
                      ..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+|+.|+.+|++.|++++|.++|++|.+.++..++.++..|..
T Consensus       389 ~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~  467 (857)
T PLN03077        389 EITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRL  467 (857)
T ss_pred             ceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999888764

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.6e-48  Score=361.79  Aligned_cols=297  Identities=15%  Similarity=0.163  Sum_probs=240.8

Q ss_pred             ccccCCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhh
Q 038109            3 LLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENS   82 (324)
Q Consensus         3 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~   82 (324)
                      +++.+.+.|.+.+|..+++.|..   .|+.||..+|+.+|.+|++.|+++.+.+++..|.+.|+.||..+|+.++.+|++
T Consensus       259 li~~~~~~g~~~eAl~lf~~M~~---~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k  335 (857)
T PLN03077        259 MISGYFENGECLEGLELFFTMRE---LSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLS  335 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHH---cCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHh
Confidence            34455566777777666555544   458999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHH
Q 038109           83 LSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLME  162 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~  162 (324)
                      .|++++|.++|++|..  ||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++++
T Consensus       336 ~g~~~~A~~vf~~m~~--~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~  413 (857)
T PLN03077        336 LGSWGEAEKVFSRMET--KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHE  413 (857)
T ss_pred             cCCHHHHHHHHhhCCC--CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHH
Confidence            9999999999999975  78899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC------------------------------C--------
Q 038109          163 VMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK------------------------------L--------  204 (324)
Q Consensus       163 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------------------------------~--------  204 (324)
                      .|.+.|+.|+..+||++|++|+++|++++|.++|++|.+.+                              +        
T Consensus       414 ~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~  493 (857)
T PLN03077        414 LAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLI  493 (857)
T ss_pred             HHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHH
Confidence            99999999999999999999999999999988888775431                              1        


Q ss_pred             ---------------------------------------------------------CCCHHHHHHHHHHHHhcCCHHHH
Q 038109          205 ---------------------------------------------------------GADARTYDALVLGACRAGRVEEA  227 (324)
Q Consensus       205 ---------------------------------------------------------~~~~~~~~~li~~~~~~g~~~~a  227 (324)
                                                                               .||..+||++|.+|++.|+.++|
T Consensus       494 ~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A  573 (857)
T PLN03077        494 AALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMA  573 (857)
T ss_pred             HHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHH
Confidence                                                                     23444555666666666666666


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhC-CCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHH
Q 038109          228 FVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCG-GRDIKLDTELFGSLGSKLIGLERFNEANFILKEM  304 (324)
Q Consensus       228 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  304 (324)
                      .++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|. ..|+.|+..+|+.++.+|++.|++++|.+++++|
T Consensus       574 ~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m  651 (857)
T PLN03077        574 VELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM  651 (857)
T ss_pred             HHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            6666666666666666666666666666666666666666665 4566666666666666666666666666666666

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=2e-22  Score=173.08  Aligned_cols=297  Identities=12%  Similarity=0.022  Sum_probs=244.0

Q ss_pred             CCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCC---chhhHhhhhchhhhhh
Q 038109            9 TKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNT---ANTFNFITNTENSLSV   85 (324)
Q Consensus         9 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~l~~~~~~~~~   85 (324)
                      ..|.+++|...+..+....    +.+..++..+...+...|++++|..+++.+.+.+..++   ...+..+...|.+.|+
T Consensus        47 ~~~~~~~A~~~~~~al~~~----p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         47 LNEQPDKAIDLFIEMLKVD----PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             hcCChHHHHHHHHHHHhcC----cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            3456677777666666553    13456789999999999999999999999987532222   2467788999999999


Q ss_pred             HHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCh----hhHHHHHHHHHccCcHHHHHHH
Q 038109           86 LSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSA----ITFHPILSVLTRGKRMEEAWGL  160 (324)
Q Consensus        86 ~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~~~~~~a~~~  160 (324)
                      ++.|..+|+++.+..| +..+++.++..+.+.|++++|.+.++++.+.+..+..    ..+..+...+.+.|++++|...
T Consensus       123 ~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  202 (389)
T PRK11788        123 LDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARAL  202 (389)
T ss_pred             HHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            9999999999987665 5668999999999999999999999999886543321    2455677788899999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 038109          161 MEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQS  240 (324)
Q Consensus       161 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  240 (324)
                      ++++.+.. +.+...+..+...+.+.|++++|.++|+++.+.+......+++.++.+|...|++++|.+.++++.+.  .
T Consensus       203 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~  279 (389)
T PRK11788        203 LKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--Y  279 (389)
T ss_pred             HHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--C
Confidence            99998764 33566788888999999999999999999998654433567899999999999999999999999875  4


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhC---cCCHHHHHHHHHHHHhCCCchhHH
Q 038109          241 VLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIG---LERFNEANFILKEMNKRDLKMGFK  314 (324)
Q Consensus       241 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~~~~~  314 (324)
                      |+...+..+...+.+.|++++|..+++.+.+.  .|+...++.++..+..   .|+.+++..++++|.++++.|++.
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            66667788999999999999999999988875  5788889888887764   569999999999999988887665

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.89  E-value=4.6e-20  Score=158.44  Aligned_cols=259  Identities=17%  Similarity=0.079  Sum_probs=218.5

Q ss_pred             HHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-C----HHHHHHHHHHHHccCC
Q 038109           44 AAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-R----KSAYDTLIGRLCKLKK  118 (324)
Q Consensus        44 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~----~~~~~~li~~~~~~~~  118 (324)
                      .+...|++++|...|.++.+.+ +.+..++..+...+...|++++|...++.+.+..+ +    ..++..+...|.+.|+
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            4567899999999999999863 44567889999999999999999999999866432 1    2467889999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChhhHHH
Q 038109          119 IDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPD----LTAYNYLLTAYCFKGNLTATSG  194 (324)
Q Consensus       119 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~  194 (324)
                      +++|.++|+++.+. .+.+..++..++..+.+.|++++|.+.++.+.+.+..++    ...+..+...+.+.|++++|..
T Consensus       123 ~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  201 (389)
T PRK11788        123 LDRAEELFLQLVDE-GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARA  201 (389)
T ss_pred             HHHHHHHHHHHHcC-CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            99999999999875 334678899999999999999999999999988764332    2245667788899999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCC
Q 038109          195 VLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDI  274 (324)
Q Consensus       195 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (324)
                      .|+++.+.... +...+..+...+.+.|++++|.++++++.+.+......++..+..+|...|++++|...++.+.+.  
T Consensus       202 ~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--  278 (389)
T PRK11788        202 LLKKALAADPQ-CVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--  278 (389)
T ss_pred             HHHHHHhHCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--
Confidence            99999886543 567888899999999999999999999987543333567888999999999999999999998876  


Q ss_pred             CcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          275 KLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       275 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      .|+...+..++..+.+.|++++|..+++++.+.
T Consensus       279 ~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~  311 (389)
T PRK11788        279 YPGADLLLALAQLLEEQEGPEAAQALLREQLRR  311 (389)
T ss_pred             CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            456667788999999999999999999998766

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

Probab=99.88  E-value=4.9e-19  Score=167.71  Aligned_cols=290  Identities=14%  Similarity=0.040  Sum_probs=196.6

Q ss_pred             CCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHH
Q 038109            9 TKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSD   88 (324)
Q Consensus         9 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~   88 (324)
                      ..|..++|...++.+....    +.+...|..+...+...|++++|.+.++.+.+.. +.+...+..+..++...|++++
T Consensus       579 ~~~~~~~A~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  653 (899)
T TIGR02917       579 GKGQLKKALAILNEAADAA----PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAK  653 (899)
T ss_pred             HCCCHHHHHHHHHHHHHcC----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHH
Confidence            3455555555555443322    2345567777777777777777777777776542 3445566667777777777777


Q ss_pred             HHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC
Q 038109           89 LCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI  167 (324)
Q Consensus        89 a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  167 (324)
                      |...++++.+..| +..++..++..+...|++++|.++++.+.+.+ +.+...+..+...+.+.|++++|...++.+...
T Consensus       654 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  732 (899)
T TIGR02917       654 AITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR  732 (899)
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            7777777766555 35567777777777777777777777776654 335566666777777777777777777777765


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHH
Q 038109          168 RVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYA  247 (324)
Q Consensus       168 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  247 (324)
                      +  |+..++..+..++.+.|++++|.+.++.+.+..+. +...++.+...|...|++++|.+.|+++.+.. +++..++.
T Consensus       733 ~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~  808 (899)
T TIGR02917       733 A--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPN-DAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLN  808 (899)
T ss_pred             C--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            4  34456666777777777777777777777766443 67777777777777888888888887777653 34566677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCc
Q 038109          248 HVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLK  310 (324)
Q Consensus       248 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  310 (324)
                      .+...+...|+ .+|..+++....... -++.++..+...+...|++++|.++++++.+.+..
T Consensus       809 ~l~~~~~~~~~-~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       809 NLAWLYLELKD-PRALEYAEKALKLAP-NIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE  869 (899)
T ss_pred             HHHHHHHhcCc-HHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            77777777777 667777777666532 24556666777777778888888888887766543

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

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

Probab=99.87  E-value=4.5e-19  Score=167.94  Aligned_cols=287  Identities=10%  Similarity=-0.011  Sum_probs=248.3

Q ss_pred             CCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHH
Q 038109            8 PTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLS   87 (324)
Q Consensus         8 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~   87 (324)
                      ...|.+++|...+.......    +.+...+..+...+.+.|++++|..+++++.+.. +.+..++..+...+...|+++
T Consensus       612 ~~~~~~~~A~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  686 (899)
T TIGR02917       612 LAAGDLNKAVSSFKKLLALQ----PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTE  686 (899)
T ss_pred             HHcCCHHHHHHHHHHHHHhC----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            34577788888777766554    2345668899999999999999999999998753 556788999999999999999


Q ss_pred             HHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHh
Q 038109           88 DLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKE  166 (324)
Q Consensus        88 ~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  166 (324)
                      +|.++++.+.+..| +...+..+...+...|++++|.+.|+++.+.+  |+..++..+...+.+.|+.++|...++.+.+
T Consensus       687 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  764 (899)
T TIGR02917       687 SAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLK  764 (899)
T ss_pred             HHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999987665 56688899999999999999999999999865  4557788899999999999999999999988


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHH
Q 038109          167 IRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTY  246 (324)
Q Consensus       167 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  246 (324)
                      .. +.+...++.+...|...|++++|...|+++.+..+. +...++.+...+...|+ ++|+..+++..... +-+..++
T Consensus       765 ~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~  840 (899)
T TIGR02917       765 TH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPD-NAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPAIL  840 (899)
T ss_pred             hC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcHHH
Confidence            64 457889999999999999999999999999988654 88999999999999999 88999999988653 2345566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          247 AHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       247 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      ..+...+...|++++|..+++.+.+.+.. ++.++..+...+.+.|+.++|.+++++|.+
T Consensus       841 ~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  899 (899)
T TIGR02917       841 DTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELDKLLN  899 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHhC
Confidence            77888899999999999999999998754 899999999999999999999999999863

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

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=1.3e-16  Score=144.36  Aligned_cols=288  Identities=12%  Similarity=-0.006  Sum_probs=174.8

Q ss_pred             CccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHH
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDL   89 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a   89 (324)
                      .|++++|...++.+.....    .+...+..+...+...|+++.|.+.+++..+.. +.+...+..+...+...|++++|
T Consensus        89 ~g~~~~A~~~l~~~l~~~P----~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA  163 (656)
T PRK15174         89 SSQPDAVLQVVNKLLAVNV----CQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQA  163 (656)
T ss_pred             cCCHHHHHHHHHHHHHhCC----CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHH
Confidence            4555555555555554441    112335555556666666666666666666531 33345556666666666666666


Q ss_pred             HHHHHHHhcCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCC
Q 038109           90 CRTLARLDKGFPRKS-AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIR  168 (324)
Q Consensus        90 ~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  168 (324)
                      ...++.+....|+.. .+..+ ..+...|++++|...++.+.+....++...+..+...+...|++++|...+++..+..
T Consensus       164 ~~~~~~~~~~~P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~  242 (656)
T PRK15174        164 ISLARTQAQEVPPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG  242 (656)
T ss_pred             HHHHHHHHHhCCCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            666666644444322 33222 2356667777777776666554332333344444556667777777777777766654


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhh----HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 038109          169 VSPDLTAYNYLLTAYCFKGNLTA----TSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYS  244 (324)
Q Consensus       169 ~~~~~~~~~~li~~~~~~~~~~~----a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  244 (324)
                       +.+...+..+...+...|++++    |...|++.....+. +...+..+...+.+.|++++|...+++...... .+..
T Consensus       243 -p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~  319 (656)
T PRK15174        243 -LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPY  319 (656)
T ss_pred             -CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHH
Confidence             2345666667777777777764    67777777765443 566777777777777777777777777765431 2344


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          245 TYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      .+..+..++.+.|++++|...++.+...... +...+..+..++...|+.++|...|++..+.
T Consensus       320 a~~~La~~l~~~G~~~eA~~~l~~al~~~P~-~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        320 VRAMYARALRQVGQYTAASDEFVQLAREKGV-TSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            5555667777777888877777777665322 2233333456677778888888777776544

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.82  E-value=9.5e-17  Score=145.19  Aligned_cols=295  Identities=11%  Similarity=0.027  Sum_probs=237.7

Q ss_pred             cccCCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhh
Q 038109            4 LRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSL   83 (324)
Q Consensus         4 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~   83 (324)
                      +.++...|++.+|..+++.......  -.++  .+..+..+....|+++.|.+.++++.+.. +.+...+..+...+...
T Consensus        49 ~~~~~~~g~~~~A~~l~~~~l~~~p--~~~~--~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~  123 (656)
T PRK15174         49 AIACLRKDETDVGLTLLSDRVLTAK--NGRD--LLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKS  123 (656)
T ss_pred             HHHHHhcCCcchhHHHhHHHHHhCC--Cchh--HHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHc
Confidence            3455667888888888777776662  2222  35555566778999999999999998863 45567888889999999


Q ss_pred             hhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHH
Q 038109           84 SVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLME  162 (324)
Q Consensus        84 ~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~  162 (324)
                      |++++|...++++....|+ ...+..+...+...|++++|...++.+...... +...+..+ ..+...|++++|...++
T Consensus       124 g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~  201 (656)
T PRK15174        124 KQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLAR  201 (656)
T ss_pred             CCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHH
Confidence            9999999999999887775 568889999999999999999999988765433 33333333 34788999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHHHHHCC
Q 038109          163 VMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEE----AFVLLRRMVDDG  238 (324)
Q Consensus       163 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~----a~~~~~~m~~~~  238 (324)
                      .+.+....++...+..+..++...|++++|...+++....... +...+..+...+...|++++    |...|++..+..
T Consensus       202 ~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~  280 (656)
T PRK15174        202 ALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN  280 (656)
T ss_pred             HHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC
Confidence            9887654445555666678899999999999999999987654 68888889999999999986    899999988653


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          239 QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       239 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                       +.+...+..+...+...|++++|...++......+. +...+..+...+.+.|++++|...++++.+.+
T Consensus       281 -P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~  348 (656)
T PRK15174        281 -SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQLAREK  348 (656)
T ss_pred             -CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence             235678888899999999999999999999887533 56677788999999999999999999988654

>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=99.74  E-value=9.8e-15  Score=132.29  Aligned_cols=257  Identities=9%  Similarity=-0.030  Sum_probs=208.5

Q ss_pred             CCCHHHHHHHHHHHHhcC-CCC-CchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHH
Q 038109           48 ERDLETVRYLLNKRARDC-CFN-TANTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALR  124 (324)
Q Consensus        48 ~~~~~~a~~~~~~m~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~  124 (324)
                      .+++++|.+.|+...+.+ ..| ....+..+...+...|++++|...+++..+..|+ ...|..+...+...|++++|..
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~  386 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEE  386 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            367899999999998754 223 4467888888899999999999999999888886 5588899999999999999999


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCC
Q 038109          125 VVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKL  204 (324)
Q Consensus       125 ~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  204 (324)
                      .|++..+.. +-+..+|..+...+...|++++|...|++..+.. +.+...+..+..++.+.|++++|...|++..+..+
T Consensus       387 ~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P  464 (615)
T TIGR00990       387 DFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFP  464 (615)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            999998763 2357888899999999999999999999998864 23567788888999999999999999999887644


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH------HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCH
Q 038109          205 GADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLY------STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDT  278 (324)
Q Consensus       205 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (324)
                      . +...|+.+...+...|++++|.+.|++........+.      ..++.....+...|++++|..+++....... .+.
T Consensus       465 ~-~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p-~~~  542 (615)
T TIGR00990       465 E-APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDP-ECD  542 (615)
T ss_pred             C-ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC-CcH
Confidence            3 6788999999999999999999999998765321111      1112222234456999999999999877653 345


Q ss_pred             hHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          279 ELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       279 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      ..+..+...+.+.|++++|.+.|++..+..
T Consensus       543 ~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       543 IAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            678889999999999999999999886543

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

Probab=99.73  E-value=2.9e-17  Score=134.29  Aligned_cols=260  Identities=18%  Similarity=0.143  Sum_probs=114.9

Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhcC-CCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccC
Q 038109           40 DLVNAAGHERDLETVRYLLNKRARDC-CFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLK  117 (324)
Q Consensus        40 ~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~  117 (324)
                      .+...+.+.|++++|+++++...... -+.+...|..+.......++.+.|...++++....+. ...+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            55777889999999999997655543 2344556666777888899999999999999766553 4467777777 7999


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChhhHHHHH
Q 038109          118 KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIR-VSPDLTAYNYLLTAYCFKGNLTATSGVL  196 (324)
Q Consensus       118 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~  196 (324)
                      ++++|.+++.+..+..  ++...+..++..+.+.++++++..+++.+.... .+++...|..+...+.+.|+.++|.+.+
T Consensus        92 ~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             cccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999998876643  466777888999999999999999999977543 4567888999999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc
Q 038109          197 KKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL  276 (324)
Q Consensus       197 ~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (324)
                      ++..+..+. |....+.++..+...|+.+++.++++...+.. +.|...+..+..++...|+.++|..+++...+.. +.
T Consensus       170 ~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~  246 (280)
T PF13429_consen  170 RKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PD  246 (280)
T ss_dssp             HHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT
T ss_pred             HHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cc
Confidence            999987554 68889999999999999999999998887654 4455677888999999999999999999988764 34


Q ss_pred             CHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          277 DTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       277 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      |+.....+..++...|+.++|.++.++..
T Consensus       247 d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  247 DPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             -HHHHHHHHHHHT----------------
T ss_pred             ccccccccccccccccccccccccccccc
Confidence            88899999999999999999999987653

>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=99.72  E-value=8.8e-14  Score=126.11  Aligned_cols=289  Identities=13%  Similarity=0.037  Sum_probs=221.7

Q ss_pred             CCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHH
Q 038109            9 TKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSD   88 (324)
Q Consensus         9 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~   88 (324)
                      ..|.+++|...+......     .|+...|..+..++.+.|++++|.+.++..++.. +.+...+..+..++...|++++
T Consensus       139 ~~~~~~~Ai~~y~~al~~-----~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg~~~e  212 (615)
T TIGR00990       139 RNKDFNKAIKLYSKAIEC-----KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLGKYAD  212 (615)
T ss_pred             HcCCHHHHHHHHHHHHhc-----CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            346677777777655433     3677789999999999999999999999988753 3445788888999999999999


Q ss_pred             HHHHHHHHhcC------------------------------CC----CHHHHHHH-------------------------
Q 038109           89 LCRTLARLDKG------------------------------FP----RKSAYDTL-------------------------  109 (324)
Q Consensus        89 a~~~~~~~~~~------------------------------~p----~~~~~~~l-------------------------  109 (324)
                      |...+..+...                              .|    ........                         
T Consensus       213 A~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  292 (615)
T TIGR00990       213 ALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGN  292 (615)
T ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccccccccc
Confidence            97655433111                              01    10000000                         


Q ss_pred             --HHHH------HccCCHHHHHHHHHHHHhCC-CCC-ChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 038109          110 --IGRL------CKLKKIDEALRVVDIMAEGG-FGL-SAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYL  179 (324)
Q Consensus       110 --i~~~------~~~~~~~~a~~~~~~m~~~g-~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  179 (324)
                        +...      ...+++++|.+.|++..+.+ ..| ....+..+...+...|++++|...+++..+... .+...|..+
T Consensus       293 ~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P-~~~~~~~~l  371 (615)
T TIGR00990       293 GQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDP-RVTQSYIKR  371 (615)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHH
Confidence              0000      12357889999999998765 223 355677888888899999999999999887632 246688888


Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 038109          180 LTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYY  259 (324)
Q Consensus       180 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  259 (324)
                      ...+...|++++|...|++..+.... +...|..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++
T Consensus       372 a~~~~~~g~~~eA~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~  449 (615)
T TIGR00990       372 ASMNLELGDPDKAEEDFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSI  449 (615)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCH
Confidence            89999999999999999999887544 68889999999999999999999999988653 23456677788889999999


Q ss_pred             HHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          260 AQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       260 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      ++|...++...+.. +.++..++.+...+...|++++|.+.|++..+.
T Consensus       450 ~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       450 ASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            99999999987753 336788899999999999999999999997654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.70  E-value=1.5e-13  Score=111.56  Aligned_cols=244  Identities=15%  Similarity=0.146  Sum_probs=174.5

Q ss_pred             CCCCchhhHhhhhchhhhhhHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHH
Q 038109           66 CFNTANTFNFITNTENSLSVLSDLCRTLARLDK--GFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHP  143 (324)
Q Consensus        66 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  143 (324)
                      .+.+..++.++|.++++-...+.|.+++.+-..  +..+..+||.+|.+-.-..    ..+++.+|....+.||..|+|+
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHH
Confidence            355667888888888888888888888877643  3356777887776544332    2677788888888888888888


Q ss_pred             HHHHHHccCcHHHH----HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhh-HHHHHHHHHH----CCCCC----CHHH
Q 038109          144 ILSVLTRGKRMEEA----WGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTA-TSGVLKKMEE----EKLGA----DART  210 (324)
Q Consensus       144 li~~~~~~~~~~~a----~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~-a~~~~~~m~~----~~~~~----~~~~  210 (324)
                      ++++..+.|+++.|    .+++.+|++.|+.|...+|..+|..+++.++..+ |..++.++..    +..+|    |..-
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~F  358 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKF  358 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHH
Confidence            88888888876544    4567778888888888888888888888777644 3344444332    12222    3455


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCcC---HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHH
Q 038109          211 YDALVLGACRAGRVEEAFVLLRRMVDDG----QSVL---YSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGS  283 (324)
Q Consensus       211 ~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  283 (324)
                      |...+..|.+..+.+-|.++-.-+....    +.|+   ..-|..+....++....+....+++.|.-.-+.|+..+...
T Consensus       359 F~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~  438 (625)
T KOG4422|consen  359 FQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIH  438 (625)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHH
Confidence            6667777777778777777766554321    2232   23356677777888888888889999988878889999999


Q ss_pred             HHHHHhCcCCHHHHHHHHHHHHhCCCchhH
Q 038109          284 LGSKLIGLERFNEANFILKEMNKRDLKMGF  313 (324)
Q Consensus       284 l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  313 (324)
                      ++++....|.++-.-+++..++..|-.-..
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~~~ght~r~  468 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSKEYGHTFRS  468 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHHHhhhhhhH
Confidence            999999999999999999988887754433

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.69  E-value=3.3e-13  Score=115.53  Aligned_cols=282  Identities=11%  Similarity=0.022  Sum_probs=211.7

Q ss_pred             CccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhH--hhhhchhhhhhHH
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFN--FITNTENSLSVLS   87 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~l~~~~~~~~~~~   87 (324)
                      .|++++|...+..-....   ..|. ..|-....+..+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++
T Consensus        97 eGd~~~A~k~l~~~~~~~---~~p~-l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~  170 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA---EQPV-VNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENH  170 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc---cchH-HHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHH
Confidence            366676665544422221   1222 22333344558999999999999999874  56664333  3367888999999


Q ss_pred             HHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCh-------hhHHHHHHHHHccCcHHHHHH
Q 038109           88 DLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSA-------ITFHPILSVLTRGKRMEEAWG  159 (324)
Q Consensus        88 ~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-------~~~~~li~~~~~~~~~~~a~~  159 (324)
                      .|...++.+.+..|+ ......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...+
T Consensus       171 ~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~  250 (398)
T PRK10747        171 AARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR  250 (398)
T ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            999999999888884 568899999999999999999999999988765322       233344444445555666667


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 038109          160 LMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQ  239 (324)
Q Consensus       160 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  239 (324)
                      +++.+.+. .+.+......+...+...|+.++|.+++++..+.  .||....  ++.+....++.+++.+..+...+.. 
T Consensus       251 ~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-  324 (398)
T PRK10747        251 WWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-  324 (398)
T ss_pred             HHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-
Confidence            77766443 3457788889999999999999999999998875  3444222  3444456699999999999988653 


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          240 SVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       240 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      +-|...+..+-..|.+.+++++|.+.|+...+.  .|+...+..+...+.+.|+.++|.+++++-.
T Consensus       325 P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        325 GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            234556778888999999999999999999885  5888998999999999999999999998754

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.68  E-value=6.6e-13  Score=128.21  Aligned_cols=186  Identities=10%  Similarity=-0.020  Sum_probs=125.2

Q ss_pred             CCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCc---hhhH-----------
Q 038109            9 TKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTA---NTFN-----------   74 (324)
Q Consensus         9 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~-----------   74 (324)
                      ..|++++|...++.......    -+...+..+-.++.+.|++++|.+.|++..+..  |+.   ..+.           
T Consensus       281 ~~g~~~~A~~~l~~aL~~~P----~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~--p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        281 DSGQGGKAIPELQQAVRANP----KDSEALGALGQAYSQQGDRARAVAQFEKALALD--PHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCccchhHHHHHHHhhhHHHH
Confidence            45666777776666555441    245667888888888888888888888887642  221   1111           


Q ss_pred             -hhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHH--------
Q 038109           75 -FITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPI--------  144 (324)
Q Consensus        75 -~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l--------  144 (324)
                       .....+.+.|++++|...++++.+..| +...+..+...+...|++++|++.|++..+.... +...+..+        
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~~~~  433 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYRQQS  433 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcC
Confidence             123456677888888888888877666 4557777888888888888888888888764321 22222222        


Q ss_pred             ----------------------------------HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChh
Q 038109          145 ----------------------------------LSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLT  190 (324)
Q Consensus       145 ----------------------------------i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  190 (324)
                                                        ...+...|++++|...+++..+... -+...+..+...|.+.|+++
T Consensus       434 ~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P-~~~~~~~~LA~~~~~~G~~~  512 (1157)
T PRK11447        434 PEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDP-GSVWLTYRLAQDLRQAGQRS  512 (1157)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHH
Confidence                                              2233456778888888887776542 24566677777888888888


Q ss_pred             hHHHHHHHHHHC
Q 038109          191 ATSGVLKKMEEE  202 (324)
Q Consensus       191 ~a~~~~~~m~~~  202 (324)
                      +|...++++.+.
T Consensus       513 ~A~~~l~~al~~  524 (1157)
T PRK11447        513 QADALMRRLAQQ  524 (1157)
T ss_pred             HHHHHHHHHHHc
Confidence            888888877654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.67  E-value=5.8e-13  Score=128.63  Aligned_cols=289  Identities=12%  Similarity=-0.013  Sum_probs=183.8

Q ss_pred             CCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhh----------
Q 038109            9 TKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITN----------   78 (324)
Q Consensus         9 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~----------   78 (324)
                      +.|++++|...++.......    .+...+..+...+...|++++|.+.|++..+.. +.+...+..+..          
T Consensus       363 ~~g~~~eA~~~~~~Al~~~P----~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~A  437 (1157)
T PRK11447        363 KANNLAQAERLYQQARQVDN----TDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEKA  437 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHHH
Confidence            45667777777777666642    344567778889999999999999999988752 223333333322          


Q ss_pred             --------------------------------chhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHH
Q 038109           79 --------------------------------TENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRV  125 (324)
Q Consensus        79 --------------------------------~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~  125 (324)
                                                      .+...|++++|.+.+++..+..|+ ...+..+...|.+.|++++|...
T Consensus       438 ~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~  517 (1157)
T PRK11447        438 LAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADAL  517 (1157)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence                                            234567777888888877776674 44667777888888888888888


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC--------------------------------------
Q 038109          126 VDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI--------------------------------------  167 (324)
Q Consensus       126 ~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------------------------------------  167 (324)
                      ++++.+.... +...+..+...+...++.++|...++.+...                                      
T Consensus       518 l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l  596 (1157)
T PRK11447        518 MRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALL  596 (1157)
T ss_pred             HHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHH
Confidence            8887764221 2332222222333344444444443332110                                      


Q ss_pred             -CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHH
Q 038109          168 -RVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTY  246 (324)
Q Consensus       168 -~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  246 (324)
                       ..+++...+..+...+.+.|++++|...|++..+..+. +...+..++..|...|+.++|.+.++...+.. +.+..++
T Consensus       597 ~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~  674 (1157)
T PRK11447        597 RQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPG-NADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQ  674 (1157)
T ss_pred             HhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHH
Confidence             01234445566677777777888888888777776444 56777777777878888888888887665432 1233445


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhCCCCCC--c---CHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          247 AHVMGALLRLGYYAQAVKFVMVCGGRDIK--L---DTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       247 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      ..+..++...|++++|.++++.+......  |   +...+..+...+...|+.++|.+.|++..
T Consensus       675 ~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        675 RRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55666777778888888888777654321  1   12345555667777788888888877764

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

Probab=99.67  E-value=3.8e-14  Score=119.93  Aligned_cols=262  Identities=12%  Similarity=0.023  Sum_probs=171.1

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCc-hhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHc
Q 038109           38 YDDLVNAAGHERDLETVRYLLNKRARDCCFNTA-NTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCK  115 (324)
Q Consensus        38 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~  115 (324)
                      |+.|-..+-..|+...|++-|++..+  +.|+- ..|-.|.+.|...+.+++|...+.+.....|+ ..++..+...|..
T Consensus       221 wsnLg~~f~~~Gei~~aiq~y~eAvk--ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYye  298 (966)
T KOG4626|consen  221 WSNLGCVFNAQGEIWLAIQHYEEAVK--LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNHAVAHGNLACIYYE  298 (966)
T ss_pred             ehhcchHHhhcchHHHHHHHHHHhhc--CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcchhhccceEEEEec
Confidence            44444444555666666666655554  23332 45556666666666666666666665554453 3356666666666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHH
Q 038109          116 LKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGV  195 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  195 (324)
                      .|++|.|+..|++..+.... -...|+.+..++-..|+..+|.+.+....... +......+.|...|...|.++.|..+
T Consensus       299 qG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~l  376 (966)
T KOG4626|consen  299 QGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRL  376 (966)
T ss_pred             cccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHH
Confidence            67777777777776653221 24667777777777777777777777766653 22455667777777777777777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCC
Q 038109          196 LKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL-YSTYAHVMGALLRLGYYAQAVKFVMVCGGRDI  274 (324)
Q Consensus       196 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (324)
                      |....+-... -...+|.|...|-+.|++++|+..|++..  .++|+ ...|+.+-..|...|+++.|.+.+......++
T Consensus       377 y~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal--rI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nP  453 (966)
T KOG4626|consen  377 YLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEAL--RIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINP  453 (966)
T ss_pred             HHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHH--hcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCc
Confidence            7776654322 35667777777888888888888777766  35565 45667777777777888888887777766542


Q ss_pred             CcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          275 KLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       275 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      . =...++.|...|-..|++.+|++-+++....
T Consensus       454 t-~AeAhsNLasi~kDsGni~~AI~sY~~aLkl  485 (966)
T KOG4626|consen  454 T-FAEAHSNLASIYKDSGNIPEAIQSYRTALKL  485 (966)
T ss_pred             H-HHHHHhhHHHHhhccCCcHHHHHHHHHHHcc
Confidence            2 3456677788888888888888888776543

>TIGR00540 hemY_coli hemY protein

Probab=99.66  E-value=4.1e-13  Score=115.53  Aligned_cols=285  Identities=10%  Similarity=-0.038  Sum_probs=203.2

Q ss_pred             CccchhHHHHHHHHhhhcCCCCCCCHHH-HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCch--hhHhhhhchhhhhhH
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPDEPTSAY-YDDLVNAAGHERDLETVRYLLNKRARDCCFNTAN--TFNFITNTENSLSVL   86 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~l~~~~~~~~~~   86 (324)
                      .|++++|.+.+......     .|++.. |-....+..+.|+++.|.+.+.+..+.  .|+..  ........+...|++
T Consensus        97 ~g~~~~A~~~l~~~~~~-----~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~  169 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADH-----AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNEL  169 (409)
T ss_pred             CCCHHHHHHHHHHHhhc-----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCH
Confidence            46777777777543333     244333 344456677889999999999998764  35543  333357788889999


Q ss_pred             HHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHH-HHHHHH---HccCcHHHHHHHH
Q 038109           87 SDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFH-PILSVL---TRGKRMEEAWGLM  161 (324)
Q Consensus        87 ~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~-~li~~~---~~~~~~~~a~~~~  161 (324)
                      +.|...++.+.+..| +..++..+...+...|++++|.+.+..+.+.+.. +...+. .-...+   ...+..+++...+
T Consensus       170 ~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L  248 (409)
T TIGR00540       170 HAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGL  248 (409)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHH
Confidence            999999999988888 5568899999999999999999999999998765 333232 111111   2222233333344


Q ss_pred             HHHHhCCC---CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          162 EVMKEIRV---SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADART-YDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       162 ~~m~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      ..+.+...   +.+...+..+...+...|+.++|.+++++..+......... ...........++.+.+.+.++...+.
T Consensus       249 ~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~  328 (409)
T TIGR00540       249 LNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN  328 (409)
T ss_pred             HHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh
Confidence            44443321   23788888999999999999999999999998744322111 122222334467888899999887754


Q ss_pred             CCCcCH---HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHH
Q 038109          238 GQSVLY---STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEM  304 (324)
Q Consensus       238 ~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  304 (324)
                        .|+.   ....++-..+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++-
T Consensus       329 --~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       329 --VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             --CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence              3443   4556788889999999999999995444445688888999999999999999999999875

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.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.65  E-value=2.7e-13  Score=110.10  Aligned_cols=272  Identities=14%  Similarity=0.130  Sum_probs=186.3

Q ss_pred             CCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHh--cCCCCHHHHHHH
Q 038109           32 EPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLD--KGFPRKSAYDTL  109 (324)
Q Consensus        32 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~p~~~~~~~l  109 (324)
                      +.+..+|.++|.+.|+-...++|.+++++-.....+.+..+||.+|.+-.-...    .+++.+|.  +..||..|+|++
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHH
Confidence            356678999999999999999999999999888788999999999876544333    56677774  344999999999


Q ss_pred             HHHHHccCCHHH----HHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHH-HHHHHHHHh----CCCCC----CHHHH
Q 038109          110 IGRLCKLKKIDE----ALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEA-WGLMEVMKE----IRVSP----DLTAY  176 (324)
Q Consensus       110 i~~~~~~~~~~~----a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a-~~~~~~m~~----~~~~~----~~~~~  176 (324)
                      +++..+.|+++.    |.+++.+|++-|+.|...+|..+|..+++.++..+. ..++.++..    ..++|    |...|
T Consensus       280 L~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF  359 (625)
T KOG4422|consen  280 LSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFF  359 (625)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHH
Confidence            999999997765    567788999999999999999999999999887553 334444332    22322    44556


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCC----CCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHH
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEK----LGADA---RTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHV  249 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~----~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  249 (324)
                      ...++.|.+..+.+.|.++..-+....    +.|+.   .=|..+....|+....+.-...|+.|.-.-.-|+..+...+
T Consensus       360 ~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~  439 (625)
T KOG4422|consen  360 QSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHL  439 (625)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHH
Confidence            677777877777777777665443221    12221   12344455555666666666666666555455555565556


Q ss_pred             HHHHHhcCCHHHHHHHHHHhCCCC------------------------------------------------------CC
Q 038109          250 MGALLRLGYYAQAVKFVMVCGGRD------------------------------------------------------IK  275 (324)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~~~~~~------------------------------------------------------~~  275 (324)
                      +++....|.++-.-++|.++...|                                                      ..
T Consensus       440 lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~  519 (625)
T KOG4422|consen  440 LRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQD  519 (625)
T ss_pred             HHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhcc
Confidence            665555555554444444333222                                                      11


Q ss_pred             cCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          276 LDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       276 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      ......+...-.+.+.|+.++|.++|.-+..+
T Consensus       520 ~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~  551 (625)
T KOG4422|consen  520 WPATSLNCIAILLLRAGRTQKAWEMLGLFLRK  551 (625)
T ss_pred             CChhHHHHHHHHHHHcchHHHHHHHHHHHHhc
Confidence            23344556666778889999999999988443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.65  E-value=1.6e-12  Score=120.24  Aligned_cols=294  Identities=11%  Similarity=-0.004  Sum_probs=180.0

Q ss_pred             CCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhH
Q 038109            7 LPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVL   86 (324)
Q Consensus         7 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~   86 (324)
                      +...+++.+|..+++......    +.+...+..+...+...|++++|...+++..+. .+.+.. +..+..++...|+.
T Consensus        59 ~~~~g~~~~A~~~~~~al~~~----P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~-~P~~~~-~~~la~~l~~~g~~  132 (765)
T PRK10049         59 YRNLKQWQNSLTLWQKALSLE----PQNDDYQRGLILTLADAGQYDEALVKAKQLVSG-APDKAN-LLALAYVYKRAGRH  132 (765)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHH-HHHHHHHHHHCCCH
Confidence            344566666666666555443    123444666777777888888888888887765 244445 77777777888888


Q ss_pred             HHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHH----------------------------------------
Q 038109           87 SDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRV----------------------------------------  125 (324)
Q Consensus        87 ~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~----------------------------------------  125 (324)
                      ++|...++++.+..|+ ...+..+...+...+..++|++.                                        
T Consensus       133 ~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~a  212 (765)
T PRK10049        133 WDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIA  212 (765)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHH
Confidence            8888888888776664 33445555555555554444433                                        


Q ss_pred             ------HHHHHhC-CCCCChh-hHH----HHHHHHHccCcHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChhhH
Q 038109          126 ------VDIMAEG-GFGLSAI-TFH----PILSVLTRGKRMEEAWGLMEVMKEIRVS-PDLTAYNYLLTAYCFKGNLTAT  192 (324)
Q Consensus       126 ------~~~m~~~-g~~~~~~-~~~----~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~a  192 (324)
                            ++.+.+. ...|+.. .+.    ..+..+...|++++|...|+.+.+.+.+ |+. .-..+..+|...|++++|
T Consensus       213 d~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A  291 (765)
T PRK10049        213 DRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKA  291 (765)
T ss_pred             HHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHH
Confidence                  3333321 1112111 111    0122344567788888888887776532 221 112245677788888888


Q ss_pred             HHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----------CcCH---HHHHHHHHHHHh
Q 038109          193 SGVLKKMEEEKLGA---DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQ-----------SVLY---STYAHVMGALLR  255 (324)
Q Consensus       193 ~~~~~~m~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-----------~p~~---~~~~~li~~~~~  255 (324)
                      ...|+++.+.....   .......+..++...|++++|.++++.+.....           .|+.   ..+..+...+..
T Consensus       292 ~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~  371 (765)
T PRK10049        292 QSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKY  371 (765)
T ss_pred             HHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHH
Confidence            88888776543221   134455566677788888888888887765421           1231   234455667777


Q ss_pred             cCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          256 LGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       256 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      .|+.++|+++++++.... +-+...+..+...+...|+.++|++.+++.....
T Consensus       372 ~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~  423 (765)
T PRK10049        372 SNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVLE  423 (765)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC
Confidence            788888888887776654 3356777777777777888888888888766543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.64  E-value=3.1e-12  Score=119.29  Aligned_cols=265  Identities=10%  Similarity=-0.047  Sum_probs=199.7

Q ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Q 038109           34 TSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRL  113 (324)
Q Consensus        34 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~  113 (324)
                      +...|..+-.++.. +++++|...+.+....  .|+......+...+...|++++|...++++....|+...+..+...+
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~al  552 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTA  552 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHH
Confidence            45567766666665 7888899988877764  36654444445555688999999999998876666666677778888


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHH
Q 038109          114 CKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATS  193 (324)
Q Consensus       114 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  193 (324)
                      .+.|+.++|.+.+++..+.. +.+...+..+.....+.|++++|...+++..+..  |+...+..+..++.+.|++++|.
T Consensus       553 l~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~  629 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAV  629 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999998764 2233333333444456699999999999988754  67888889999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC
Q 038109          194 GVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRD  273 (324)
Q Consensus       194 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (324)
                      ..|++.....+. +...++.+..++...|+.++|++.+++..+.. +-+...+..+..++...|++++|+..++...+..
T Consensus       630 ~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        630 SDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            999999887655 67788888889999999999999999888653 2346677888889999999999999999988764


Q ss_pred             CCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          274 IKLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       274 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      .. +..+.........+..+++.|.+-+++--..
T Consensus       708 P~-~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~  740 (987)
T PRK09782        708 DN-QALITPLTPEQNQQRFNFRRLHEEVGRRWTF  740 (987)
T ss_pred             CC-CchhhhhhhHHHHHHHHHHHHHHHHHHHhhc
Confidence            32 3344445566666677777777766655433

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

Probab=99.63  E-value=2.8e-15  Score=122.64  Aligned_cols=258  Identities=15%  Similarity=0.040  Sum_probs=113.4

Q ss_pred             cCCCCccchhHHHHHH-HHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhh
Q 038109            6 KLPTKFLIPQSVLVTR-SFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLS   84 (324)
Q Consensus         6 ~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~   84 (324)
                      .+-..|.+++|++++. ......   ...+...|..+...+...++++.|.+.++++...+ +.++..+..++.. ...+
T Consensus        17 ~~~~~~~~~~Al~~L~~~~~~~~---~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   17 LLYQRGDYEKALEVLKKAAQKIA---PPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccc---ccccccccccccccccccccccccccccccccccc-ccccccccccccc-cccc
Confidence            3445677777777763 333321   12233446666667778999999999999998765 3356677777777 7999


Q ss_pred             hHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHccCcHHHHHHHHHH
Q 038109           85 VLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGG-FGLSAITFHPILSVLTRGKRMEEAWGLMEV  163 (324)
Q Consensus        85 ~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  163 (324)
                      ++++|.++++...+..++...+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|+.++|.+.+++
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            9999999998876666777788889999999999999999999987643 345778888899999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH
Q 038109          164 MKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLY  243 (324)
Q Consensus       164 m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  243 (324)
                      ..+... .|....+.++..+...|+.+++.++++...+.. ..|...+..+..+|...|+.++|...|++..+.. +.|.
T Consensus       172 al~~~P-~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~  248 (280)
T PF13429_consen  172 ALELDP-DDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDP  248 (280)
T ss_dssp             HHHH-T-T-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-H
T ss_pred             HHHcCC-CCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cccc
Confidence            988642 257788899999999999999999998887764 3366678899999999999999999999988643 3477


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          244 STYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      .+...+..++...|+.++|.++......
T Consensus       249 ~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  249 LWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccc
Confidence            8888899999999999999998876543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.63  E-value=4.5e-12  Score=118.27  Aligned_cols=290  Identities=11%  Similarity=-0.043  Sum_probs=212.6

Q ss_pred             CccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCC---HHHHHHH----------------------HHHHHhc
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERD---LETVRYL----------------------LNKRARD   64 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~----------------------~~~m~~~   64 (324)
                      .|+..+|..+++-..... ....++....+.++..+.+.+.   ..++..+                      .+.....
T Consensus       389 ~~~~~~a~~~~~~~~~~~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  467 (987)
T PRK09782        389 NGQSREAADLLLQRYPFQ-GDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRL  467 (987)
T ss_pred             cccHHHHHHHHHHhcCCC-cccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHh
Confidence            455566666655554432 2233455566677777777655   3333222                      1111111


Q ss_pred             -CC-CC--CchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhh
Q 038109           65 -CC-FN--TANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAIT  140 (324)
Q Consensus        65 -~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~  140 (324)
                       +. ++  +...|..+..++.. ++.++|...+.+.....|+......+...+...|++++|...|+++...  +|+...
T Consensus       468 l~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a  544 (987)
T PRK09782        468 LGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNED  544 (987)
T ss_pred             cccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHH
Confidence             11 33  55677777777776 7888899988888777787554444555667899999999999998654  344455


Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 038109          141 FHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACR  220 (324)
Q Consensus       141 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  220 (324)
                      +..+...+.+.|+.++|...+++..+.+ +++...+..+.......|++++|...+++..+..  |+...|..+..++.+
T Consensus       545 ~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~  621 (987)
T PRK09782        545 LLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQ  621 (987)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHH
Confidence            6677788899999999999999998865 2233344444445556699999999999998764  578889999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHH
Q 038109          221 AGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFI  300 (324)
Q Consensus       221 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  300 (324)
                      .|+.++|...+++..... +-+...+..+..++...|++++|...++...+..+ -++..+..+..++...|++++|...
T Consensus       622 lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P-~~~~a~~nLA~al~~lGd~~eA~~~  699 (987)
T PRK09782        622 RHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP-DDPALIRQLAYVNQRLDDMAATQHY  699 (987)
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999999988753 23456677777789999999999999999988754 3778889999999999999999999


Q ss_pred             HHHHHhCC
Q 038109          301 LKEMNKRD  308 (324)
Q Consensus       301 ~~~m~~~~  308 (324)
                      +++..+..
T Consensus       700 l~~Al~l~  707 (987)
T PRK09782        700 ARLVIDDI  707 (987)
T ss_pred             HHHHHhcC
Confidence            99987544

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

Probab=99.61  E-value=4.5e-13  Score=113.60  Aligned_cols=290  Identities=14%  Similarity=0.043  Sum_probs=209.8

Q ss_pred             cCCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcC--------------------
Q 038109            6 KLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDC--------------------   65 (324)
Q Consensus         6 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--------------------   65 (324)
                      .+.++|.+.+|+..++..-+...    -.+..|-.+..++...|+.+.|.+.|.+.++-+                    
T Consensus       125 ~~kerg~~~~al~~y~~aiel~p----~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~Grl  200 (966)
T KOG4626|consen  125 ILKERGQLQDALALYRAAIELKP----KFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAEGRL  200 (966)
T ss_pred             HHHHhchHHHHHHHHHHHHhcCc----hhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhhccc
Confidence            34567777777777777666552    123345555555555555555555555544321                    


Q ss_pred             ------------CCCC-chhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038109           66 ------------CFNT-ANTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAE  131 (324)
Q Consensus        66 ------------~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~  131 (324)
                                  ..|. ...|+.|...+-..|+...|..-|++..+..|+ ..+|-.|...|...+.+++|...|.+...
T Consensus       201 ~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~  280 (966)
T KOG4626|consen  201 EEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALN  280 (966)
T ss_pred             chhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHh
Confidence                        1122 234555555566667777777777777666665 34677777777777777777777777665


Q ss_pred             CCCCC-ChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHH
Q 038109          132 GGFGL-SAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPD-LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADAR  209 (324)
Q Consensus       132 ~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~  209 (324)
                      .  .| ...++..+...|...|.++.|...+++..+.  .|+ ...|+.+..++-..|++.+|.+.|.+....... ...
T Consensus       281 l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-had  355 (966)
T KOG4626|consen  281 L--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HAD  355 (966)
T ss_pred             c--CCcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHH
Confidence            3  23 3456666666777888888898888888775  344 578999999999999999999999988887544 577


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcC-HhHHHHHHHH
Q 038109          210 TYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL-YSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLD-TELFGSLGSK  287 (324)
Q Consensus       210 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~  287 (324)
                      ..+.|...|...|.+++|..+|....+-  .|. ...++.|...|.++|++++|...+++..+.  +|+ ...|+.+...
T Consensus       356 am~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt  431 (966)
T KOG4626|consen  356 AMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNT  431 (966)
T ss_pred             HHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchH
Confidence            8888999999999999999999887753  344 456788999999999999999999998874  454 5678889999


Q ss_pred             HhCcCCHHHHHHHHHHHHhCC
Q 038109          288 LIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       288 ~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      |-..|+++.|.+.+.+.+.-+
T Consensus       432 ~ke~g~v~~A~q~y~rAI~~n  452 (966)
T KOG4626|consen  432 YKEMGDVSAAIQCYTRAIQIN  452 (966)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC
Confidence            999999999999998776543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.60  E-value=1.3e-11  Score=114.38  Aligned_cols=290  Identities=11%  Similarity=0.023  Sum_probs=201.9

Q ss_pred             CccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHH
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDL   89 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a   89 (324)
                      .|+..+|..++......    ...+...+..+...+...|++++|.+++++..+. -+.+...+..+..++...|+.++|
T Consensus        28 ~g~~~~A~~~~~~~~~~----~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~la~~l~~~g~~~eA  102 (765)
T PRK10049         28 AGQDAEVITVYNRYRVH----MQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL-EPQNDDYQRGLILTLADAGQYDEA  102 (765)
T ss_pred             cCCHHHHHHHHHHHHhh----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHH
Confidence            34556666555544431    2344556899999999999999999999998875 245567777888899999999999


Q ss_pred             HHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHH---------
Q 038109           90 CRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWG---------  159 (324)
Q Consensus        90 ~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~---------  159 (324)
                      ...++++.+..| +.. +..+...+...|+.++|+..++++.+.... +...+..+...+...+..++|..         
T Consensus       103 ~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p  180 (765)
T PRK10049        103 LVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGAIDDANLTP  180 (765)
T ss_pred             HHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHHHHhCCCCH
Confidence            999999988777 455 888899999999999999999999986433 44555555666655555554443         


Q ss_pred             -------------------------------------HHHHHHhC-CCCCCHH-HH----HHHHHHHHhcCChhhHHHHH
Q 038109          160 -------------------------------------LMEVMKEI-RVSPDLT-AY----NYLLTAYCFKGNLTATSGVL  196 (324)
Q Consensus       160 -------------------------------------~~~~m~~~-~~~~~~~-~~----~~li~~~~~~~~~~~a~~~~  196 (324)
                                                           .++.+.+. ...|+.. .+    ...+.++...|++++|...|
T Consensus       181 ~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~  260 (765)
T PRK10049        181 AEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEY  260 (765)
T ss_pred             HHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence                                                 33344322 1122211 11    11133455778899999999


Q ss_pred             HHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc---CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          197 KKMEEEKLG-ADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSV---LYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       197 ~~m~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      +.+.+.+.. |+. .-..+..+|...|++++|+..|+++.......   .......+..++...|++++|..+++.+...
T Consensus       261 ~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~  339 (765)
T PRK10049        261 QRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINN  339 (765)
T ss_pred             HHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhc
Confidence            998887642 332 22224678889999999999999887543111   1344566677788999999999999888765


Q ss_pred             CC-----------CcC---HhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          273 DI-----------KLD---TELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       273 ~~-----------~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      ..           .|+   ...+..+...+...|+.++|+++++++...
T Consensus       340 ~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~  388 (765)
T PRK10049        340 SPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN  388 (765)
T ss_pred             CCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            31           122   224456677888889999999999988654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.59  E-value=3.6e-11  Score=110.17  Aligned_cols=90  Identities=12%  Similarity=0.008  Sum_probs=56.5

Q ss_pred             HHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHH
Q 038109           42 VNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDE  121 (324)
Q Consensus        42 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~  121 (324)
                      ...+...|++++|.++++++.+.. +.++..+..++..+...++.++|.+.++.+....|+...+-.++..+...++..+
T Consensus       109 A~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~  187 (822)
T PRK14574        109 ARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYD  187 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHH
Confidence            445666677777777777776652 3344555566666777777777777777776666665555444444444555555


Q ss_pred             HHHHHHHHHhC
Q 038109          122 ALRVVDIMAEG  132 (324)
Q Consensus       122 a~~~~~~m~~~  132 (324)
                      |++.++++.+.
T Consensus       188 AL~~~ekll~~  198 (822)
T PRK14574        188 ALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHHHh
Confidence            77777776654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.56  E-value=1.5e-11  Score=105.36  Aligned_cols=253  Identities=12%  Similarity=0.020  Sum_probs=195.1

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCCchhhHhh-hhchhhhhhHHHHHHHHHHHhcCCCCHHHHH--HHHHHHHccCCHHHHH
Q 038109           47 HERDLETVRYLLNKRARDCCFNTANTFNFI-TNTENSLSVLSDLCRTLARLDKGFPRKSAYD--TLIGRLCKLKKIDEAL  123 (324)
Q Consensus        47 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~--~li~~~~~~~~~~~a~  123 (324)
                      ..|+++.|.+......+.  .+++..+..+ .....+.|+++.+...+.++.+..|+.....  .....+...|+++.|.
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 AEGDYQQVEKLMTRNADH--AEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             hCCCHHHHHHHHHHHHhc--ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            369999999888776554  2233333333 4455889999999999999988778765333  3467889999999999


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHhcCChhhHHHHH
Q 038109          124 RVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDL-------TAYNYLLTAYCFKGNLTATSGVL  196 (324)
Q Consensus       124 ~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-------~~~~~li~~~~~~~~~~~a~~~~  196 (324)
                      +.++++.+.... +......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...+++
T Consensus       174 ~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        174 HGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            999999987533 6788899999999999999999999999998755332       23344444444555667777777


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc
Q 038109          197 KKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL  276 (324)
Q Consensus       197 ~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (324)
                      +.+.+.- +.+......+...+...|+.++|.+++++..+.  .|+....  ++.+....++.+++.+..+...+..+ -
T Consensus       253 ~~lp~~~-~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P-~  326 (398)
T PRK10747        253 KNQSRKT-RHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHG-D  326 (398)
T ss_pred             HhCCHHH-hCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCC-C
Confidence            7765542 347888999999999999999999999998874  4555322  34455566999999999999888753 3


Q ss_pred             CHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          277 DTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       277 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      |+..+..+...+.+.|++++|.+.|+...+..
T Consensus       327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~  358 (398)
T PRK10747        327 TPLLWSTLGQLLMKHGEWQEASLAFRAALKQR  358 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            77778899999999999999999999998664

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

Probab=99.56  E-value=3.6e-11  Score=97.10  Aligned_cols=284  Identities=11%  Similarity=0.031  Sum_probs=222.6

Q ss_pred             CccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHH
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDL   89 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a   89 (324)
                      .|++.+|...+..-.++.   ..|. ..|-.-..+.-+.|+.+.+.+.+.+..+.--.++....-.........|+.+.|
T Consensus        97 eG~~~qAEkl~~rnae~~---e~p~-l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA  172 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHG---EQPV-LAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAA  172 (400)
T ss_pred             cCcHHHHHHHHHHhhhcC---cchH-HHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhH
Confidence            577888888877755555   3443 346677777888999999999999888753345555666677788889999999


Q ss_pred             HHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCh-------hhHHHHHHHHHccCcHHHHHHHH
Q 038109           90 CRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSA-------ITFHPILSVLTRGKRMEEAWGLM  161 (324)
Q Consensus        90 ~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-------~~~~~li~~~~~~~~~~~a~~~~  161 (324)
                      ..-++.+.+..| ..........+|.+.|++.....++..|.+.|.--+.       .+|..+++-....+..+.-...|
T Consensus       173 ~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W  252 (400)
T COG3071         173 RENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWW  252 (400)
T ss_pred             HHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHH
Confidence            999999987777 5668899999999999999999999999999876443       57777777777767666666666


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCC
Q 038109          162 EVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD-GQS  240 (324)
Q Consensus       162 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~  240 (324)
                      ++..+. ...+...-.+++.-+.++|+.++|.++.++..+.+..|.    -...-.+.+-++.+.-++..+.-.+. +..
T Consensus       253 ~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~  327 (400)
T COG3071         253 KNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQHPED  327 (400)
T ss_pred             HhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhCCCC
Confidence            665443 344566667788889999999999999999988877666    22233456778877777777765543 444


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          241 VLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       241 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      |  ..+..|-..|.+.+.+.+|...|+...+.  .|+..+|+.+.+++.+.|+..+|.++.++-.-
T Consensus       328 p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         328 P--LLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             h--hHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            5  67778889999999999999999987775  68999999999999999999999999988763

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

Probab=99.54  E-value=5e-12  Score=108.06  Aligned_cols=267  Identities=14%  Similarity=0.022  Sum_probs=191.1

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHhcC--CCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Q 038109           36 AYYDDLVNAAGHERDLETVRYLLNKRARDC--CFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGR  112 (324)
Q Consensus        36 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~  112 (324)
                      .....+-.+|...+++++|.++|+...+..  ...+..+|...+-.+-+.-...   -+-..+.+..| ...+|.++.+.
T Consensus       354 wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls---~Laq~Li~~~~~sPesWca~GNc  430 (638)
T KOG1126|consen  354 WVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALS---YLAQDLIDTDPNSPESWCALGNC  430 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHH---HHHHHHHhhCCCCcHHHHHhcch
Confidence            444555556666666666666666665431  1223344544443322211111   11122222234 45589999999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHH---HHHHHHHhcCCh
Q 038109          113 LCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYN---YLLTAYCFKGNL  189 (324)
Q Consensus       113 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~---~li~~~~~~~~~  189 (324)
                      |.-+++.+.|++.|++..+-... ..++|+.+-.-+.....+|+|...|......    |...||   -+...|.+.+++
T Consensus       431 fSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~----~~rhYnAwYGlG~vy~Kqek~  505 (638)
T KOG1126|consen  431 FSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGV----DPRHYNAWYGLGTVYLKQEKL  505 (638)
T ss_pred             hhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcC----CchhhHHHHhhhhheeccchh
Confidence            99999999999999999874322 6788888888888889999999999887653    444554   456778999999


Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          190 TATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       190 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      +.|+-.|++..+-++. +.+....+...+.+.|+.|+|++++++......+ |+.+--.-...+...++.++|+..++++
T Consensus       506 e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeL  583 (638)
T KOG1126|consen  506 EFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQELEEL  583 (638)
T ss_pred             hHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHH
Confidence            9999999999887766 7777778888899999999999999998865432 3333334566678889999999999999


Q ss_pred             CCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhH
Q 038109          270 GGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGF  313 (324)
Q Consensus       270 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  313 (324)
                      ++.- +-+...|..+...|.+.|+.+.|+.-|.-+.+.+-+..+
T Consensus       584 k~~v-P~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~~  626 (638)
T KOG1126|consen  584 KELV-PQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGAQ  626 (638)
T ss_pred             HHhC-cchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccch
Confidence            8863 336777888889999999999999999888777666655

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

Probab=99.54  E-value=2.1e-11  Score=95.76  Aligned_cols=262  Identities=13%  Similarity=0.064  Sum_probs=121.7

Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhcCCCCCc------hhhHhhhhchhhhhhHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Q 038109           40 DLVNAAGHERDLETVRYLLNKRARDCCFNTA------NTFNFITNTENSLSVLSDLCRTLARLDKG-FPRKSAYDTLIGR  112 (324)
Q Consensus        40 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~p~~~~~~~li~~  112 (324)
                      +|=+.|-+.|..++|+++++.+.++   ||.      ...-.|..-|...|-+|.|+.+|..+.+. .--..+...|+..
T Consensus        74 tLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~I  150 (389)
T COG2956          74 TLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNI  150 (389)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHH
Confidence            3334444555555555555555442   221      11223344445555555555555555331 1122344455555


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 038109          113 LCKLKKIDEALRVVDIMAEGGFGLS----AITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGN  188 (324)
Q Consensus       113 ~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  188 (324)
                      |-...+|++|+++-+++.+.|-.+.    ...|.-+...+....+.+.|...+++..+.+.+ .+..--.+.+.+...|+
T Consensus       151 YQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~  229 (389)
T COG2956         151 YQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKK-CVRASIILGRVELAKGD  229 (389)
T ss_pred             HHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccc
Confidence            5555555555555555554432221    122333333334444555555555554443211 22222233445555556


Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038109          189 LTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMV  268 (324)
Q Consensus       189 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  268 (324)
                      ++.|.+.++...+.++.--..+...|..+|.+.|+.++....+..+.+....++  .-..+-+......-.+.|...+.+
T Consensus       230 y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~--~~l~l~~lie~~~G~~~Aq~~l~~  307 (389)
T COG2956         230 YQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGAD--AELMLADLIELQEGIDAAQAYLTR  307 (389)
T ss_pred             hHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCcc--HHHHHHHHHHHhhChHHHHHHHHH
Confidence            666666665555554443344555555566666666666555555554322222  222233333333344444444433


Q ss_pred             hCCCCCCcCHhHHHHHHHHHhC---cCCHHHHHHHHHHHHhCCC
Q 038109          269 CGGRDIKLDTELFGSLGSKLIG---LERFNEANFILKEMNKRDL  309 (324)
Q Consensus       269 ~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~  309 (324)
                      -...  +|+...+..++..-..   -|...+...+++.|....+
T Consensus       308 Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l  349 (389)
T COG2956         308 QLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQL  349 (389)
T ss_pred             HHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHH
Confidence            3332  4566666666654432   2445556666666654433

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

Probab=99.54  E-value=5.8e-13  Score=116.90  Aligned_cols=91  Identities=10%  Similarity=0.036  Sum_probs=78.9

Q ss_pred             HHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCC
Q 038109           21 RSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGF  100 (324)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  100 (324)
                      +++..+...|+.|+..||.++|.-||..|+.+.|- +|.-|.-+..+.+...|+.++......++.+.+.         .
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------e   80 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------E   80 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------C
Confidence            34455566679999999999999999999999998 9999988888888899999999999988887765         3


Q ss_pred             CCHHHHHHHHHHHHccCCHHH
Q 038109          101 PRKSAYDTLIGRLCKLKKIDE  121 (324)
Q Consensus       101 p~~~~~~~li~~~~~~~~~~~  121 (324)
                      |...+|..|..+|...||+..
T Consensus        81 p~aDtyt~Ll~ayr~hGDli~  101 (1088)
T KOG4318|consen   81 PLADTYTNLLKAYRIHGDLIL  101 (1088)
T ss_pred             CchhHHHHHHHHHHhccchHH
Confidence            788899999999999999866

>TIGR00540 hemY_coli hemY protein

Probab=99.53  E-value=3e-11  Score=104.09  Aligned_cols=272  Identities=11%  Similarity=-0.074  Sum_probs=194.3

Q ss_pred             HHHHHHH--hcCCCHHHHHHHHHHHHhcCCCCCchh-hHhhhhchhhhhhHHHHHHHHHHHhcCCCCHH--HHHHHHHHH
Q 038109           39 DDLVNAA--GHERDLETVRYLLNKRARDCCFNTANT-FNFITNTENSLSVLSDLCRTLARLDKGFPRKS--AYDTLIGRL  113 (324)
Q Consensus        39 ~~ll~~~--~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~--~~~~li~~~  113 (324)
                      ..+..+.  ...|+++.|.+.+....+.  .|++.. +-....+....|+.+.+.+.+.+..+..|+..  ..-.....+
T Consensus        86 ~~~~~glla~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~  163 (409)
T TIGR00540        86 KQTEEALLKLAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRIL  163 (409)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHH
Confidence            3344443  4689999999999887664  455433 33446777888999999999999877777653  444468889


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH---HhcCChh
Q 038109          114 CKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAY---CFKGNLT  190 (324)
Q Consensus       114 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~---~~~~~~~  190 (324)
                      ...|+++.|.+.++.+.+.... +..++..+...+...|++++|.+.+..+.+.+..+.......-..++   ...+..+
T Consensus       164 l~~~~~~~Al~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~  242 (409)
T TIGR00540       164 LAQNELHAARHGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMAD  242 (409)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999997633 67788899999999999999999999999987643332212222222   2233333


Q ss_pred             hHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHH--H-HHHHHHHHhcCCHHHHHH
Q 038109          191 ATSGVLKKMEEEKLG---ADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYST--Y-AHVMGALLRLGYYAQAVK  264 (324)
Q Consensus       191 ~a~~~~~~m~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~--~-~~li~~~~~~g~~~~a~~  264 (324)
                      ++.+.+..+.+..+.   .+...+..+...+...|+.++|.+++++..+..  |+...  + ....-.....++.+.+.+
T Consensus       243 ~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~  320 (409)
T TIGR00540       243 EGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEK  320 (409)
T ss_pred             cCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHH
Confidence            334455555444221   278899999999999999999999999998753  44331  1 112222344578888999


Q ss_pred             HHHHhCCCCCCcCH--hHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhHHHH
Q 038109          265 FVMVCGGRDIKLDT--ELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLR  316 (324)
Q Consensus       265 ~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  316 (324)
                      .++...+..+ -|+  ....++...+.+.|++++|.+.|+........|++...
T Consensus       321 ~~e~~lk~~p-~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~  373 (409)
T TIGR00540       321 LIEKQAKNVD-DKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDL  373 (409)
T ss_pred             HHHHHHHhCC-CChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHH
Confidence            8888777532 245  66778999999999999999999965555555655543

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.

>PF13041 PPR_2: PPR repeat family

Probab=99.53  E-value=3.5e-14  Score=83.10  Aligned_cols=48  Identities=35%  Similarity=0.595  Sum_probs=21.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 038109          206 ADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGAL  253 (324)
Q Consensus       206 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  253 (324)
                      ||..+||++|.+|++.|++++|+++|++|.+.|++||..||+.+|++|
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~   48 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGL   48 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444444

>PF13041 PPR_2: PPR repeat family

Probab=99.53  E-value=3.5e-14  Score=83.09  Aligned_cols=50  Identities=32%  Similarity=0.741  Sum_probs=43.7

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 038109          171 PDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACR  220 (324)
Q Consensus       171 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  220 (324)
                      ||+.+||++|++|++.|++++|.++|++|.+.|+.||..||+.+|++|++
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            78888888888888888888888888888888888888888888888874

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

Probab=99.52  E-value=3e-12  Score=109.40  Aligned_cols=256  Identities=15%  Similarity=0.039  Sum_probs=197.1

Q ss_pred             CHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC----CHHHHHHHHHHHHccCCHHHHHHH
Q 038109           50 DLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP----RKSAYDTLIGRLCKLKKIDEALRV  125 (324)
Q Consensus        50 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p----~~~~~~~li~~~~~~~~~~~a~~~  125 (324)
                      +..+|...|.....+ +.-+......+.++|...+++++++++|+.+.+..|    +..+|.+.+--+-+.    -++..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHH
Confidence            567889999885544 445557778899999999999999999999987765    566888877544322    12222


Q ss_pred             H-HHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC
Q 038109          126 V-DIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSP-DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK  203 (324)
Q Consensus       126 ~-~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  203 (324)
                      + +.+.+. -+-.+.+|.++.++|.-.++++.|++.|++..+..  | ...+|+.+..=+.....+|.|...|+......
T Consensus       409 Laq~Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld--p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~  485 (638)
T KOG1126|consen  409 LAQDLIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD--PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD  485 (638)
T ss_pred             HHHHHHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC--CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC
Confidence            2 233332 22367899999999999999999999999998854  4 67888888888899999999999999887653


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHH
Q 038109          204 LGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSV-LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFG  282 (324)
Q Consensus       204 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  282 (324)
                      .. +-..|--+.-.|.+.++++.|+-.|++..+-  .| +......+...+.+.|+.++|+.++++......+ |+..--
T Consensus       486 ~r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~I--NP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~  561 (638)
T KOG1126|consen  486 PR-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEI--NPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKY  561 (638)
T ss_pred             ch-hhHHHHhhhhheeccchhhHHHHHHHhhhcC--CccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHH
Confidence            33 4445555778899999999999999988754  44 4556667777889999999999999999887655 555555


Q ss_pred             HHHHHHhCcCCHHHHHHHHHHHHhCCCchhHHHHHHH
Q 038109          283 SLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRDYY  319 (324)
Q Consensus       283 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~  319 (324)
                      .-+..+...+++++|++.++++++  +.|+.+.+.++
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~l  596 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKE--LVPQESSVFAL  596 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHH
Confidence            567778888999999999999984  56655554443

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

Probab=99.52  E-value=1.6e-10  Score=90.93  Aligned_cols=256  Identities=14%  Similarity=0.065  Sum_probs=201.6

Q ss_pred             hcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCC--C---CHHHHHHHHHHHHccCCHH
Q 038109           46 GHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGF--P---RKSAYDTLIGRLCKLKKID  120 (324)
Q Consensus        46 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p---~~~~~~~li~~~~~~~~~~  120 (324)
                      .-+++.++|.+.|-+|.+. -+.+..+.-+|.+.|.+.|.++.|+++...+.+..  +   ...+...|..-|...|-+|
T Consensus        46 LLs~Q~dKAvdlF~e~l~~-d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~D  124 (389)
T COG2956          46 LLSNQPDKAVDLFLEMLQE-DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLD  124 (389)
T ss_pred             HhhcCcchHHHHHHHHHhc-CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhh
Confidence            3467899999999999884 24455677789999999999999999999986553  1   1225667889999999999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChhhHHHHH
Q 038109          121 EALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPD----LTAYNYLLTAYCFKGNLTATSGVL  196 (324)
Q Consensus       121 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~  196 (324)
                      .|+.+|..+.+.|.- -......|+..|-...+|++|.++-+++.+.+..+.    ...|--+...+....+++.|..++
T Consensus       125 RAE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         125 RAEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            999999999986543 456778899999999999999999999998876654    345677788888899999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc
Q 038109          197 KKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL  276 (324)
Q Consensus       197 ~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (324)
                      .+..+.+.+ .+..--.+-+.....|+++.|.+.++...+.+...-..+...|..+|.+.|+.++....+..+.+...  
T Consensus       204 ~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~--  280 (389)
T COG2956         204 KKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNT--  280 (389)
T ss_pred             HHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccC--
Confidence            999887555 55555667788999999999999999999887666678888999999999999999999988877533  


Q ss_pred             CHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          277 DTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       277 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      ....-..+.+.-....-.+.|..++.+-..
T Consensus       281 g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~  310 (389)
T COG2956         281 GADAELMLADLIELQEGIDAAQAYLTRQLR  310 (389)
T ss_pred             CccHHHHHHHHHHHhhChHHHHHHHHHHHh
Confidence            333333444444444455666666555443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.51  E-value=1.6e-10  Score=105.90  Aligned_cols=288  Identities=10%  Similarity=-0.027  Sum_probs=201.1

Q ss_pred             CCccchhHHHHHHHHhhhcCCCCCCCH--HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhH
Q 038109            9 TKFLIPQSVLVTRSFTKSGAFPDEPTS--AYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVL   86 (324)
Q Consensus         9 ~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~   86 (324)
                      +.|....|...+.......     |+.  ..+ .++..+...|+.++|+..+++.... .+........+...+...|++
T Consensus        46 r~Gd~~~Al~~L~qaL~~~-----P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         46 RAGDTAPVLDYLQEESKAG-----PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             hCCCHHHHHHHHHHHHhhC-----ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCH
Confidence            3455566666555554444     432  233 7788888889999999999988721 122223333335678888999


Q ss_pred             HHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHH
Q 038109           87 SDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMK  165 (324)
Q Consensus        87 ~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  165 (324)
                      ++|.++++++.+..|+ ...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|++.++++.
T Consensus       119 d~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll  196 (822)
T PRK14574        119 DQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAV  196 (822)
T ss_pred             HHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            9999999999888874 557778889999999999999999999875  3455555444444444566666999999998


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCChhhHHHH------------------------------------------------HH
Q 038109          166 EIRVSPDLTAYNYLLTAYCFKGNLTATSGV------------------------------------------------LK  197 (324)
Q Consensus       166 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~------------------------------------------------~~  197 (324)
                      +.. +-+...+..++.+..+.|-...|.++                                                ++
T Consensus       197 ~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~  275 (822)
T PRK14574        197 RLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQ  275 (822)
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHH
Confidence            874 22455556666666666543333322                                                22


Q ss_pred             HHHHC-CCCCCH-HHH----HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          198 KMEEE-KLGADA-RTY----DALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       198 ~m~~~-~~~~~~-~~~----~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      .+... +..|.. ..|    -=.+.++...|+..++++.|+.+...|.+....+-..+.++|...+++++|..++..+..
T Consensus       276 ~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~  355 (822)
T PRK14574        276 NLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYY  355 (822)
T ss_pred             HHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhh
Confidence            22221 111321 111    224566778899999999999999888654445778899999999999999999999865


Q ss_pred             CC-----CCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          272 RD-----IKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       272 ~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      ..     ..++......|..+|...+++++|..+++++.+
T Consensus       356 ~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~  395 (822)
T PRK14574        356 SDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSE  395 (822)
T ss_pred             ccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence            43     123444467899999999999999999999987

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.50  E-value=3.2e-11  Score=95.80  Aligned_cols=197  Identities=14%  Similarity=0.043  Sum_probs=108.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+... .+...+..+...+.
T Consensus        33 ~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~~  110 (234)
T TIGR02521        33 IRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTFLC  110 (234)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHH
Confidence            44555555556666666666666555432 12344555555555566666666666665555432 23445555555666


Q ss_pred             hcCChhhHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGA-DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAV  263 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  263 (324)
                      ..|++++|.+.+++..+....+ ....+..+...+...|++++|.+.+++...... .+...+..+...+...|++++|.
T Consensus       111 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~  189 (234)
T TIGR02521       111 QQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYYLRGQYKDAR  189 (234)
T ss_pred             HcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHHHcCCHHHHH
Confidence            6666666666666655432111 234455555566666666666666666554321 23345555566666666666666


Q ss_pred             HHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          264 KFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       264 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      .+++...+. .+.+...+..+...+...|+.++|..+.+.+.
T Consensus       190 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       190 AYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            666665554 23344555555566666666666666665554

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

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.48  E-value=8.8e-11  Score=93.24  Aligned_cols=201  Identities=12%  Similarity=-0.029  Sum_probs=168.4

Q ss_pred             CCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 038109           68 NTANTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILS  146 (324)
Q Consensus        68 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  146 (324)
                      .....+..+...+...|++++|...+++..+..|+ ...+..+...+...|++++|.+.+++..+... .+...+..+..
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~  107 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGT  107 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHH
Confidence            34567788889999999999999999998776664 56888899999999999999999999988643 35667888888


Q ss_pred             HHHccCcHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 038109          147 VLTRGKRMEEAWGLMEVMKEIRV-SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVE  225 (324)
Q Consensus       147 ~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  225 (324)
                      .+...|++++|...+++...... ......+..+..++...|++++|...+++..+.... +...+..+...+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHH
Confidence            99999999999999999887532 224556777888999999999999999999887544 5778888999999999999


Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          226 EAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       226 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      +|.+.+++.... ...+...+..+...+...|+.+.|..+.+.+..
T Consensus       187 ~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       187 DARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999999998876 334566777788888899999999998877654

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.

>PRK12370 invasion protein regulator; Provisional

Probab=99.48  E-value=6.4e-11  Score=105.85  Aligned_cols=265  Identities=9%  Similarity=-0.072  Sum_probs=177.2

Q ss_pred             CCHHHHHHHHHHHhc-----CCCHHHHHHHHHHHHhcCCCCC-chhhHhhhhchh---------hhhhHHHHHHHHHHHh
Q 038109           33 PTSAYYDDLVNAAGH-----ERDLETVRYLLNKRARDCCFNT-ANTFNFITNTEN---------SLSVLSDLCRTLARLD   97 (324)
Q Consensus        33 ~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~   97 (324)
                      .+...|...+.+-..     .+++++|.+.|++..+.  .|+ ...|..+..++.         ..+++++|...+++..
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            444556666665422     23467899999988875  344 345555544433         3355889999999988


Q ss_pred             cCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHH
Q 038109           98 KGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY  176 (324)
Q Consensus        98 ~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  176 (324)
                      +..| +..++..+...+...|++++|...|++..+.+. .+...+..+...+...|++++|...+++..+.... +...+
T Consensus       332 ~ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~  409 (553)
T PRK12370        332 ELDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSP-ISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAG  409 (553)
T ss_pred             hcCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhH
Confidence            8777 456888888888899999999999999988642 25667788888899999999999999998886533 22233


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHH-HHHHHHHHHh
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYST-YAHVMGALLR  255 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~  255 (324)
                      ..++..+...|++++|...+++......+-+...+..+..++...|+.++|...++++...  .|+..+ .+.+...+..
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhc
Confidence            3445556678899999999988876543224556777888888999999999999887643  344333 3444455666


Q ss_pred             cCCHHHHHHHHHHhCCCC-CCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          256 LGYYAQAVKFVMVCGGRD-IKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       256 ~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      .|  +.|...++.+.+.. -.+....+  +-..|.-.|+-+.+..+ +++.+.|
T Consensus       488 ~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        488 NS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            66  46666665554421 11222222  33334445666666655 7776654

>PRK12370 invasion protein regulator; Provisional

Probab=99.47  E-value=1.5e-10  Score=103.49  Aligned_cols=218  Identities=11%  Similarity=-0.060  Sum_probs=164.5

Q ss_pred             hhhHHHHHHHHHHHhcCCCCH-HHHHHHHHHHH---------ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC
Q 038109           83 LSVLSDLCRTLARLDKGFPRK-SAYDTLIGRLC---------KLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGK  152 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~p~~-~~~~~li~~~~---------~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~  152 (324)
                      .+..++|...|++..+..|+. ..|..+..++.         ..+++++|...+++..+.... +...+..+...+...|
T Consensus       274 ~~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        274 PYSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHN-NPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcc
Confidence            356789999999998888854 46666655443         234589999999999986433 6777888888889999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038109          153 RMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLR  232 (324)
Q Consensus       153 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  232 (324)
                      ++++|...+++..+.+ +.+...+..+..++...|++++|...+++..+..+. +...+..+...+...|++++|...++
T Consensus       353 ~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            9999999999998875 235677888899999999999999999999987655 33334445555777899999999999


Q ss_pred             HHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          233 RMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       233 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      +......+-+...+..+..++...|+.++|...+..+.... ..+....+.+...|...|  ++|...++++.+
T Consensus       431 ~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        431 ELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            98765322234446667778889999999999998876652 223444555666777777  477777777654

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

Probab=99.47  E-value=9.2e-11  Score=96.46  Aligned_cols=254  Identities=12%  Similarity=0.012  Sum_probs=198.9

Q ss_pred             HHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC----CHHHHHHHHHHHHccCCH
Q 038109           44 AAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP----RKSAYDTLIGRLCKLKKI  119 (324)
Q Consensus        44 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p----~~~~~~~li~~~~~~~~~  119 (324)
                      ++......+++.+-.......|++.+...-+....+.-...++++|+..|+++.+..|    |..+|+.++-.-....++
T Consensus       236 a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skL  315 (559)
T KOG1155|consen  236 AYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKL  315 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHH
Confidence            3444556777777777777778777776666667777788899999999999987765    566777766443322211


Q ss_pred             -HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHH
Q 038109          120 -DEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKK  198 (324)
Q Consensus       120 -~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  198 (324)
                       -.|..+++ .  ...  -+.|+.++.+-|.-.++.++|...|++..+.+.. ....|+.+..-|....+...|.+-++.
T Consensus       316 s~LA~~v~~-i--dKy--R~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRr  389 (559)
T KOG1155|consen  316 SYLAQNVSN-I--DKY--RPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRR  389 (559)
T ss_pred             HHHHHHHHH-h--ccC--CccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHH
Confidence             12222221 1  112  3467788888888999999999999999987532 567888888999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCH
Q 038109          199 MEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDT  278 (324)
Q Consensus       199 m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (324)
                      ..+-++. |-..|-.|-.+|.-.+...-|+-.|++..+-. +-|...|.+|-..|.+.++.++|.+.|......|- .+.
T Consensus       390 Avdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~  466 (559)
T KOG1155|consen  390 AVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEG  466 (559)
T ss_pred             HHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cch
Confidence            9988766 89999999999999999999999999987643 24678899999999999999999999999888763 366


Q ss_pred             hHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          279 ELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       279 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      ..+..|...|-+.++.++|.+.+++-.+
T Consensus       467 ~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  467 SALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            8899999999999999999999887654

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

Probab=99.44  E-value=4.2e-10  Score=92.69  Aligned_cols=272  Identities=15%  Similarity=0.069  Sum_probs=190.6

Q ss_pred             CCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCC--CCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHH
Q 038109           30 PDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCC--FNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYD  107 (324)
Q Consensus        30 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  107 (324)
                      |+.-+...-+....+.-...++++|..+|++..+..-  ..|..+|+.++-+-.....+.-.-.....+.+  -.+.|..
T Consensus       257 gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idK--yR~ETCC  334 (559)
T KOG1155|consen  257 GFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDK--YRPETCC  334 (559)
T ss_pred             cCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhcc--CCcccee
Confidence            3444433333333344567899999999999988631  23446666665543333332222222222222  2344677


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 038109          108 TLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKG  187 (324)
Q Consensus       108 ~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  187 (324)
                      .+.+-|.-.++.++|...|++..+-+.. ....|+.+..-|....+...|...+....+.. +.|-..|-.+.++|.-.+
T Consensus       335 iIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~  412 (559)
T KOG1155|consen  335 IIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMK  412 (559)
T ss_pred             eehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhc
Confidence            7788888888899999999988875433 46778888888999999999999999888764 347788888999999999


Q ss_pred             ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038109          188 NLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVM  267 (324)
Q Consensus       188 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  267 (324)
                      ...-|+-.|++.....+. |...|.+|..+|.+.++.++|++.|+.....|- .+...+..|.+.|-+.++..+|...+.
T Consensus       413 Mh~YaLyYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~d~~eAa~~ye  490 (559)
T KOG1155|consen  413 MHFYALYYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELKDLNEAAQYYE  490 (559)
T ss_pred             chHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            999999999988876544 788999999999999999999999988887654 356778888899999999988888775


Q ss_pred             HhCC----CCCCcC--HhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          268 VCGG----RDIKLD--TELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       268 ~~~~----~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      ...+    .|...+  ....--|..-+.+.+++++|..+.......
T Consensus       491 k~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~  536 (559)
T KOG1155|consen  491 KYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG  536 (559)
T ss_pred             HHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC
Confidence            5433    232222  222223556677888888888777665443

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

Probab=99.44  E-value=1.9e-11  Score=96.28  Aligned_cols=230  Identities=11%  Similarity=0.107  Sum_probs=195.2

Q ss_pred             HhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCc
Q 038109           74 NFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKR  153 (324)
Q Consensus        74 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~  153 (324)
                      +.+.++|.+.|-+.+|++.+....+..|-+.||-.|-+.|.+..+...|+.++.+-.+. ++-++....-+.+.+-..++
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~  305 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQ  305 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHh
Confidence            56789999999999999999999888899999999999999999999999999888775 44444444556677778899


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038109          154 MEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRR  233 (324)
Q Consensus       154 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  233 (324)
                      .++|.++++...+.. +.++....++...|.-.++++-|+..|+++.+.|+. +...|+.+.-+|.-.+++|-++.-|++
T Consensus       306 ~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~R  383 (478)
T KOG1129|consen  306 QEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQR  383 (478)
T ss_pred             HHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHH
Confidence            999999999988874 347777778888899999999999999999999998 999999999999999999999999998


Q ss_pred             HHHCCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          234 MVDDGQSVL--YSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       234 m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      ....--.|+  ...|-.+-......|++..|.+.|+-....+.. +...++.|.-.-.+.|++++|..+++.....
T Consensus       384 Alstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  384 ALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            876544444  344555777778889999999999998887643 6788999988889999999999999976543

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

Probab=99.42  E-value=5.5e-11  Score=93.72  Aligned_cols=229  Identities=9%  Similarity=0.017  Sum_probs=196.9

Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHH-HHHHHHHHccC
Q 038109           39 DDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAY-DTLIGRLCKLK  117 (324)
Q Consensus        39 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-~~li~~~~~~~  117 (324)
                      +.+-++|.+.|-+.+|.+.++..++.  .|-+.||-.|-++|.+......|..++.+-.+.+|-.+|| .-+.+.+-..+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHH
Confidence            56777888999999999999988875  6888999999999999999999999999998889977766 45778888899


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHH
Q 038109          118 KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLK  197 (324)
Q Consensus       118 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  197 (324)
                      +.++|.++|+...+... .++.....+...|.-.++++.|.+.+.++.+.|+. +...|+.+.-+|.-.++++-++.-|.
T Consensus       305 ~~~~a~~lYk~vlk~~~-~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLHP-INVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             hHHHHHHHHHHHHhcCC-ccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            99999999999987633 36777777888899999999999999999999986 78889999999999999999999999


Q ss_pred             HHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          198 KMEEEKLGAD--ARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       198 ~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      +....--.|+  ...|-.+-...+..|++..|.+.|+-...... -+...++.|.-.-.+.|+++.|..+++.....
T Consensus       383 RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~-~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  383 RALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDA-QHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCc-chHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            8876544444  45688888888899999999999998876543 45678888888889999999999999887664

>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=99.40  E-value=1.5e-09  Score=94.52  Aligned_cols=288  Identities=12%  Similarity=0.024  Sum_probs=198.3

Q ss_pred             CCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHh-hhhchh----
Q 038109            7 LPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNF-ITNTEN----   81 (324)
Q Consensus         7 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-l~~~~~----   81 (324)
                      +.+.|..++|+..+..-...    +.-....+......+.+.|+.++|..+|..+++.+  |+...|.. +..+..    
T Consensus        14 l~e~g~~~~AL~~L~~~~~~----I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   14 LEEAGDYEEALEHLEKNEKQ----ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHCCCHHHHHHHHHhhhhh----CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcc
Confidence            34567777777766443222    22334456777778889999999999999999875  55554444 444431    


Q ss_pred             -hhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCH-HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHH
Q 038109           82 -SLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKI-DEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWG  159 (324)
Q Consensus        82 -~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~  159 (324)
                       .....+....+++++...+|...+...+.-.+.....+ ..+...+..+...|+|   .+|+.+-..|.......-...
T Consensus        88 ~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHH
Confidence             12356777888888887777655444443333322223 3455666777788876   456666666766655555666


Q ss_pred             HHHHHHhC----C----------CCCCH--HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 038109          160 LMEVMKEI----R----------VSPDL--TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGR  223 (324)
Q Consensus       160 ~~~~m~~~----~----------~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  223 (324)
                      ++......    +          -+|+.  .++.-+...|...|++++|++++++..+..+. .+..|..-...+-+.|+
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh~G~  243 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILKHAGD  243 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHCCC
Confidence            66655432    1          12344  35566678888999999999999998887443 47889999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhH--------HHHHHHHHhCcCCHH
Q 038109          224 VEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTEL--------FGSLGSKLIGLERFN  295 (324)
Q Consensus       224 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--------~~~l~~~~~~~g~~~  295 (324)
                      +++|.+.++..+.... -|...=+-.+..+.+.|++++|.+++....+.+..|-...        ......+|.+.|++.
T Consensus       244 ~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~  322 (517)
T PF12569_consen  244 LKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYG  322 (517)
T ss_pred             HHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            9999999999887653 4566666678889999999999999988877664433222        234467888999999


Q ss_pred             HHHHHHHHHH
Q 038109          296 EANFILKEMN  305 (324)
Q Consensus       296 ~a~~~~~~m~  305 (324)
                      .|++.|..+.
T Consensus       323 ~ALk~~~~v~  332 (517)
T PF12569_consen  323 LALKRFHAVL  332 (517)
T ss_pred             HHHHHHHHHH
Confidence            9988777664

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 [], [].

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

Probab=99.32  E-value=4.6e-09  Score=86.66  Aligned_cols=278  Identities=13%  Similarity=-0.000  Sum_probs=199.4

Q ss_pred             CCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhc-CCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhh
Q 038109            7 LPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGH-ERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSV   85 (324)
Q Consensus         7 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~   85 (324)
                      +.+.|.+.+|++++.+|+.....  ..+...-|.-+-.|.+ -.++..|.+.-+..+... .-++.....-.+.....|+
T Consensus       429 ~lk~~d~~~aieilkv~~~kdnk--~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  429 LLKNGDIEGAIEILKVFEKKDNK--TASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHhccCHHHHHHHHHHHHhccch--hhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCc
Confidence            45677888999999999887632  2222222222222333 346777777766655432 2344444444556677899


Q ss_pred             HHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHH
Q 038109           86 LSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVM  164 (324)
Q Consensus        86 ~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  164 (324)
                      ++.|.+.+.+......+ ....-.+.-.+-..|++++|+..|-++... +.-+..+.-.+.+.|-...+...|.+++.+.
T Consensus       506 ~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~  584 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQA  584 (840)
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHh
Confidence            99999999888654322 222222334566788999999999877543 2236677777788888888999998888776


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 038109          165 KEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYS  244 (324)
Q Consensus       165 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  244 (324)
                      ... ++.|....+-|...|-+.|+-.+|.+.+-+--+. ++-+..+...|...|....-+++++..|++..  =++|+..
T Consensus       585 ~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa--liqp~~~  660 (840)
T KOG2003|consen  585 NSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--LIQPNQS  660 (840)
T ss_pred             ccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--hcCccHH
Confidence            554 5667888899999999999999998876554443 34478888999999999999999999998764  4689999


Q ss_pred             HHHHHHHHHH-hcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCC
Q 038109          245 TYAHVMGALL-RLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLER  293 (324)
Q Consensus       245 ~~~~li~~~~-~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  293 (324)
                      -|..++..|. +.|++.+|..+++...+. ++-|......|++.+...|-
T Consensus       661 kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  661 KWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            9988887655 679999999999998765 66688888888888887764

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

Probab=99.31  E-value=1.8e-08  Score=89.53  Aligned_cols=187  Identities=9%  Similarity=-0.033  Sum_probs=115.8

Q ss_pred             CccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHH
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDL   89 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a   89 (324)
                      +|+.++|..++...-........    .|..|-..|-+.|+.+++...+-..-.. .+.|...|..+.....+.|.++.|
T Consensus       152 rg~~eeA~~i~~EvIkqdp~~~~----ay~tL~~IyEqrGd~eK~l~~~llAAHL-~p~d~e~W~~ladls~~~~~i~qA  226 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDPRNPI----AYYTLGEIYEQRGDIEKALNFWLLAAHL-NPKDYELWKRLADLSEQLGNINQA  226 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCccchh----hHHHHHHHHHHcccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHhcccHHHH
Confidence            46677777766665555533333    3788888888888888887776443332 344556777777777777888888


Q ss_pred             HHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhH----HHHHHHHHccCcHHHHHHHHHHH
Q 038109           90 CRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITF----HPILSVLTRGKRMEEAWGLMEVM  164 (324)
Q Consensus        90 ~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~----~~li~~~~~~~~~~~a~~~~~~m  164 (324)
                      .-.|.+..+..| +...+---+..|-+.|+...|...|.++.+...+.|..-+    -..++.+...++.+.|.+.++..
T Consensus       227 ~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~  306 (895)
T KOG2076|consen  227 RYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGA  306 (895)
T ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            888877766655 3344444456777778888888877777765332232222    22344455566667777666665


Q ss_pred             HhCC-CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 038109          165 KEIR-VSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEE  201 (324)
Q Consensus       165 ~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  201 (324)
                      ...+ -..+...+++++..+.+...++.|......+..
T Consensus       307 ~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~  344 (895)
T KOG2076|consen  307 LSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRN  344 (895)
T ss_pred             HhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhc
Confidence            5421 223445566666677777777766666655544

>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=99.30  E-value=5.3e-09  Score=91.11  Aligned_cols=265  Identities=14%  Similarity=0.085  Sum_probs=192.6

Q ss_pred             HHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHH-HHHHHHHHcc-----C
Q 038109           44 AAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAY-DTLIGRLCKL-----K  117 (324)
Q Consensus        44 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-~~li~~~~~~-----~  117 (324)
                      .+...|++++|++.++.-... +.............+.+.|+.++|..++..+.+..|+...| ..+..+....     .
T Consensus        13 il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~~~   91 (517)
T PF12569_consen   13 ILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLSDE   91 (517)
T ss_pred             HHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhcccccc
Confidence            368889999999999875554 44445667778899999999999999999999989977755 4455555222     3


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHH
Q 038109          118 KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRM-EEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVL  196 (324)
Q Consensus       118 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  196 (324)
                      +.+...++|+++...-  |.......+.-.+.....+ ..+...+..+...|+++   +|+.+-..|....+..-..+++
T Consensus        92 ~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~  166 (517)
T PF12569_consen   92 DVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLV  166 (517)
T ss_pred             cHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHH
Confidence            5788889999887653  3333333332223322233 34556667778888753   5667777777666666666666


Q ss_pred             HHHHHC----C----------CCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCH
Q 038109          197 KKMEEE----K----------LGADAR--TYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL-YSTYAHVMGALLRLGYY  259 (324)
Q Consensus       197 ~~m~~~----~----------~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~  259 (324)
                      ......    +          -.|...  ++.-+...|-..|++++|++++++....  .|+ +..|..-.+.+-+.|++
T Consensus       167 ~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  167 EEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCH
Confidence            655432    1          124443  4455677788999999999999998865  455 66777788889999999


Q ss_pred             HHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhHHHHH
Q 038109          260 AQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRD  317 (324)
Q Consensus       260 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  317 (324)
                      .+|.+.++..+..... |...-+..+..+.+.|++++|.+++......+..|...+.+
T Consensus       245 ~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~  301 (517)
T PF12569_consen  245 KEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLND  301 (517)
T ss_pred             HHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHH
Confidence            9999999999988654 78887888899999999999999999998888766554443

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 [], [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.29  E-value=3.9e-09  Score=91.00  Aligned_cols=235  Identities=15%  Similarity=0.075  Sum_probs=175.5

Q ss_pred             hhhHhhhhchhhhhhHHHHHHHHHHHhcC--------CCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhC-----CC-C
Q 038109           71 NTFNFITNTENSLSVLSDLCRTLARLDKG--------FPRKS-AYDTLIGRLCKLKKIDEALRVVDIMAEG-----GF-G  135 (324)
Q Consensus        71 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~-~  135 (324)
                      .+...+...|...|+++.|+.+++...+.        .|... ..+.+...|...+++++|..+|+++...     |- .
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            67777999999999999999999877432        24443 3455788999999999999999998752     21 1


Q ss_pred             C-ChhhHHHHHHHHHccCcHHHHHHHHHHHHhC-----CC-CCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHHC---CC
Q 038109          136 L-SAITFHPILSVLTRGKRMEEAWGLMEVMKEI-----RV-SPDL-TAYNYLLTAYCFKGNLTATSGVLKKMEEE---KL  204 (324)
Q Consensus       136 ~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~-~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~  204 (324)
                      | -..+++.|-..|.+.|++++|...+++..+.     |. .|.+ ..++.+...|+..+++++|..++....+.   -+
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            2 2456777778899999999998888765431     21 2222 34567778889999999999998865432   12


Q ss_pred             CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC--Cc-CHHHHHHHHHHHHhcCCHHHHHHHHHHhCC--
Q 038109          205 GAD----ARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQ--SV-LYSTYAHVMGALLRLGYYAQAVKFVMVCGG--  271 (324)
Q Consensus       205 ~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~--~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--  271 (324)
                      .++    ..+++.|...|...|++++|.+++++..+.    +.  .+ ....++.+...|.+.++...|.++|.+...  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    468999999999999999999999987643    11  22 245678888999999999989888855432  


Q ss_pred             --CCC--CcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          272 --RDI--KLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       272 --~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                        .|+  +-...+|..|...|.+.|+++.|.++.+...
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence              232  2235789999999999999999999988765

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.29  E-value=4.2e-09  Score=90.78  Aligned_cols=235  Identities=17%  Similarity=0.099  Sum_probs=175.0

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHhc-----CC-CCCc-hhhHhhhhchhhhhhHHHHHHHHHHHhc----C----C
Q 038109           36 AYYDDLVNAAGHERDLETVRYLLNKRARD-----CC-FNTA-NTFNFITNTENSLSVLSDLCRTLARLDK----G----F  100 (324)
Q Consensus        36 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~----~  100 (324)
                      .+...+...|...|+++.|..++++..+.     |. .|.. ...+.+...|...+++++|..+|+++..    .    .
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            45666888999999999999999988764     21 2333 3344577788999999999999988732    1    1


Q ss_pred             CCH-HHHHHHHHHHHccCCHHHHHHHHHHHHh-----CCC-CCCh-hhHHHHHHHHHccCcHHHHHHHHHHHHhC---CC
Q 038109          101 PRK-SAYDTLIGRLCKLKKIDEALRVVDIMAE-----GGF-GLSA-ITFHPILSVLTRGKRMEEAWGLMEVMKEI---RV  169 (324)
Q Consensus       101 p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~-~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~  169 (324)
                      |.+ .+++.|..+|.+.|++++|...+++..+     .|. .|.. ..++.+...|...+++++|..+++...+.   -+
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            332 3788899999999999999998887764     122 2222 34666777888999999999998865432   11


Q ss_pred             CC----CHHHHHHHHHHHHhcCChhhHHHHHHHHHHC----CC--CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--
Q 038109          170 SP----DLTAYNYLLTAYCFKGNLTATSGVLKKMEEE----KL--GA-DARTYDALVLGACRAGRVEEAFVLLRRMVD--  236 (324)
Q Consensus       170 ~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--  236 (324)
                      .+    -..+++.+...|.+.|++++|.++|++....    +-  .+ ....++.|...|.+.++.++|.++|.+...  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            12    2578999999999999999999999977643    11  12 245678889999999999999999986432  


Q ss_pred             --CCCC-c-CHHHHHHHHHHHHhcCCHHHHHHHHHHhC
Q 038109          237 --DGQS-V-LYSTYAHVMGALLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       237 --~~~~-p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (324)
                        .|.. | ...+|..|...|.+.|+++.|.++.+...
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence              2321 2 35778999999999999999999876654

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

Probab=99.28  E-value=3.1e-08  Score=80.49  Aligned_cols=255  Identities=15%  Similarity=0.040  Sum_probs=201.3

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHccCCHHHHHH
Q 038109           47 HERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKG--FPRKSAYDTLIGRLCKLKKIDEALR  124 (324)
Q Consensus        47 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~  124 (324)
                      -.|+|.+|.+...+-.+++-.|. ..|..-..+-...|+.+.+-.++.++.+.  .++...+-+........|+.+.|..
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 FEGDFQQAEKLLRRNAEHGEQPV-LAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcchH-HHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            37999999999998777764442 33555567778889999999999999776  4566678888999999999999999


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHhcCChhhHHHHHH
Q 038109          125 VVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDL-------TAYNYLLTAYCFKGNLTATSGVLK  197 (324)
Q Consensus       125 ~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~  197 (324)
                      -++++.+.+.. ++.+.....++|.+.|++.....++..+.+.|.-.+.       .+|+.+++-....+..+.-...|+
T Consensus       175 ~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~  253 (400)
T COG3071         175 NVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWK  253 (400)
T ss_pred             HHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            99999987655 6788899999999999999999999999999875553       467788877777777777667777


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcC
Q 038109          198 KMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLD  277 (324)
Q Consensus       198 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (324)
                      ..... .+-++..-.+++.-+.+.|+.++|.++.++-.+.+..|+..    ..-.+.+.++...-.+..+.-.+. .+-+
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-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RLIPRLRPGDPEPLIKAAEKWLKQ-HPED  327 (400)
T ss_pred             hccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HHHhhcCCCCchHHHHHHHHHHHh-CCCC
Confidence            76554 33467788888999999999999999999999887767622    234566777777666666555444 2335


Q ss_pred             HhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCC
Q 038109          278 TELFGSLGSKLIGLERFNEANFILKEMNKRDL  309 (324)
Q Consensus       278 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  309 (324)
                      +..+.+|...|.+.+.|.+|.+.|+.-.+.+.
T Consensus       328 p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~  359 (400)
T COG3071         328 PLLLSTLGRLALKNKLWGKASEALEAALKLRP  359 (400)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCC
Confidence            68888999999999999999999996654443

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

Probab=99.26  E-value=1.4e-08  Score=85.90  Aligned_cols=275  Identities=12%  Similarity=0.008  Sum_probs=208.6

Q ss_pred             CCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHH
Q 038109           31 DEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTL  109 (324)
Q Consensus        31 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~l  109 (324)
                      ...+....-.-.+-|...+++.+..++.+...+. .++....+..=|.++...|+..+...+-.++.+..|+ ..+|-++
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aV  318 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAV  318 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhH
Confidence            3445555666666777889999999999998876 3566666666677888888888888877888888885 4589888


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC--C-CCCCHHHHHHHHHHHHhc
Q 038109          110 IGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI--R-VSPDLTAYNYLLTAYCFK  186 (324)
Q Consensus       110 i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~-~~~~~~~~~~li~~~~~~  186 (324)
                      .--|.-.|+.++|.+.|.+...-... =...|-.+..+|+-.|..++|...+...-+.  | ..|  ..|  +.--|.+.
T Consensus       319 g~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP--~LY--lgmey~~t  393 (611)
T KOG1173|consen  319 GCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLP--SLY--LGMEYMRT  393 (611)
T ss_pred             HHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcch--HHH--HHHHHHHh
Confidence            88888889999999999887653221 2356777888888899999999888765543  2 223  222  44567788


Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----C--CCcCHHHHHHHHHHHHhcCCHH
Q 038109          187 GNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD----G--QSVLYSTYAHVMGALLRLGYYA  260 (324)
Q Consensus       187 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~--~~p~~~~~~~li~~~~~~g~~~  260 (324)
                      ++++.|.+.|.......+. |+...+-+-...-..+.+.+|..+|+..+..    +  ...-..+++.|-.+|.+.+.++
T Consensus       394 ~n~kLAe~Ff~~A~ai~P~-Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~  472 (611)
T KOG1173|consen  394 NNLKLAEKFFKQALAIAPS-DPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYE  472 (611)
T ss_pred             ccHHHHHHHHHHHHhcCCC-cchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHH
Confidence            9999999999887765433 6777888877777888999999999877621    1  1123456788888999999999


Q ss_pred             HHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhHHH
Q 038109          261 QAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKL  315 (324)
Q Consensus       261 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  315 (324)
                      +|+..++....... -+..++.++.-.|...|+++.|.+.|.+-.  .+.|++.+
T Consensus       473 eAI~~~q~aL~l~~-k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~  524 (611)
T KOG1173|consen  473 EAIDYYQKALLLSP-KDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIF  524 (611)
T ss_pred             HHHHHHHHHHHcCC-CchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHH
Confidence            99999998888754 488999999999999999999999998754  67776644

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

Probab=99.24  E-value=2.9e-08  Score=88.29  Aligned_cols=271  Identities=13%  Similarity=0.084  Sum_probs=206.7

Q ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHH------HH
Q 038109           33 PTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKS------AY  106 (324)
Q Consensus        33 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~------~~  106 (324)
                      -|...|..+-....+.|++++|.-.|.+.++.. +++-...---...|-+.|+...|...|.++....|...      .-
T Consensus       205 ~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i  283 (895)
T KOG2076|consen  205 KDYELWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLI  283 (895)
T ss_pred             CChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHH
Confidence            444679999999999999999999999999864 45545555567788999999999999999987776222      23


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCC-----------------
Q 038109          107 DTLIGRLCKLKKIDEALRVVDIMAEGG-FGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIR-----------------  168 (324)
Q Consensus       107 ~~li~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----------------  168 (324)
                      -.+++.+...++.+.|.+.++.....+ -..+...+++++..+.+...++.|......+....                 
T Consensus       284 ~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~  363 (895)
T KOG2076|consen  284 RRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREE  363 (895)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhcccc
Confidence            345777888888899999998887632 33466778899999999999999999888877621                 


Q ss_pred             ----------CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          169 ----------VSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK--LGADARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       169 ----------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                                +.++..++ -++-++......+....+...+....  +.-+...|.-+..+|...|++.+|+.+|..+..
T Consensus       364 ~~~~~~~~~~~s~~l~v~-rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~  442 (895)
T KOG2076|consen  364 PNALCEVGKELSYDLRVI-RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITN  442 (895)
T ss_pred             ccccccCCCCCCccchhH-hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhc
Confidence                      12222231 12233444555555555666666665  333567888999999999999999999999987


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          237 DGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       237 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      ....-+...|-.+..+|...|..++|...+.......+ -+...--+|...+.+.|+.++|.+.+..|..
T Consensus       443 ~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p-~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~  511 (895)
T KOG2076|consen  443 REGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAP-DNLDARITLASLYQQLGNHEKALETLEQIIN  511 (895)
T ss_pred             CccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CchhhhhhHHHHHHhcCCHHHHHHHHhcccC
Confidence            65445577888899999999999999999999887642 2455555788889999999999999999753

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

Probab=99.24  E-value=5.3e-09  Score=93.56  Aligned_cols=273  Identities=11%  Similarity=0.023  Sum_probs=208.5

Q ss_pred             CCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhc---CCCCCc------hhhHhhhhchhhhhhHHHHHHHHHHHhcCCC
Q 038109           31 DEPTSAYYDDLVNAAGHERDLETVRYLLNKRARD---CCFNTA------NTFNFITNTENSLSVLSDLCRTLARLDKGFP  101 (324)
Q Consensus        31 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  101 (324)
                      ..+.+...|.+.......|++..|...|...+..   ...++.      .+-..+..++-..++.+.|.+.+..+.+..|
T Consensus       448 ~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp  527 (1018)
T KOG2002|consen  448 KQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHP  527 (1018)
T ss_pred             CCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCc
Confidence            3366677999999999999999999999988765   122333      1233456667778899999999999988888


Q ss_pred             CHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC-CCCCCHHHHHHH
Q 038109          102 RKS-AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI-RVSPDLTAYNYL  179 (324)
Q Consensus       102 ~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~l  179 (324)
                      +-. .|-.+.-.....+...+|...+....+..- .++..++.+...+.+...+..|.+-|....+. ...+|..+.-+|
T Consensus       528 ~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~-~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaL  606 (1018)
T KOG2002|consen  528 GYIDAYLRLGCMARDKNNLYEASLLLKDALNIDS-SNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIAL  606 (1018)
T ss_pred             hhHHHHHHhhHHHHhccCcHHHHHHHHHHHhccc-CCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHh
Confidence            643 566666455556788999999988887532 35666777777888888888888877765443 233566666566


Q ss_pred             HHHHHh------------cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHH
Q 038109          180 LTAYCF------------KGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYA  247 (324)
Q Consensus       180 i~~~~~------------~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  247 (324)
                      ...|..            .+..++|+++|.+..+..+. |...-|-+..+++..|++++|..+|.+.++... -...+|.
T Consensus       607 GN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~l  684 (1018)
T KOG2002|consen  607 GNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWL  684 (1018)
T ss_pred             hHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceee
Confidence            665543            23567899999998888766 888889999999999999999999999988754 3345677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhCC-CCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          248 HVMGALLRLGYYAQAVKFVMVCGG-RDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       248 ~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .+..+|...|++..|.++|+...+ ....-+..+...|.+++.+.|.+.+|.+.+.....
T Consensus       685 Nlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~  744 (1018)
T KOG2002|consen  685 NLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARH  744 (1018)
T ss_pred             eHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            899999999999999999966544 44456788889999999999999999988876553

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

Probab=99.21  E-value=7.5e-08  Score=83.07  Aligned_cols=264  Identities=12%  Similarity=0.055  Sum_probs=141.3

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccC
Q 038109           38 YDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLK  117 (324)
Q Consensus        38 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~  117 (324)
                      |-...+.....|++..|+.++....+.. +.+...|-..+........+++|..+|.+.....|+..+|.--+..---.+
T Consensus       587 wlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld  665 (913)
T KOG0495|consen  587 WLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLD  665 (913)
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhh
Confidence            4444444455555555555555554432 233445555555555555555555555555554455555544444444445


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHH
Q 038109          118 KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLK  197 (324)
Q Consensus       118 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  197 (324)
                      ..++|++++++..+. ++--...|-.+.+.+-+.++.+.|...|..-.+. ++-..-.|-.+...=-+.|.+..|..+++
T Consensus       666 ~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ild  743 (913)
T KOG0495|consen  666 NVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILD  743 (913)
T ss_pred             hHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHH
Confidence            555555555555443 2212333444444455555555555555443322 12223345555555555666666666666


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----C-------------------------CCcCHHHHHH
Q 038109          198 KMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD----G-------------------------QSVLYSTYAH  248 (324)
Q Consensus       198 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~-------------------------~~p~~~~~~~  248 (324)
                      +..-+++. +...|-..|..=.+.|+.+.|..+..+..+.    |                         ..-|......
T Consensus       744 rarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVlla  822 (913)
T KOG0495|consen  744 RARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLA  822 (913)
T ss_pred             HHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHH
Confidence            66666555 6666666666666777766666665554432    1                         1123344444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          249 VMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      +...+-....++.|.++|....+.+.. .-.+|..+...+.+.|.-++-.+++.....
T Consensus       823 ia~lfw~e~k~~kar~Wf~Ravk~d~d-~GD~wa~fykfel~hG~eed~kev~~~c~~  879 (913)
T KOG0495|consen  823 IAKLFWSEKKIEKAREWFERAVKKDPD-NGDAWAWFYKFELRHGTEEDQKEVLKKCET  879 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHccCCc-cchHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            555555666677777777766665422 345566666666677766666666665543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.19  E-value=1.3e-07  Score=77.92  Aligned_cols=126  Identities=13%  Similarity=-0.073  Sum_probs=63.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .|..+...|...|+.++|...|++..+... .+...|+.+...+...|++++|...|+...+... -+..++..+..++.
T Consensus        66 ~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~l~  143 (296)
T PRK11189         66 LHYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAYLNRGIALY  143 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            455555555566666666666655555422 2345555555566666666666666665555321 13444555555555


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  234 (324)
                      ..|++++|.+.|+...+..+. +. ........+...++.++|.+.|.+.
T Consensus       144 ~~g~~~eA~~~~~~al~~~P~-~~-~~~~~~~l~~~~~~~~~A~~~l~~~  191 (296)
T PRK11189        144 YGGRYELAQDDLLAFYQDDPN-DP-YRALWLYLAESKLDPKQAKENLKQR  191 (296)
T ss_pred             HCCCHHHHHHHHHHHHHhCCC-CH-HHHHHHHHHHccCCHHHHHHHHHHH
Confidence            566666666666655554322 11 1111111223345556666666443

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

Probab=99.19  E-value=3.1e-08  Score=74.75  Aligned_cols=194  Identities=15%  Similarity=-0.025  Sum_probs=112.7

Q ss_pred             hhhhchhhhhhHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCc
Q 038109           75 FITNTENSLSVLSDLCRTLARLDKGFPRK-SAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKR  153 (324)
Q Consensus        75 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~  153 (324)
                      .|.-.|...|+...|..-+++..+..|+. .+|..+...|.+.|+.+.|.+-|++....... +..+.|..-..+|..|+
T Consensus        40 qLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC~qg~  118 (250)
T COG3063          40 QLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLCAQGR  118 (250)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHHhCCC
Confidence            34445566666666666666666555543 36666666666666666666666666654222 44555555556666666


Q ss_pred             HHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038109          154 MEEAWGLMEVMKEIR-VSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLR  232 (324)
Q Consensus       154 ~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  232 (324)
                      +++|...|++....- ..-...+|..+.-+..+.|+++.|...|++-.+.... ...+.-.+.....+.|++-.|..+++
T Consensus       119 ~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~~~~  197 (250)
T COG3063         119 PEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARLYLE  197 (250)
T ss_pred             hHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHHHHH
Confidence            666666666655432 1122445666666666666666666666666655433 34455555666666666666666666


Q ss_pred             HHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          233 RMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       233 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      .....+. ++..+....|+.-...|+.+.+.++=..+..
T Consensus       198 ~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         198 RYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            6655443 6666666666666666666666555444433

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.18  E-value=4.3e-08  Score=80.69  Aligned_cols=228  Identities=16%  Similarity=0.059  Sum_probs=160.0

Q ss_pred             cCCCHHHHHHHHHHHHhcC-CCCC--chhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHH
Q 038109           47 HERDLETVRYLLNKRARDC-CFNT--ANTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEA  122 (324)
Q Consensus        47 ~~~~~~~a~~~~~~m~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a  122 (324)
                      ..+..+.+..-+.+++... ..|+  ...|..+...+...|+.++|...|++..+..|+ ...|+.+...+...|++++|
T Consensus        38 ~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         38 PTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             CchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            3456677888888887542 2222  345777888899999999999999999888874 66999999999999999999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          123 LRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       123 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      ...|++..+.... +..+|..+...+...|++++|.+.++...+..  |+..........+...+++++|...|++....
T Consensus       118 ~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        118 YEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            9999999875332 46778888888899999999999999988764  43322222233345677899999999765543


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CC--Cc-CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc
Q 038109          203 KLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD---GQ--SV-LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL  276 (324)
Q Consensus       203 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~--~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (324)
                      . .|+...+ .  ......|+.+++ +.+..+.+.   ..  .| ....|..+...+.+.|++++|...|+.....++ |
T Consensus       195 ~-~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~-~  268 (296)
T PRK11189        195 L-DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV-Y  268 (296)
T ss_pred             C-CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-c
Confidence            2 2232222 2  223345555544 345555432   11  11 235788888899999999999999999887653 3


Q ss_pred             CHhHHHH
Q 038109          277 DTELFGS  283 (324)
Q Consensus       277 ~~~~~~~  283 (324)
                      |..-+..
T Consensus       269 ~~~e~~~  275 (296)
T PRK11189        269 NFVEHRY  275 (296)
T ss_pred             hHHHHHH
Confidence            5444443

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

Probab=99.17  E-value=1.9e-07  Score=80.69  Aligned_cols=254  Identities=15%  Similarity=0.071  Sum_probs=197.3

Q ss_pred             ccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHH
Q 038109           11 FLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLC   90 (324)
Q Consensus        11 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   90 (324)
                      |..+.|..++...-....    .+...|-.-++.-..+..+++|..+|.+...  ..|+...|.--++...-.++.++|.
T Consensus       598 gdv~~ar~il~~af~~~p----nseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~  671 (913)
T KOG0495|consen  598 GDVPAARVILDQAFEANP----NSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEAL  671 (913)
T ss_pred             CCcHHHHHHHHHHHHhCC----CcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHH
Confidence            556666666555444442    3566788899999999999999999988776  5788999988888888899999999


Q ss_pred             HHHHHHhcCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCC
Q 038109           91 RTLARLDKGFPRKS-AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRV  169 (324)
Q Consensus        91 ~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  169 (324)
                      +++++..+.+|+-+ .|-.+.+.+-+.++.+.|.+.|..=.+. ++-.+..|-.+...=-+.|++-.|..++++..-.+.
T Consensus       672 rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNP  750 (913)
T KOG0495|consen  672 RLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNP  750 (913)
T ss_pred             HHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCC
Confidence            99999999999876 7888889999999999999888655443 333455666666666778899999999998877654


Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCC-----------------------------CCCHHHHHHHHHHHHh
Q 038109          170 SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKL-----------------------------GADARTYDALVLGACR  220 (324)
Q Consensus       170 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----------------------------~~~~~~~~~li~~~~~  220 (324)
                       -+...|-..|++=.+.|+.+.|..+..+..+.-+                             .-|.+..-++...+-.
T Consensus       751 -k~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~  829 (913)
T KOG0495|consen  751 -KNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWS  829 (913)
T ss_pred             -CcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHH
Confidence             3788899999999999999998887765554311                             2244555555666667


Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC
Q 038109          221 AGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRD  273 (324)
Q Consensus       221 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (324)
                      ..++++|.+.|.+.++.+. -+..+|.-+..-+.+.|.-++-.+++.......
T Consensus       830 e~k~~kar~Wf~Ravk~d~-d~GD~wa~fykfel~hG~eed~kev~~~c~~~E  881 (913)
T KOG0495|consen  830 EKKIEKAREWFERAVKKDP-DNGDAWAWFYKFELRHGTEEDQKEVLKKCETAE  881 (913)
T ss_pred             HHHHHHHHHHHHHHHccCC-ccchHHHHHHHHHHHhCCHHHHHHHHHHHhccC
Confidence            7789999999999886542 335677778888999999888889998887764

>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=99.16  E-value=4.1e-09  Score=85.65  Aligned_cols=250  Identities=14%  Similarity=0.079  Sum_probs=142.2

Q ss_pred             HHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHccCCHHH
Q 038109           43 NAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDK-GFPRKSAYDTLIGRLCKLKKIDE  121 (324)
Q Consensus        43 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~p~~~~~~~li~~~~~~~~~~~  121 (324)
                      +-..-.|++..++.-.+ .....-..+......+.+++...|+.+.+.   .++.+ ..|.......+...+...++-+.
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~~~~l~av~~la~y~~~~~~~e~   84 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSSSPELQAVRLLAEYLSSPSDKES   84 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTSSCCCHHHHHHHHHHCTSTTHHC
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCCChhHHHHHHHHHHHhCccchHH
Confidence            33455677777765444 222111112233445567777777766443   33322 23555555555444444345555


Q ss_pred             HHHHHHHHHhCCCCCChhhH-HHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 038109          122 ALRVVDIMAEGGFGLSAITF-HPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKME  200 (324)
Q Consensus       122 a~~~~~~m~~~g~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  200 (324)
                      ++.-+++....+..++..++ ......+...|++++|+++++.-      .+.......+..|.+.++++.|.+.++.|.
T Consensus        85 ~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~  158 (290)
T PF04733_consen   85 ALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQ  158 (290)
T ss_dssp             HHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55555444433333222222 22234455678888887777542      355666677788888888888888888887


Q ss_pred             HCCCCCCHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc
Q 038109          201 EEKLGADARTYDALVLGAC----RAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL  276 (324)
Q Consensus       201 ~~~~~~~~~~~~~li~~~~----~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (324)
                      +.  ..| .+...+..++.    ..+.+.+|..+|+++.+ ...+++.+.+.+.-++...|++++|..++.+....+.. 
T Consensus       159 ~~--~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~-~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-  233 (290)
T PF04733_consen  159 QI--DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSD-KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-  233 (290)
T ss_dssp             CC--SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC-CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-
T ss_pred             hc--CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh-ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-
Confidence            65  223 33333444433    23467888888888754 35567777788888888888888888888887776543 


Q ss_pred             CHhHHHHHHHHHhCcCCH-HHHHHHHHHHHhC
Q 038109          277 DTELFGSLGSKLIGLERF-NEANFILKEMNKR  307 (324)
Q Consensus       277 ~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~~  307 (324)
                      ++.+...++-+....|+. +.+.+++.+++..
T Consensus       234 ~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  234 DPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             CHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            566666677766666666 6677777777643

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.

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

Probab=99.13  E-value=3.2e-08  Score=81.82  Aligned_cols=258  Identities=9%  Similarity=-0.008  Sum_probs=176.8

Q ss_pred             HHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhh--hhchhhhhhHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHccCCHH
Q 038109           44 AAGHERDLETVRYLLNKRARDCCFNTANTFNFI--TNTENSLSVLSDLCRTLARLDKGF-PRKSAYDTLIGRLCKLKKID  120 (324)
Q Consensus        44 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~li~~~~~~~~~~  120 (324)
                      .+.+.|+++.|.++++-+.+..-..-...-+.|  +..+....++..|.+.-+...... -+......-.......|+++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~d  507 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLD  507 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHH
Confidence            356788889998888877654322222222222  222222345566666655543221 12222222223334568999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 038109          121 EALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKME  200 (324)
Q Consensus       121 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  200 (324)
                      +|.+.|++.....-.-....|++ --.+-..|++++|++.|-.+... +..+..+...+...|....+..+|.+++-...
T Consensus       508 ka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~  585 (840)
T KOG2003|consen  508 KAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQAN  585 (840)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc
Confidence            99999999987643323333333 33466789999999999877653 23467777788899999999999999987665


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhH
Q 038109          201 EEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTEL  280 (324)
Q Consensus       201 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  280 (324)
                      .. ++-|....+.|...|-+.|+-..|++.+-+--+ =++-+..|..-|...|....-++++..+|+...-  +.|+..-
T Consensus       586 sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~k  661 (840)
T KOG2003|consen  586 SL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSK  661 (840)
T ss_pred             cc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHH
Confidence            54 334788899999999999999999887654322 2334567777777778888888999999988755  5799999


Q ss_pred             HHHHHHHH-hCcCCHHHHHHHHHHHHhC
Q 038109          281 FGSLGSKL-IGLERFNEANFILKEMNKR  307 (324)
Q Consensus       281 ~~~l~~~~-~~~g~~~~a~~~~~~m~~~  307 (324)
                      |..++..| .+.|++++|.++++.+..+
T Consensus       662 wqlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  662 WQLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            99988655 5789999999999988643

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

Probab=99.12  E-value=5.7e-07  Score=76.47  Aligned_cols=263  Identities=18%  Similarity=0.060  Sum_probs=166.0

Q ss_pred             HHhcCCCHHHHHHHHHHHHhcCCCCCchhhHh---hhhchhhhhhHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHccCCH
Q 038109           44 AAGHERDLETVRYLLNKRARDCCFNTANTFNF---ITNTENSLSVLSDLCRTLARLDKGFPRK-SAYDTLIGRLCKLKKI  119 (324)
Q Consensus        44 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~p~~-~~~~~li~~~~~~~~~  119 (324)
                      .+...|++++|.+++++..+. .+.+...+..   ........+..+.+.+.++......|+. .....+...+...|++
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~-~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~  130 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDD-YPRDLLALKLHLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQY  130 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH-CCCcHHHHHHhHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCH
Confidence            456789999999999998875 2334444431   2222223455555666655533344543 3556677888999999


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCC-CCCH--HHHHHHHHHHHhcCChhhHHHHH
Q 038109          120 DEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRV-SPDL--TAYNYLLTAYCFKGNLTATSGVL  196 (324)
Q Consensus       120 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~--~~~~~li~~~~~~~~~~~a~~~~  196 (324)
                      ++|.+.+++..+... .+...+..+...+...|++++|...+++...... .|+.  ..|..+...+...|++++|..++
T Consensus       131 ~~A~~~~~~al~~~p-~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~  209 (355)
T cd05804         131 DRAEEAARRALELNP-DDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIY  209 (355)
T ss_pred             HHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999998643 3567788888899999999999999998877532 2332  34557888899999999999999


Q ss_pred             HHHHHCCC-CCCHHHH-H--HHHHHHHhcCCHHHHHHH--HHHHHHCCC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038109          197 KKMEEEKL-GADARTY-D--ALVLGACRAGRVEEAFVL--LRRMVDDGQ--SVLYSTYAHVMGALLRLGYYAQAVKFVMV  268 (324)
Q Consensus       197 ~~m~~~~~-~~~~~~~-~--~li~~~~~~g~~~~a~~~--~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~  268 (324)
                      ++...... .+..... +  .++.-+...|..+.+.++  +........  ............++...|+.+.|..++..
T Consensus       210 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~  289 (355)
T cd05804         210 DTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAA  289 (355)
T ss_pred             HHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHH
Confidence            99864432 1222211 1  233334444543333332  211111111  11112223566778899999999999987


Q ss_pred             hCCCCCC------c--CHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          269 CGGRDIK------L--DTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       269 ~~~~~~~------~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      +....-.      .  .....-...-.+...|+.++|.+.+.+.....
T Consensus       290 l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         290 LKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            7553211      0  12222222334558899999999999876543

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.

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

Probab=99.10  E-value=1.4e-07  Score=79.98  Aligned_cols=269  Identities=13%  Similarity=-0.028  Sum_probs=203.4

Q ss_pred             ccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHH
Q 038109           11 FLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLC   90 (324)
Q Consensus        11 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   90 (324)
                      +++.+-+.+.+.+-...  ++.++  .+..-|..+...|+..+-..+=.++.+. .|..+.+|-++.--|.-.|+.++|.
T Consensus       258 c~f~~c~kit~~lle~d--pfh~~--~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~seAR  332 (611)
T KOG1173|consen  258 CRFKECLKITEELLEKD--PFHLP--CLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSEAR  332 (611)
T ss_pred             ChHHHHHHHhHHHHhhC--CCCcc--hHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHHHH
Confidence            34444445444444333  34444  4666777888888888877777777775 5677789999999999999999999


Q ss_pred             HHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCC
Q 038109           91 RTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRV  169 (324)
Q Consensus        91 ~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  169 (324)
                      +.|.+.....|. ...|-.....|.-.|..|.|+..+...-+- ++-..-.+--+.--|.+.++.+.|.+.|.+..... 
T Consensus       333 ry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~-  410 (611)
T KOG1173|consen  333 RYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIA-  410 (611)
T ss_pred             HHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcC-
Confidence            999998776664 448999999999999999999999887662 11111112223445788999999999999887753 


Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC----CC-C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH
Q 038109          170 SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE----KL-G-ADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLY  243 (324)
Q Consensus       170 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  243 (324)
                      +.|+...+-+.-.....+.+.+|..+|+.....    +. . .-..+++.|..+|.+.+.+++|+..+++..... +-+.
T Consensus       411 P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~  489 (611)
T KOG1173|consen  411 PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDA  489 (611)
T ss_pred             CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCch
Confidence            447778888887788889999999999876621    11 1 134568889999999999999999999987653 3577


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHh
Q 038109          244 STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLI  289 (324)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  289 (324)
                      .++.++.-.|...|+++.|...|.+...  +.|+-.+-..++..+.
T Consensus       490 ~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  490 STHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAI  533 (611)
T ss_pred             hHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHH
Confidence            8888888899999999999999998876  4677766666666443

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

Probab=99.10  E-value=1.2e-06  Score=73.18  Aligned_cols=281  Identities=10%  Similarity=0.023  Sum_probs=150.4

Q ss_pred             ccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHH
Q 038109           11 FLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLC   90 (324)
Q Consensus        11 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   90 (324)
                      |++..|.++++.+-.     ..|+...|.+.|+.=.+-+.++.|..+++...-  +.|+..+|--..+.-.+.|.+..+.
T Consensus       155 gNi~gaRqiferW~~-----w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  155 GNIAGARQIFERWME-----WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             cccHHHHHHHHHHHc-----CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHH
Confidence            566667777665433     459999999999999999999999999998876  3588888877777777788888777


Q ss_pred             HHHHHHhcCCCCHH----HHHHHHHHHHccCCHHHHHHHHHHHHhC----------------------------------
Q 038109           91 RTLARLDKGFPRKS----AYDTLIGRLCKLKKIDEALRVVDIMAEG----------------------------------  132 (324)
Q Consensus        91 ~~~~~~~~~~p~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~----------------------------------  132 (324)
                      ++++...+...|..    .+.+...-=.++..++.|.-+|+-..+.                                  
T Consensus       228 ~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KR  307 (677)
T KOG1915|consen  228 SVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKR  307 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhh
Confidence            77776544332221    2333332223333344444333332221                                  


Q ss_pred             ---------CCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH--HHHH--------HHHHHHHhcCChhhHH
Q 038109          133 ---------GFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDL--TAYN--------YLLTAYCFKGNLTATS  193 (324)
Q Consensus       133 ---------g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~--------~li~~~~~~~~~~~a~  193 (324)
                               .-+.|-.+|-..+..-...|+.+...++|++.... ++|-.  ..|.        ..+-.=....+.+.+.
T Consensus       308 k~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr  386 (677)
T KOG1915|consen  308 KFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTR  386 (677)
T ss_pred             hhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence                     01224445555555555667777777777776654 33321  1111        1111112345666666


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHH----HhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          194 GVLKKMEEEKLGADARTYDALVLGA----CRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       194 ~~~~~m~~~~~~~~~~~~~~li~~~----~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      ++|+...+. ++-...||.-+--.|    .++.++..|.+++....  |..|-..+|-..|..=.+.++++.+..+++..
T Consensus       387 ~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkf  463 (677)
T KOG1915|consen  387 QVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKF  463 (677)
T ss_pred             HHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            666555542 211233333332222    23444555555544433  44455555555555444555555555555555


Q ss_pred             CCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHH
Q 038109          270 GGRDIKLDTELFGSLGSKLIGLERFNEANFILKE  303 (324)
Q Consensus       270 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  303 (324)
                      .+.++. +..+|......=...|+.+.|..+|+-
T Consensus       464 le~~Pe-~c~~W~kyaElE~~LgdtdRaRaifel  496 (677)
T KOG1915|consen  464 LEFSPE-NCYAWSKYAELETSLGDTDRARAIFEL  496 (677)
T ss_pred             HhcChH-hhHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            544322 444444444444444444444444443

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

Probab=99.09  E-value=2.2e-07  Score=70.26  Aligned_cols=197  Identities=13%  Similarity=0.004  Sum_probs=165.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      +.--|.-+|...|+...|..-+++..+.... +..+|..+...|.+.|+.+.|.+.|+...+... -+..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-CccchhhhhhHHHH
Confidence            4666788999999999999999999997543 678899999999999999999999999888653 36778899999999


Q ss_pred             hcCChhhHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGA-DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAV  263 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  263 (324)
                      ..|++++|...|++....-.-| -..+|..+.-+..+.|+.+.|.+.|++-.+... -...+...+.......|++..|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp-~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDP-QFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCc-CCChHHHHHHHHHHhcccchHHH
Confidence            9999999999999988752111 256788888888999999999999999887532 22355677888999999999999


Q ss_pred             HHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          264 KFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       264 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      .+++.....+. ++..+....|+.--+.|+.+.+-++=.++.
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~  234 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQ  234 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            99999988875 788888888898889999998887766654

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

Probab=99.07  E-value=6.3e-08  Score=80.74  Aligned_cols=194  Identities=16%  Similarity=0.165  Sum_probs=115.0

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHcc
Q 038109           38 YDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKL  116 (324)
Q Consensus        38 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~  116 (324)
                      |-.+...|....+.++....|....+-+ +.++.+|..-.....-.+++++|..-|++..+..|+ ...|--+.-+..+.
T Consensus       363 yI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~  441 (606)
T KOG0547|consen  363 YIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAYIQLCCALYRQ  441 (606)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHHHHHHHHHHHH
Confidence            4444455666666666666666666543 445566666666666666777777767666666553 33555555556666


Q ss_pred             CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCC-------CCHHHHHHHHHHHHhcCCh
Q 038109          117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVS-------PDLTAYNYLLTAYCFKGNL  189 (324)
Q Consensus       117 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-------~~~~~~~~li~~~~~~~~~  189 (324)
                      +++++++..|++..++ ++--+.+|+.....+...+++++|.+.|+..+.....       +...+--+++-.-- .+++
T Consensus       442 ~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qw-k~d~  519 (606)
T KOG0547|consen  442 HKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQW-KEDI  519 (606)
T ss_pred             HHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhch-hhhH
Confidence            6777777777766654 4445566666666666777777777776665543211       11111112221112 2566


Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          190 TATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       190 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      ..|..++++..+.+++ ....|-.|...-.+.|+.++|+++|++-.
T Consensus       520 ~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  520 NQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             HHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            6666666666665444 45666666666666777777777766543

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

Probab=99.06  E-value=5.2e-08  Score=81.21  Aligned_cols=224  Identities=9%  Similarity=-0.040  Sum_probs=174.0

Q ss_pred             hhchhhhhhHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHH
Q 038109           77 TNTENSLSVLSDLCRTLARLDKGFPRKS-AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRME  155 (324)
Q Consensus        77 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~  155 (324)
                      ...+.-.|+.-.+..-|+...+..|... .|--+...|....+.++..+.|++..+-... ++.+|..-.+...-.++++
T Consensus       333 gtF~fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e  411 (606)
T KOG0547|consen  333 GTFHFLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYE  411 (606)
T ss_pred             hhhhhhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHH
Confidence            3345556888888888888877766433 3878888999999999999999999886544 6777888788888889999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          156 EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       156 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      +|..=|+..+.... .+...|-.+.-+..+.+++++++..|++..++-+. ....|+.....+...+++++|.+.|+...
T Consensus       412 ~A~aDF~Kai~L~p-e~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~-~~Evy~~fAeiLtDqqqFd~A~k~YD~ai  489 (606)
T KOG0547|consen  412 EAIADFQKAISLDP-ENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPN-CPEVYNLFAEILTDQQQFDKAVKQYDKAI  489 (606)
T ss_pred             HHHHHHHHHhhcCh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-CchHHHHHHHHHhhHHhHHHHHHHHHHHH
Confidence            99999999888643 25666777777778899999999999999887433 68899999999999999999999999877


Q ss_pred             HCC-----CCcCHHH--HHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          236 DDG-----QSVLYST--YAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       236 ~~~-----~~p~~~~--~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      ...     +..+...  .-.++.. -=.+++..|..++....+..++ ....|.+|...-.+.|++++|+++|++-.
T Consensus       490 ~LE~~~~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  490 ELEPREHLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             hhccccccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            542     1112222  1112211 1238999999999999887654 45678899999999999999999999753

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

Probab=99.03  E-value=1.5e-06  Score=78.47  Aligned_cols=198  Identities=12%  Similarity=0.052  Sum_probs=77.8

Q ss_pred             CchhhHhhhhchhhhhhHHHHHHHHHHHhcCC----CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHH
Q 038109           69 TANTFNFITNTENSLSVLSDLCRTLARLDKGF----PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPI  144 (324)
Q Consensus        69 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  144 (324)
                      ++...+.|.+.+.-.|++..++.+.+.+....    --...|-.+.++|...|++++|...|.+..+..-.-....+--+
T Consensus       269 nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~Gl  348 (1018)
T KOG2002|consen  269 NPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGL  348 (1018)
T ss_pred             CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccch
Confidence            33444444444444444444444444432211    01123444444555555555555554444332211111222233


Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 038109          145 LSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKG----NLTATSGVLKKMEEEKLGADARTYDALVLGACR  220 (324)
Q Consensus       145 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  220 (324)
                      .+.+.+.|+++.+...|+...+.. +.+..|..++...|...+    ..+.|..++.+..+.-+. |...|-.+...+..
T Consensus       349 gQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~-d~~a~l~laql~e~  426 (1018)
T KOG2002|consen  349 GQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPV-DSEAWLELAQLLEQ  426 (1018)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccc-cHHHHHHHHHHHHh
Confidence            444444455555554444444431 122333333333333332    223333333333333222 34444444333333


Q ss_pred             cCCHHHHHHHHHHH----HHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          221 AGRVEEAFVLLRRM----VDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       221 ~g~~~~a~~~~~~m----~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      .+- ..++.+|...    ...+..+.....|.+.......|++..|...|...
T Consensus       427 ~d~-~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A  478 (1018)
T KOG2002|consen  427 TDP-WASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSA  478 (1018)
T ss_pred             cCh-HHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHH
Confidence            222 2223333322    12233344444455555555555555555554443

>PF12854 PPR_1: PPR repeat

Probab=99.02  E-value=5e-10  Score=58.92  Aligned_cols=32  Identities=47%  Similarity=0.789  Sum_probs=14.8

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038109          203 KLGADARTYDALVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       203 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  234 (324)
                      |+.||..|||+||.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            34444444444444444444444444444444

>PF12854 PPR_1: PPR repeat

Probab=99.00  E-value=5.7e-10  Score=58.72  Aligned_cols=33  Identities=27%  Similarity=0.639  Sum_probs=25.2

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 038109          168 RVSPDLTAYNYLLTAYCFKGNLTATSGVLKKME  200 (324)
Q Consensus       168 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  200 (324)
                      |+.||..|||++|.+|++.|++++|.++|++|.
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            677777777777777777777777777777763

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

Probab=98.99  E-value=1.8e-06  Score=73.39  Aligned_cols=266  Identities=11%  Similarity=-0.053  Sum_probs=165.5

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCch---hhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHH-HHHH---H
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRARDCCFNTAN---TFNFITNTENSLSVLSDLCRTLARLDKGFPRKS-AYDT---L  109 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~---l  109 (324)
                      .|..+...+...++.+.+.+.+....+.. +++..   ........+...|++++|.+.+++..+..|+.. .+..   .
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~~~~~   86 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQAL-AARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPRDLLALKLHLGA   86 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHh-ccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHhHHH
Confidence            34555555666677777766666654431 22222   122234456778999999999999877777543 4442   2


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 038109          110 IGRLCKLKKIDEALRVVDIMAEGGFGLS-AITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGN  188 (324)
Q Consensus       110 i~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  188 (324)
                      .......+..+.+.+.+..  ..+..|+ ......+...+...|++++|...+++..+.. +.+...+..+...+...|+
T Consensus        87 ~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~  163 (355)
T cd05804          87 FGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGR  163 (355)
T ss_pred             HHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCC
Confidence            2222234555666665554  1122233 3344455667889999999999999998875 3356778888999999999


Q ss_pred             hhhHHHHHHHHHHCCCC-CCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CcCHHHH-H--HHHHHHHhcCCHHH
Q 038109          189 LTATSGVLKKMEEEKLG-ADA--RTYDALVLGACRAGRVEEAFVLLRRMVDDGQ-SVLYSTY-A--HVMGALLRLGYYAQ  261 (324)
Q Consensus       189 ~~~a~~~~~~m~~~~~~-~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~-~--~li~~~~~~g~~~~  261 (324)
                      +++|...+++....... |+.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+...|....
T Consensus       164 ~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~  243 (355)
T cd05804         164 FKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDV  243 (355)
T ss_pred             HHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCCh
Confidence            99999999988775332 232  3466788899999999999999999864322 1222111 1  23333444454433


Q ss_pred             HHHH--H-HHhCCCCC-CcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          262 AVKF--V-MVCGGRDI-KLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       262 a~~~--~-~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      +.++  + ........ ............++...|+.++|..+++.+..
T Consensus       244 ~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~  292 (355)
T cd05804         244 GDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKG  292 (355)
T ss_pred             HHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence            3333  2 11111100 11112223567788899999999999999865

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.

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

Probab=98.98  E-value=4.7e-08  Score=86.90  Aligned_cols=82  Identities=21%  Similarity=0.225  Sum_probs=43.9

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHH
Q 038109          171 PDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVM  250 (324)
Q Consensus       171 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li  250 (324)
                      |+..+|.+.+.+-..+|+.+.|..++.+|.+.|...+.+-|-.|+.+   .++...++.+++-|...|+.|+..|+...+
T Consensus       202 ~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyv  278 (1088)
T KOG4318|consen  202 PTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYV  278 (1088)
T ss_pred             CChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHH
Confidence            55555555555555555555555555555555555554444444433   455555555555555555555555555444


Q ss_pred             HHHHh
Q 038109          251 GALLR  255 (324)
Q Consensus       251 ~~~~~  255 (324)
                      -.+..
T Consensus       279 ip~l~  283 (1088)
T KOG4318|consen  279 IPQLS  283 (1088)
T ss_pred             Hhhhc
Confidence            44444

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

Probab=98.97  E-value=7.1e-06  Score=67.49  Aligned_cols=256  Identities=11%  Similarity=-0.038  Sum_probs=153.7

Q ss_pred             CCCHHHHHHHHHHHHh-cCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHccCCHHHHHHH
Q 038109           48 ERDLETVRYLLNKRAR-DCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKS-AYDTLIGRLCKLKKIDEALRV  125 (324)
Q Consensus        48 ~~~~~~a~~~~~~m~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~  125 (324)
                      .++...+.+.+-.+.. .-++.+......+..++...|+.++++..|++.....|+.. ......-.+.+.|++++...+
T Consensus       209 ~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L  288 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSAL  288 (564)
T ss_pred             hcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHH
Confidence            3444444444433332 23566677888889999999999999999998877776433 333334445566777777666


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC
Q 038109          126 VDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG  205 (324)
Q Consensus       126 ~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  205 (324)
                      ...+.... .-+...|-.-.......++++.|+.+-+..++... .+...|-.-...+...++.++|.-.|+.....-+.
T Consensus       289 ~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~-r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~  366 (564)
T KOG1174|consen  289 MDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEP-RNHEALILKGRLLIALERHTQAVIAFRTAQMLAPY  366 (564)
T ss_pred             HHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCc-ccchHHHhccHHHHhccchHHHHHHHHHHHhcchh
Confidence            66655421 01222233333333444555555555555544321 12233333334444555555555555555443222


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHH------------------------------------HHHHHHCCCCcC-HHHHHH
Q 038109          206 ADARTYDALVLGACRAGRVEEAFVL------------------------------------LRRMVDDGQSVL-YSTYAH  248 (324)
Q Consensus       206 ~~~~~~~~li~~~~~~g~~~~a~~~------------------------------------~~~m~~~~~~p~-~~~~~~  248 (324)
                       +...|.-|+.+|...|++.+|..+                                    ++.-.  .+.|+ ....+.
T Consensus       367 -rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L--~~~P~Y~~AV~~  443 (564)
T KOG1174|consen  367 -RLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSL--KINPIYTPAVNL  443 (564)
T ss_pred             -hHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhh--ccCCccHHHHHH
Confidence             455555566655555555554443                                    33322  12344 233455


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCc
Q 038109          249 VMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLK  310 (324)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  310 (324)
                      +...|...|..+.+..+++.....  .||....+.|.+.+...+.+++|++.|......+.+
T Consensus       444 ~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  444 IAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            667788899999999999888764  679999999999999999999999999877654433

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

Probab=98.95  E-value=6.4e-07  Score=83.52  Aligned_cols=214  Identities=13%  Similarity=0.047  Sum_probs=173.0

Q ss_pred             HHHHHhcCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC-----ChhhHHHHHHHHHccCcHHHHHHHHHHHH
Q 038109           92 TLARLDKGFPRK-SAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGL-----SAITFHPILSVLTRGKRMEEAWGLMEVMK  165 (324)
Q Consensus        92 ~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~  165 (324)
                      -|+++....|+. ..|-..|.-....++.++|.++.++.... +.+     -...|.++++.-...|.-+...++|++..
T Consensus      1446 DferlvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAc 1524 (1710)
T KOG1070|consen 1446 DFERLVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERAC 1524 (1710)
T ss_pred             HHHHHHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHH
Confidence            345555556754 48999999999999999999999998864 222     23567778877777788899999999998


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC---
Q 038109          166 EIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL---  242 (324)
Q Consensus       166 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---  242 (324)
                      +..  .....|..|...|.+.+.+++|.++++.|.++-- -....|...+..+.+.++.+.|..++.+..+.  -|.   
T Consensus      1525 qyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eH 1599 (1710)
T KOG1070|consen 1525 QYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEH 1599 (1710)
T ss_pred             Hhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhh
Confidence            853  2456788999999999999999999999987622 37789999999999999999999999988764  233   


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchh
Q 038109          243 YSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMG  312 (324)
Q Consensus       243 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  312 (324)
                      .....-.++.-.+.|+.+.+..+|+.....-++ ....|+..|+.-.+.|+.+.+..+|++....++.|-
T Consensus      1600 v~~IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1600 VEFISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred             HHHHHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence            333344455566889999999999998887443 778999999999999999999999999999998873

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

Probab=98.93  E-value=1e-06  Score=82.29  Aligned_cols=222  Identities=13%  Similarity=0.071  Sum_probs=145.1

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCC-----chhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHH
Q 038109           36 AYYDDLVNAAGHERDLETVRYLLNKRARDCCFNT-----ANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLI  110 (324)
Q Consensus        36 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li  110 (324)
                      ..|-..|....+.++.+.|+++.++.+.. +.+.     ...|.++++.-...|.-+...++|+++.+....-.+|..|.
T Consensus      1459 i~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~ 1537 (1710)
T KOG1070|consen 1459 ILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLL 1537 (1710)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHH
Confidence            44777777777777777777777777654 2111     24566777766666777777777777765433344677777


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCh
Q 038109          111 GRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVS-PDLTAYNYLLTAYCFKGNL  189 (324)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~  189 (324)
                      ..|.+.+..++|-++++.|.+. +.-...+|...+..+.+.++-+.|..++.+..+.=.+ -......-.+..=.+.|+.
T Consensus      1538 ~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDa 1616 (1710)
T KOG1070|consen 1538 GIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDA 1616 (1710)
T ss_pred             HHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCc
Confidence            7777777777777777777764 3345667777777777777777777777776654211 1233444445555677777


Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH--HHHHHHHHHHHhcCCHH
Q 038109          190 TATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLY--STYAHVMGALLRLGYYA  260 (324)
Q Consensus       190 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~~~  260 (324)
                      +.+..+|+.....-++ -...|+..|+.=.++|+.+.+..+|++....++.|-.  ..|.-.+..=-+.|+-.
T Consensus      1617 eRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~ 1688 (1710)
T KOG1070|consen 1617 ERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEK 1688 (1710)
T ss_pred             hhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchh
Confidence            7777777777766444 5667777777777777777777777777777665542  33444444444444433

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.92  E-value=1.4e-06  Score=68.53  Aligned_cols=263  Identities=15%  Similarity=0.060  Sum_probs=169.3

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHH-HHHHHHc
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDT-LIGRLCK  115 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~-li~~~~~  115 (324)
                      .+++.+..+.+..++..|.+++....++. +.+....+.|..+|-...++..|-..++++....|...-|.. -...+.+
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~   90 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYK   90 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHH
Confidence            36677777778888888888887776652 336677778888888888899998888888887787665543 2455666


Q ss_pred             cCCHHHHHHHHHHHHhC------------------CC----------CC---ChhhHHHHHHHHHccCcHHHHHHHHHHH
Q 038109          116 LKKIDEALRVVDIMAEG------------------GF----------GL---SAITFHPILSVLTRGKRMEEAWGLMEVM  164 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~~------------------g~----------~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m  164 (324)
                      .+.+.+|+++...|.+.                  +-          .|   +..+.+...-...+.|+++.|.+-|+..
T Consensus        91 A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaA  170 (459)
T KOG4340|consen   91 ACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAA  170 (459)
T ss_pred             hcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHH
Confidence            77777777777665431                  00          11   1122222222234778899999999887


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-------------CCH---------------HHHHHHHH
Q 038109          165 KEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG-------------ADA---------------RTYDALVL  216 (324)
Q Consensus       165 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-------------~~~---------------~~~~~li~  216 (324)
                      .+-|.-.....||..+ ++.+.+++..|++...++.++|++             ||+               ..+|.-..
T Consensus       171 lqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaA  249 (459)
T KOG4340|consen  171 LQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAA  249 (459)
T ss_pred             HhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhh
Confidence            7655434566777666 455678999999999988887753             222               12333334


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHH
Q 038109          217 GACRAGRVEEAFVLLRRMVDD-GQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFN  295 (324)
Q Consensus       217 ~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  295 (324)
                      .+.+.|+++.|.+-+..|.-. .-..|+.|...+.-. --.+++....+-++-+.+..+ ....||..++-.||+..-++
T Consensus       250 Ieyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNeyf~  327 (459)
T KOG4340|consen  250 IEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEYFD  327 (459)
T ss_pred             hhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHHHh
Confidence            455778888888888777532 233455665443322 123445555555555555544 35667777888888888787


Q ss_pred             HHHHHHHH
Q 038109          296 EANFILKE  303 (324)
Q Consensus       296 ~a~~~~~~  303 (324)
                      -|-+++-+
T Consensus       328 lAADvLAE  335 (459)
T KOG4340|consen  328 LAADVLAE  335 (459)
T ss_pred             HHHHHHhh
Confidence            77777654

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

Probab=98.88  E-value=1.8e-07  Score=76.19  Aligned_cols=224  Identities=14%  Similarity=0.078  Sum_probs=150.6

Q ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHh-cCCC-CHHHHH-HHH
Q 038109           34 TSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLD-KGFP-RKSAYD-TLI  110 (324)
Q Consensus        34 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~p-~~~~~~-~li  110 (324)
                      ......-+.+++...|+++.++   .+..... .|.......+...+....+-+.+..-++... +..+ +..++. ...
T Consensus        34 ~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A  109 (290)
T PF04733_consen   34 KLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAA  109 (290)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHH
Confidence            3444566677788888876543   4444433 6666666666555554445555555554432 2222 233333 334


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH----Hhc
Q 038109          111 GRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAY----CFK  186 (324)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~----~~~  186 (324)
                      ..+...|++++|++++.+-      .+.......+..+.+.++++.|.+.++.|.+.+  .|. +...+..++    ...
T Consensus       110 ~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~-~l~qLa~awv~l~~g~  180 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--EDS-ILTQLAEAWVNLATGG  180 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCH-HHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcH-HHHHHHHHHHHHHhCc
Confidence            6677889999999988542      366777888999999999999999999999864  343 333344433    334


Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH-HHHHHH
Q 038109          187 GNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYY-AQAVKF  265 (324)
Q Consensus       187 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~  265 (324)
                      +.+.+|..+|+++.+. ..++..+.+.+..++...|++++|.+++.+..... +-+..+...++-.....|+. +.+.++
T Consensus       181 e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~  258 (290)
T PF04733_consen  181 EKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERY  258 (290)
T ss_dssp             TCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHH
Confidence            5799999999998765 55688999999999999999999999999977543 23466777788877888877 677888


Q ss_pred             HHHhCCC
Q 038109          266 VMVCGGR  272 (324)
Q Consensus       266 ~~~~~~~  272 (324)
                      +..+...
T Consensus       259 l~qL~~~  265 (290)
T PF04733_consen  259 LSQLKQS  265 (290)
T ss_dssp             HHHCHHH
T ss_pred             HHHHHHh
Confidence            8887764

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.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.81  E-value=4.2e-06  Score=71.53  Aligned_cols=249  Identities=14%  Similarity=0.080  Sum_probs=185.3

Q ss_pred             HhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHH
Q 038109           45 AGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEAL  123 (324)
Q Consensus        45 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~  123 (324)
                      +.+.|++.+|.-.|+...+.+ +-+...|..|.......++-..|+..+.+..+..| +..+.-.|.-.|...|.-..|+
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            467889999999999888763 56678999999999999999999999999988888 4568888999999999999999


Q ss_pred             HHHHHHHhCCCCC--------ChhhHHHHHHHHHccCcHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCChhhHHH
Q 038109          124 RVVDIMAEGGFGL--------SAITFHPILSVLTRGKRMEEAWGLMEVMKE-IRVSPDLTAYNYLLTAYCFKGNLTATSG  194 (324)
Q Consensus       124 ~~~~~m~~~g~~~--------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~~~~~~~~a~~  194 (324)
                      +.++.-.....+-        +...-..  ..+.....+....++|-++.. .+..+|..++..|.-.|.-.|++++|.+
T Consensus       374 ~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  374 KMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            9998876533110        0000000  122333345556666666544 4445778888888888999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHhC--
Q 038109          195 VLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL--YSTYAHVMGALLRLGYYAQAVKFVMVCG--  270 (324)
Q Consensus       195 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~--  270 (324)
                      .|+......+. |..+||-|-.+++...+.++|+..|++.++.  +|+  ..-|| |.-+|...|.+++|.+.|-..+  
T Consensus       452 cf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyN-lgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  452 CFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYN-LGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehh-hhhhhhhhhhHHHHHHHHHHHHHh
Confidence            99999987666 8899999999999999999999999999864  555  33455 5557899999999988774432  


Q ss_pred             -CC------CCCcCHhHHHHHHHHHhCcCCHHHHHHH
Q 038109          271 -GR------DIKLDTELFGSLGSKLIGLERFNEANFI  300 (324)
Q Consensus       271 -~~------~~~~~~~~~~~l~~~~~~~g~~~~a~~~  300 (324)
                       +.      +..++...|..|=.++.-.++.|.+.+.
T Consensus       528 q~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  528 QRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence             21      1222345777776677777777655544

>PLN02789 farnesyltranstransferase

Probab=98.79  E-value=1.5e-05  Score=65.86  Aligned_cols=210  Identities=10%  Similarity=-0.036  Sum_probs=102.2

Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhh-hHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccC
Q 038109           40 DLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLS-VLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLK  117 (324)
Q Consensus        40 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~  117 (324)
                      .+-..+...+..++|+.+..++++.. +-+..+|+....++...| .++++...++++.+..|+ ..+|+.-.-.+.+.|
T Consensus        42 ~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~  120 (320)
T PLN02789         42 YFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLG  120 (320)
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcC
Confidence            33344445566666776666666532 222234444444444445 456666666666555543 335554333333334


Q ss_pred             C--HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CCh---
Q 038109          118 K--IDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFK---GNL---  189 (324)
Q Consensus       118 ~--~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~---~~~---  189 (324)
                      +  .++++.+++++.+.... +..+|+.....+.+.|+++++++.++++.+.+.. |...|+.....+.+.   |..   
T Consensus       121 ~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~  198 (320)
T PLN02789        121 PDAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAM  198 (320)
T ss_pred             chhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhcccccccccc
Confidence            3  24556666666554333 4555555555555666666666666666665433 444444444333332   112   


Q ss_pred             -hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 038109          190 -TATSGVLKKMEEEKLGADARTYDALVLGACRA----GRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALL  254 (324)
Q Consensus       190 -~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  254 (324)
                       ++......+.....+. |...|+-+...+...    ++..+|.+.+.+....+ ..+......|+..|+
T Consensus       199 ~e~el~y~~~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~  266 (320)
T PLN02789        199 RDSELKYTIDAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLC  266 (320)
T ss_pred             HHHHHHHHHHHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHH
Confidence             2344444444444333 555555555555442    22344555555444322 123334444444444

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

Probab=98.79  E-value=4.2e-05  Score=64.24  Aligned_cols=126  Identities=10%  Similarity=0.065  Sum_probs=67.5

Q ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCc-hhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHH
Q 038109           34 TSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTA-NTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGR  112 (324)
Q Consensus        34 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~  112 (324)
                      +...|-..+..=.+...+..|..+++.....  -|-+ ..|.-.+..--..|++..|.++|+.-.+-.|+..+|++.|+.
T Consensus       106 ~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~f  183 (677)
T KOG1915|consen  106 NITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKF  183 (677)
T ss_pred             cchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHH
Confidence            3344656666666666666666666665542  2222 334444444445566666666666655555666666666666


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHH
Q 038109          113 LCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEV  163 (324)
Q Consensus       113 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  163 (324)
                      =.+-+.++.|..++++.+-.  .|+..+|--....=-+.|....+..+|+.
T Consensus       184 ElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~Vyer  232 (677)
T KOG1915|consen  184 ELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYER  232 (677)
T ss_pred             HHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            66666666666666655542  24555554444444444544444444443

>PLN02789 farnesyltranstransferase

Probab=98.78  E-value=2.5e-05  Score=64.64  Aligned_cols=235  Identities=9%  Similarity=-0.001  Sum_probs=166.0

Q ss_pred             CCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHccC-CHHHHHHH
Q 038109           48 ERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRK-SAYDTLIGRLCKLK-KIDEALRV  125 (324)
Q Consensus        48 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-~~~~~li~~~~~~~-~~~~a~~~  125 (324)
                      .+++.+|...|+.....                  .+..++|..+.+++....|+. .+|+.--..+...| ++++++..
T Consensus        33 ~~~~~~a~~~~ra~l~~------------------~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~   94 (320)
T PLN02789         33 TPEFREAMDYFRAVYAS------------------DERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDF   94 (320)
T ss_pred             CHHHHHHHHHHHHHHHc------------------CCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHH
Confidence            34566666666655443                  345668888888887777754 47776666666667 68999999


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHccCcH--HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC
Q 038109          126 VDIMAEGGFGLSAITFHPILSVLTRGKRM--EEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK  203 (324)
Q Consensus       126 ~~~m~~~g~~~~~~~~~~li~~~~~~~~~--~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  203 (324)
                      ++++.+.... +..+|+.--..+.+.|+.  +++..+++.+.+... -|..+|+....++...|+++++++.++++.+.+
T Consensus        95 ~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d  172 (320)
T PLN02789         95 AEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED  172 (320)
T ss_pred             HHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC
Confidence            9999986544 555666555555556653  677888888887764 378899999999999999999999999999988


Q ss_pred             CCCCHHHHHHHHHHHHhc---CCH----HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc----CCHHHHHHHHHHhCCC
Q 038109          204 LGADARTYDALVLGACRA---GRV----EEAFVLLRRMVDDGQSVLYSTYAHVMGALLRL----GYYAQAVKFVMVCGGR  272 (324)
Q Consensus       204 ~~~~~~~~~~li~~~~~~---g~~----~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~  272 (324)
                      +. |...|+.....+.+.   |..    ++..+...+..... +-|...|+-+-..+...    ++..+|...+.+....
T Consensus       173 ~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~  250 (320)
T PLN02789        173 VR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSK  250 (320)
T ss_pred             CC-chhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcc
Confidence            77 888888877766654   222    45666665665432 23456666666666662    3446688888777665


Q ss_pred             CCCcCHhHHHHHHHHHhCcC------------------CHHHHHHHHHHHH
Q 038109          273 DIKLDTELFGSLGSKLIGLE------------------RFNEANFILKEMN  305 (324)
Q Consensus       273 ~~~~~~~~~~~l~~~~~~~g------------------~~~~a~~~~~~m~  305 (324)
                      ++ .+......|++.|+...                  ..++|.++++.+.
T Consensus       251 ~~-~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        251 DS-NHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             cC-CcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence            53 36777888899888632                  3467888888883

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

Probab=98.76  E-value=1e-06  Score=77.15  Aligned_cols=215  Identities=14%  Similarity=0.083  Sum_probs=170.2

Q ss_pred             hhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 038109           72 TFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRG  151 (324)
Q Consensus        72 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  151 (324)
                      .-..+...+.+.|-...|..+++++.       .|.-.|.+|...|+..+|..+..+-.+  -+||...|..+.+.....
T Consensus       400 ~q~~laell~slGitksAl~I~Erle-------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~  470 (777)
T KOG1128|consen  400 LQRLLAELLLSLGITKSALVIFERLE-------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDP  470 (777)
T ss_pred             HHHHHHHHHHHcchHHHHHHHHHhHH-------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccCh
Confidence            33455667788888889998888764       588889999999999999999888877  457888899988888777


Q ss_pred             CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 038109          152 KRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLL  231 (324)
Q Consensus       152 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  231 (324)
                      .-+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.+.- -..+|-..-.+..+.++++.|.+.|
T Consensus       471 s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~npl-q~~~wf~~G~~ALqlek~q~av~aF  542 (777)
T KOG1128|consen  471 SLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPL-QLGTWFGLGCAALQLEKEQAAVKAF  542 (777)
T ss_pred             HHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCcc-chhHHHhccHHHHHHhhhHHHHHHH
Confidence            7788998888865432       1111112223478999999999877665443 6778888888888999999999999


Q ss_pred             HHHHHCCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          232 RRMVDDGQSV-LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       232 ~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      ......  .| +...|+.+-.+|.+.++-.+|...+.+..+.+. -+...|...+-...+.|.+++|++.+.++.+
T Consensus       543 ~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~-~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  543 HRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNY-QHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCC-CCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            988753  34 467899999999999999999999999998874 4677888888888999999999999998754

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.73  E-value=6.8e-06  Score=65.50  Aligned_cols=58  Identities=16%  Similarity=0.044  Sum_probs=34.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhCCCCC--CcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          249 VMGALLRLGYYAQAVKFVMVCGGRDI--KLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      +...+.+.|++.+|...+....+...  +.....+..+..++.+.|++++|..+++.+..
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34456666777777766666655421  11245566666677777777777776666543

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).

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.72  E-value=2.9e-06  Score=67.58  Aligned_cols=182  Identities=14%  Similarity=0.042  Sum_probs=93.6

Q ss_pred             hhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CC-hhhHHHH
Q 038109           71 NTFNFITNTENSLSVLSDLCRTLARLDKGFPRK----SAYDTLIGRLCKLKKIDEALRVVDIMAEGGFG-LS-AITFHPI  144 (324)
Q Consensus        71 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~-~~~~~~l  144 (324)
                      ..+..+...+...|+++.|...++++....|+.    .++..+...+...|++++|...++++.+.... |. ..++..+
T Consensus        34 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~  113 (235)
T TIGR03302        34 EELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLR  113 (235)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHH
Confidence            344455555666666666666666665555432    24555666666677777777777766653221 11 0123333


Q ss_pred             HHHHHcc--------CcHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 038109          145 LSVLTRG--------KRMEEAWGLMEVMKEIRVSPDL-TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV  215 (324)
Q Consensus       145 i~~~~~~--------~~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  215 (324)
                      ..++...        |+.++|.+.++.+.+..  |+. ..+..+.....    ...      ..        ......+.
T Consensus       114 g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~----~~~------~~--------~~~~~~~a  173 (235)
T TIGR03302       114 GLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDY----LRN------RL--------AGKELYVA  173 (235)
T ss_pred             HHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHH----HHH------HH--------HHHHHHHH
Confidence            3333332        55666777777666542  221 12211111100    000      00        00011344


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCC--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          216 LGACRAGRVEEAFVLLRRMVDDG--QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      ..+.+.|++++|...++...+..  .+.....+..+..++...|++++|..+++.+...
T Consensus       174 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       174 RFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            55667777777777777766541  1122455666667777777777777766666543

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).

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.68  E-value=3.2e-05  Score=71.50  Aligned_cols=233  Identities=12%  Similarity=0.072  Sum_probs=134.3

Q ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCc-hhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHH
Q 038109           33 PTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTA-NTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIG  111 (324)
Q Consensus        33 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~  111 (324)
                      .+...+..|+..+...+++++|.++.+...+.  .|+. ..|-.+...+.+.++.+.+..+               .++.
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv---------------~~l~   91 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL---------------NLID   91 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh---------------hhhh
Confidence            44567899999999999999999999977664  3444 4444444466666665555443               2333


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhh
Q 038109          112 RLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTA  191 (324)
Q Consensus       112 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  191 (324)
                      ......++.-+..+...|.+.+  -+...+..+..+|-+.|+.+++..+|+++.+.. +-|..+.|.+...|... ++++
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 SFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHH
Confidence            3333334433333344444422  133355566666666666666666666666655 33566666666666666 6666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHH---HH--hcCCHHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 038109          192 TSGVLKKMEEEKLGADARTYDALVLG---AC--RAGRVEEAFVLLRRMVDD-GQSVLYSTYAHVMGALLRLGYYAQAVKF  265 (324)
Q Consensus       192 a~~~~~~m~~~~~~~~~~~~~~li~~---~~--~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~  265 (324)
                      |.+++.+....-+  +..-|+.+...   ++  ...+.+.-.++.+.+... |..--..++-.+-..|-..++++++..+
T Consensus       168 A~~m~~KAV~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~i  245 (906)
T PRK14720        168 AITYLKKAIYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYI  245 (906)
T ss_pred             HHHHHHHHHHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHH
Confidence            6666655544311  11111111111   11  112233333344444333 3223345555666778888889999999


Q ss_pred             HHHhCCCCCCcCHhHHHHHHHHHh
Q 038109          266 VMVCGGRDIKLDTELFGSLGSKLI  289 (324)
Q Consensus       266 ~~~~~~~~~~~~~~~~~~l~~~~~  289 (324)
                      ++.+.+.... |.....-++.+|.
T Consensus       246 LK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        246 LKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHHHHhcCCc-chhhHHHHHHHHH
Confidence            9999887644 6677777888776

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.66  E-value=0.00021  Score=62.34  Aligned_cols=289  Identities=14%  Similarity=0.106  Sum_probs=169.4

Q ss_pred             ccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHH------HHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhh
Q 038109           11 FLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVN------AAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLS   84 (324)
Q Consensus        11 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~------~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~   84 (324)
                      |....|..+++.+.....  ..|+...|.....      ...+.|.++.|.+.+..-... +......-..-...+.+.+
T Consensus       157 g~y~~A~~il~ef~~t~~--~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~  233 (700)
T KOG1156|consen  157 GEYKMALEILEEFEKTQN--TSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLG  233 (700)
T ss_pred             HHHHHHHHHHHHHHHhhc--cCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHh
Confidence            455677888888887775  4466665554443      345678888888877654433 2222223334467788999


Q ss_pred             hHHHHHHHHHHHhcCCCCHHHHHHH-HHHHHccCCHHHHH-HHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHH
Q 038109           85 VLSDLCRTLARLDKGFPRKSAYDTL-IGRLCKLKKIDEAL-RVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLME  162 (324)
Q Consensus        85 ~~~~a~~~~~~~~~~~p~~~~~~~l-i~~~~~~~~~~~a~-~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~  162 (324)
                      ++++|..++..+...+||...|... ..++.+..+--++. .+|....+. .+-....-..=++......-.+....++.
T Consensus       234 ~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~-y~r~e~p~Rlplsvl~~eel~~~vdkyL~  312 (700)
T KOG1156|consen  234 QLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK-YPRHECPRRLPLSVLNGEELKEIVDKYLR  312 (700)
T ss_pred             hHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc-CcccccchhccHHHhCcchhHHHHHHHHH
Confidence            9999999999999999988866554 45554343333333 666666543 11111111111111112223344556666


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHH----HHHHHHHCC----------CCCCHHHHH--HHHHHHHhcCCHHH
Q 038109          163 VMKEIRVSPDLTAYNYLLTAYCFKGNLTATSG----VLKKMEEEK----------LGADARTYD--ALVLGACRAGRVEE  226 (324)
Q Consensus       163 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~----~~~~m~~~~----------~~~~~~~~~--~li~~~~~~g~~~~  226 (324)
                      .+.+.|+++   ++..+.+.|-.-...+-..+    +...+...|          -.|....|.  -++..+-+.|+++.
T Consensus       313 ~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~  389 (700)
T KOG1156|consen  313 PLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEV  389 (700)
T ss_pred             HHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHH
Confidence            777777654   33344444333222221111    111111111          134544444  45666778888888


Q ss_pred             HHHHHHHHHHCCCCcCH-HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          227 AFVLLRRMVDDGQSVLY-STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       227 a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      |...++....  ..|+. ..|..=.+.+...|+++.|..++++..+.+ .+|...-..-..-..+++++++|.++.....
T Consensus       390 A~~yId~AId--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFT  466 (700)
T KOG1156|consen  390 ALEYIDLAID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFT  466 (700)
T ss_pred             HHHHHHHHhc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhh
Confidence            8888887763  34552 334444467888888888888888887764 3465554455566667888888888888887


Q ss_pred             hCCC
Q 038109          306 KRDL  309 (324)
Q Consensus       306 ~~~~  309 (324)
                      +.|.
T Consensus       467 r~~~  470 (700)
T KOG1156|consen  467 REGF  470 (700)
T ss_pred             hccc
Confidence            7775

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.65  E-value=0.0001  Score=64.21  Aligned_cols=202  Identities=11%  Similarity=0.046  Sum_probs=96.4

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC---hhhHHHHHHHHHccCcHHHHHHHHHHHHhCC-----------CCC
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLS---AITFHPILSVLTRGKRMEEAWGLMEVMKEIR-----------VSP  171 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----------~~~  171 (324)
                      |..+.+.|-..|+++.|..+|++..+-..+--   ..+|..-...=.+..+++.|+++.++....-           .++
T Consensus       390 w~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pv  469 (835)
T KOG2047|consen  390 WVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPV  469 (835)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcH
Confidence            44555555566666666666665554332211   2233333333334445555555544432210           000


Q ss_pred             ------CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HH
Q 038109          172 ------DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL-YS  244 (324)
Q Consensus       172 ------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~  244 (324)
                            +...|...++.--..|-++....+|+++.+..+. ++...-.....+-.+.-++++.++|++-...=-.|+ ..
T Consensus       470 Q~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~d  548 (835)
T KOG2047|consen  470 QARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYD  548 (835)
T ss_pred             HHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHH
Confidence                  1233444455555556666666666666665443 222222222233344556666666654332211132 22


Q ss_pred             HHHHHHHHHH-h--cCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHh----CcCCHHHHHHHHHHHHhCCCchh
Q 038109          245 TYAHVMGALL-R--LGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLI----GLERFNEANFILKEMNKRDLKMG  312 (324)
Q Consensus       245 ~~~~li~~~~-~--~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~g~~~~a~~~~~~m~~~~~~~~  312 (324)
                      .|+..+.-+. +  .-.++.|..+|++..+ |.+|...-  ++.-.|+    +.|-...|+.++++. ..++.+.
T Consensus       549 iW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aK--tiyLlYA~lEEe~GLar~amsiyera-t~~v~~a  619 (835)
T KOG2047|consen  549 IWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAK--TIYLLYAKLEEEHGLARHAMSIYERA-TSAVKEA  619 (835)
T ss_pred             HHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHH--HHHHHHHHHHHHhhHHHHHHHHHHHH-HhcCCHH
Confidence            3333333222 2  2357788888888877 45443322  2222232    447777788888874 3455543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.64  E-value=5.2e-05  Score=69.15  Aligned_cols=191  Identities=14%  Similarity=0.092  Sum_probs=134.5

Q ss_pred             CCCHHHHHHHHHHHhcCCCHHHH-HHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHH
Q 038109           32 EPTSAYYDDLVNAAGHERDLETV-RYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTL  109 (324)
Q Consensus        32 ~~~~~~~~~ll~~~~~~~~~~~a-~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~l  109 (324)
                      ..++...+.+=.+.+..|.-++| .+++.+..+            ++....+.....++..-+..+.+.+| +...+-.|
T Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L   92 (694)
T PRK15179         25 ASGPTILDLLEAALAEPGESEEAGRELLQQARQ------------VLERHAAVHKPAAALPELLDYVRRYPHTELFQVLV   92 (694)
T ss_pred             CCCcHHHhHHHHHhcCcccchhHHHHHHHHHHH------------HHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHH
Confidence            33444455555566677766655 444444432            12222222223333322233334445 47788889


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 038109          110 IGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNL  189 (324)
Q Consensus       110 i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  189 (324)
                      .....+.|.+++|..+++...+.... +......+...+.+.+++++|....++...... -+......+..++.+.|++
T Consensus        93 a~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p-~~~~~~~~~a~~l~~~g~~  170 (694)
T PRK15179         93 ARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGGS-SSAREILLEAKSWDEIGQS  170 (694)
T ss_pred             HHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCC-CCHHHHHHHHHHHHHhcch
Confidence            99999999999999999998885322 456677788888899999999999999888753 2566777788888899999


Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          190 TATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       190 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      ++|..+|++....+.. +..++..+...+-..|+.++|...|+...+.
T Consensus       171 ~~A~~~y~~~~~~~p~-~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        171 EQADACFERLSRQHPE-FENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999885443 5888888899999999999999999988754

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

Probab=98.63  E-value=4.4e-05  Score=59.36  Aligned_cols=247  Identities=14%  Similarity=0.100  Sum_probs=133.2

Q ss_pred             HHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHccCCHHH
Q 038109           43 NAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGF-PRKSAYDTLIGRLCKLKKIDE  121 (324)
Q Consensus        43 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~li~~~~~~~~~~~  121 (324)
                      +-+.-.|++..+...-.......  .+...-..+.++|...|......   ..++.+. |.......+......-++.++
T Consensus        16 Rn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~---~eI~~~~~~~lqAvr~~a~~~~~e~~~~~   90 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVI---SEIKEGKATPLQAVRLLAEYLELESNKKS   90 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHcccccccc---cccccccCChHHHHHHHHHHhhCcchhHH
Confidence            44555677766665554433221  22222333444555555433222   1221111 223333333333333444333


Q ss_pred             HH-HHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 038109          122 AL-RVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKME  200 (324)
Q Consensus       122 a~-~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  200 (324)
                      -+ ++.+.+.......+......-...|++.+++++|++..+...      +......=+..+.+..+++.|.+.++.|.
T Consensus        91 ~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq  164 (299)
T KOG3081|consen   91 ILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQ  164 (299)
T ss_pred             HHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33 333444443333333333344456777778888877776521      22333333445556677777887777777


Q ss_pred             HCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc
Q 038109          201 EEKLGADARTYDALVLGACR----AGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL  276 (324)
Q Consensus       201 ~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (324)
                      +-   -+..|.+.|..++.+    .+.+.+|.-+|++|.+ ...|+..+.+....++...|++++|..+++.......+ 
T Consensus       165 ~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~-k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-  239 (299)
T KOG3081|consen  165 QI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE-KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-  239 (299)
T ss_pred             cc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc-ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-
Confidence            64   255666666666554    3557778888887764 35677777777777777888888888888777776544 


Q ss_pred             CHhHHHHHHHHHhCcCCHH-HHHHHHHHHH
Q 038109          277 DTELFGSLGSKLIGLERFN-EANFILKEMN  305 (324)
Q Consensus       277 ~~~~~~~l~~~~~~~g~~~-~a~~~~~~m~  305 (324)
                      ++.+...++-.-...|... -..+.+.+++
T Consensus       240 dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk  269 (299)
T KOG3081|consen  240 DPETLANLIVLALHLGKDAEVTERNLSQLK  269 (299)
T ss_pred             CHHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            5555555555444445443 3445555554

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

Probab=98.62  E-value=0.00016  Score=59.86  Aligned_cols=236  Identities=10%  Similarity=-0.029  Sum_probs=145.7

Q ss_pred             CCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCch-hhHhhhhchhhhhhHHHHHHHHHHHhcCC-CCHHHHHH
Q 038109           31 DEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTAN-TFNFITNTENSLSVLSDLCRTLARLDKGF-PRKSAYDT  108 (324)
Q Consensus        31 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~  108 (324)
                      ++-|++....+.+.+...|+..+|...|++....  .|+.. ......-.+.+.|+.+....+...+.... .....|-.
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV  305 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFV  305 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhh
Confidence            6678888999999999999999999999987653  23321 11111222344555555555555443222 22223333


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 038109          109 LIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGN  188 (324)
Q Consensus       109 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  188 (324)
                      -.......++++.|+.+-++.++.... +...|-.-...+...+++++|.-.|...+... +-+...|.-++.+|...|+
T Consensus       306 ~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~  383 (564)
T KOG1174|consen  306 HAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKR  383 (564)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhch
Confidence            333444455556666555555543221 23333333344455555666655555554432 1245556666666655555


Q ss_pred             hhhHH------------------------------------HHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHH
Q 038109          189 LTATS------------------------------------GVLKKMEEEKLGAD-ARTYDALVLGACRAGRVEEAFVLL  231 (324)
Q Consensus       189 ~~~a~------------------------------------~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~  231 (324)
                      +.+|.                                    ++++.-.+.  .|+ ....+.+...+...|..+.+..++
T Consensus       384 ~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL  461 (564)
T KOG1174|consen  384 FKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLL  461 (564)
T ss_pred             HHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHH
Confidence            55544                                    333333322  333 455677778888999999999999


Q ss_pred             HHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCC
Q 038109          232 RRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDI  274 (324)
Q Consensus       232 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (324)
                      +.-..  ..||....+.|-+.+...+.+.+|...|......++
T Consensus       462 e~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP  502 (564)
T KOG1174|consen  462 EKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDP  502 (564)
T ss_pred             HHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCc
Confidence            98875  469999999999999999999999999988887653

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

Probab=98.61  E-value=1.6e-05  Score=61.61  Aligned_cols=158  Identities=15%  Similarity=0.082  Sum_probs=93.1

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 038109          107 DTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFK  186 (324)
Q Consensus       107 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  186 (324)
                      ..+-..+...|+-+....+....... .+-|.......+....+.|++..|...+.+..... ++|..+|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            44555556666666666665554332 12244444556666666667776766666665543 45666666666666677


Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 038109          187 GNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFV  266 (324)
Q Consensus       187 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  266 (324)
                      |++++|..-|.+..+..+. +...+|.+.-.+.-.|+.+.|..++......+.. |...-..+.-.....|+++.|..+.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhc
Confidence            7777776666666655433 4555666666666666667776666666554332 3333444555566666666666655


Q ss_pred             HH
Q 038109          267 MV  268 (324)
Q Consensus       267 ~~  268 (324)
                      ..
T Consensus       226 ~~  227 (257)
T COG5010         226 VQ  227 (257)
T ss_pred             cc
Confidence            33

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

Probab=98.61  E-value=5e-06  Score=72.99  Aligned_cols=212  Identities=13%  Similarity=0.042  Sum_probs=143.8

Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHH
Q 038109           41 LVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKID  120 (324)
Q Consensus        41 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~  120 (324)
                      +...+...|-...|..+++....         |..++.+|...|+...|..+..+..+..|+...|..+.+.....--++
T Consensus       404 laell~slGitksAl~I~Erlem---------w~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yE  474 (777)
T KOG1128|consen  404 LAELLLSLGITKSALVIFERLEM---------WDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYE  474 (777)
T ss_pred             HHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHH
Confidence            44455566677777777765533         446677788888888888877777666677778888887777777778


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 038109          121 EALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKME  200 (324)
Q Consensus       121 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  200 (324)
                      +|.++.+....+       .-..+-....+.++++++.+.|+.-.+.. +....+|-.+..+..+.++++.|.+.|..-.
T Consensus       475 kawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcv  546 (777)
T KOG1128|consen  475 KAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCV  546 (777)
T ss_pred             HHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHh
Confidence            888777665432       11112222334677888888887655543 2245667777777778888888888887777


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          201 EEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       201 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      ...+. +...||.+-.+|.+.++-.+|...+++..+.. .-+...|-..+-...+.|.+++|.+.+..+..
T Consensus       547 tL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  547 TLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             hcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            65443 56778888888888888888888888877665 33444555556666777888888887766643

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

Probab=98.61  E-value=3.5e-05  Score=59.76  Aligned_cols=152  Identities=15%  Similarity=0.071  Sum_probs=68.6

Q ss_pred             hchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHH
Q 038109           78 NTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEE  156 (324)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~  156 (324)
                      ..+...|+-+....+........| +....+..+....+.|++..|...+++...- -++|..+|+.+--+|.+.|+.+.
T Consensus        74 ~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~  152 (257)
T COG5010          74 TALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDE  152 (257)
T ss_pred             HHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhH
Confidence            333334444444443333322222 2333344445555555555555555554432 23344555555555555555555


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038109          157 AWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLR  232 (324)
Q Consensus       157 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  232 (324)
                      |..-|.+..+.-. -+...+|.+...+.-.|+++.|..++......+.. |...-..+.......|++++|..+..
T Consensus       153 Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         153 ARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             HHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhcc
Confidence            5555554444321 13334444444444455555555555544444332 44444444444455555555554443

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

Probab=98.59  E-value=3e-05  Score=59.66  Aligned_cols=119  Identities=10%  Similarity=0.067  Sum_probs=74.5

Q ss_pred             hhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH-HHccCc--HHHHH
Q 038109           83 LSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSV-LTRGKR--MEEAW  158 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~~~--~~~a~  158 (324)
                      .++.+++...++...+..| +...|..+...|...|++++|...|++..+.... +...+..+..+ +...|+  .++|.
T Consensus        52 ~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~  130 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTR  130 (198)
T ss_pred             chhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHH
Confidence            5555666666666555444 5557777777777777777777777777664322 45555555554 345555  36777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC
Q 038109          159 GLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK  203 (324)
Q Consensus       159 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  203 (324)
                      .++++..+.+.. +..++..+...+.+.|++++|...|+++.+..
T Consensus       131 ~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        131 EMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            777776665432 55666666666677777777777777766653

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.59  E-value=9.1e-05  Score=71.17  Aligned_cols=298  Identities=12%  Similarity=0.011  Sum_probs=185.0

Q ss_pred             CccchhHHHHHHHHhhhcCCCC---CCCH--HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCc----hhhHhhhhch
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPD---EPTS--AYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTA----NTFNFITNTE   80 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~---~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~l~~~~   80 (324)
                      .++++++...+...........   .+..  .....+-..+...|+++.|...++...+.--..+.    ...+.+...+
T Consensus       422 ~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~  501 (903)
T PRK04841        422 QHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVH  501 (903)
T ss_pred             CCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHH
Confidence            3556666666665544321111   1111  11222233456789999999999987763111111    2345556667


Q ss_pred             hhhhhHHHHHHHHHHHhcCC-----CC--HHHHHHHHHHHHccCCHHHHHHHHHHHHh----CCCC--C-ChhhHHHHHH
Q 038109           81 NSLSVLSDLCRTLARLDKGF-----PR--KSAYDTLIGRLCKLKKIDEALRVVDIMAE----GGFG--L-SAITFHPILS  146 (324)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~~-----p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~--~-~~~~~~~li~  146 (324)
                      ...|++++|...+++.....     +.  ..++..+...+...|++++|...+++..+    .|..  + ....+..+..
T Consensus       502 ~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~  581 (903)
T PRK04841        502 HCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQ  581 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHH
Confidence            78999999999988874321     22  22456677788899999999999887664    2221  1 1233444555


Q ss_pred             HHHccCcHHHHHHHHHHHHhCC--CCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCC-CHHHH-----HHHHH
Q 038109          147 VLTRGKRMEEAWGLMEVMKEIR--VSP--DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA-DARTY-----DALVL  216 (324)
Q Consensus       147 ~~~~~~~~~~a~~~~~~m~~~~--~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~-----~~li~  216 (324)
                      .+...|++++|...+.+.....  ..+  ....+..+...+...|++++|...++......... ....+     ...+.
T Consensus       582 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~  661 (903)
T PRK04841        582 LLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLI  661 (903)
T ss_pred             HHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHH
Confidence            6677799999999988765431  112  23445556677888999999999988875421110 11111     11224


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcC---HHHHHHHHHHHHhcCCHHHHHHHHHHhCCC----CCCc-CHhHHHHHHHHH
Q 038109          217 GACRAGRVEEAFVLLRRMVDDGQSVL---YSTYAHVMGALLRLGYYAQAVKFVMVCGGR----DIKL-DTELFGSLGSKL  288 (324)
Q Consensus       217 ~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~  288 (324)
                      .+...|+.+.|.+++...........   ...+..+..++...|+.++|...++.....    |..+ ...+...+..++
T Consensus       662 ~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~  741 (903)
T PRK04841        662 YWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLY  741 (903)
T ss_pred             HHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHH
Confidence            45568999999999877553221111   111345667788999999999988776542    3222 234566677888


Q ss_pred             hCcCCHHHHHHHHHHHHhC
Q 038109          289 IGLERFNEANFILKEMNKR  307 (324)
Q Consensus       289 ~~~g~~~~a~~~~~~m~~~  307 (324)
                      .+.|+.++|...+.+..+.
T Consensus       742 ~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        742 WQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            8999999999999887643

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

Probab=98.57  E-value=5e-05  Score=58.46  Aligned_cols=120  Identities=11%  Similarity=0.086  Sum_probs=76.3

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHH-HhcCC--HHHH
Q 038109          151 GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGA-CRAGR--VEEA  227 (324)
Q Consensus       151 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-~~~g~--~~~a  227 (324)
                      .++.+++...++...+.. +.|...|..+...|...|++++|...|++..+.... +...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHH
Confidence            455566666666655543 346667777777777777777777777777666544 566666666653 55555  4777


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC
Q 038109          228 FVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRD  273 (324)
Q Consensus       228 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (324)
                      .+++++..+... -+...+..+...+...|++++|...|+.+.+..
T Consensus       130 ~~~l~~al~~dP-~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        130 REMIDKALALDA-NEVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHHHHHHhCC-CChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            777777765432 244555666666777777777777777776653

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.56  E-value=4.9e-05  Score=60.10  Aligned_cols=289  Identities=15%  Similarity=0.119  Sum_probs=178.5

Q ss_pred             ccccCCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhh-hhchh
Q 038109            3 LLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFI-TNTEN   81 (324)
Q Consensus         3 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-~~~~~   81 (324)
                      ++.++.+..++.++.+++..+.+...    .+....+.+-.+|-...++..|-+.++++...  .|...-|... ...+-
T Consensus        16 viy~lI~d~ry~DaI~~l~s~~Er~p----~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   16 VVYRLIRDARYADAIQLLGSELERSP----RSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhcCc----cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            34455566677778777777666552    25566778888888899999999999988653  3444333221 22233


Q ss_pred             hhhhHHHHHHHHHHHhcC------------------------------CC---CHHHHHHHHHHHHccCCHHHHHHHHHH
Q 038109           82 SLSVLSDLCRTLARLDKG------------------------------FP---RKSAYDTLIGRLCKLKKIDEALRVVDI  128 (324)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~------------------------------~p---~~~~~~~li~~~~~~~~~~~a~~~~~~  128 (324)
                      +.+.+..|.++...|...                              .|   +..+.+...-...+.|+++.|.+-|+.
T Consensus        90 ~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqa  169 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQA  169 (459)
T ss_pred             HhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHH
Confidence            344444444444433211                              01   111222223334577999999999999


Q ss_pred             HHh-CCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCC-------------C---------------HHHHHHH
Q 038109          129 MAE-GGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSP-------------D---------------LTAYNYL  179 (324)
Q Consensus       129 m~~-~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-------------~---------------~~~~~~l  179 (324)
                      ..+ .|.. ....|+..+..| +.|+.+.|++...++.+.|+..             |               +..+|.-
T Consensus       170 AlqvsGyq-pllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLK  247 (459)
T KOG4340|consen  170 ALQVSGYQ-PLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLK  247 (459)
T ss_pred             HHhhcCCC-chhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhh
Confidence            887 4555 456788777665 5688999999999998877532             2               1223433


Q ss_pred             HHHHHhcCChhhHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 038109          180 LTAYCFKGNLTATSGVLKKMEEE-KLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGY  258 (324)
Q Consensus       180 i~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  258 (324)
                      ...+.+.++++.|.+.+-+|.-+ ....|.+|...+.-.=. .+++-+..+-+.-+..... ....||..++-.||++.-
T Consensus       248 aAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNey  325 (459)
T KOG4340|consen  248 AAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEY  325 (459)
T ss_pred             hhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHH
Confidence            44456789999999988888643 23456677665543322 3445555555555554433 345799999999999999


Q ss_pred             HHHHHHHHHHhCCCCCC-cCHhHHHHHHHHHhC-cCCHHHHHHHHH
Q 038109          259 YAQAVKFVMVCGGRDIK-LDTELFGSLGSKLIG-LERFNEANFILK  302 (324)
Q Consensus       259 ~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~-~g~~~~a~~~~~  302 (324)
                      ++.|-.++.+-...-++ .+...|+ |++++.- .-..++|.+-++
T Consensus       326 f~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~  370 (459)
T KOG4340|consen  326 FDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLD  370 (459)
T ss_pred             HhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHH
Confidence            99999988664443222 3555565 4444443 344555554443

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.55  E-value=0.00047  Score=60.28  Aligned_cols=273  Identities=12%  Similarity=0.068  Sum_probs=160.1

Q ss_pred             CCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHH
Q 038109           31 DEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTL  109 (324)
Q Consensus        31 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~l  109 (324)
                      ..-+.+.|..+--.+....++++|.+.|...+.-+ +.|...+.-+.-.-++.|+++.....-..+.+..|+ ...|..+
T Consensus        71 d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~  149 (700)
T KOG1156|consen   71 DLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGF  149 (700)
T ss_pred             CcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHH
Confidence            34455667777766777788899999988888753 445577777777778888888888777777666665 4478888


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCC-CCCChhhHHHHHH------HHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 038109          110 IGRLCKLKKIDEALRVVDIMAEGG-FGLSAITFHPILS------VLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTA  182 (324)
Q Consensus       110 i~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~------~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  182 (324)
                      ..++.-.|+...|..++++..+.. -.|+...|.-...      ...+.|..++|.+.+..-... +......-.+-...
T Consensus       150 Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l  228 (700)
T KOG1156|consen  150 AVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADL  228 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHH
Confidence            888899999999999999988754 2455554443332      223344444444443332221 11111112233334


Q ss_pred             HHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHH-HHHHhc-CC----------------------------------HHH
Q 038109          183 YCFKGNLTATSGVLKKMEEEKLGADARTYDALV-LGACRA-GR----------------------------------VEE  226 (324)
Q Consensus       183 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li-~~~~~~-g~----------------------------------~~~  226 (324)
                      +.+.+++++|..++..+...+  ||...|+... .++.+- +.                                  .+.
T Consensus       229 ~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~  306 (700)
T KOG1156|consen  229 LMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEI  306 (700)
T ss_pred             HHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHH
Confidence            444555555555555544432  2222222211 111100 00                                  000


Q ss_pred             HHHHHHHHHHCCC----------------------------------------------CcCHH--HHHHHHHHHHhcCC
Q 038109          227 AFVLLRRMVDDGQ----------------------------------------------SVLYS--TYAHVMGALLRLGY  258 (324)
Q Consensus       227 a~~~~~~m~~~~~----------------------------------------------~p~~~--~~~~li~~~~~~g~  258 (324)
                      .-+++..+.+.|+                                              +|+..  |+-.+++.+-+.|+
T Consensus       307 vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~  386 (700)
T KOG1156|consen  307 VDKYLRPLLSKGVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGD  386 (700)
T ss_pred             HHHHHHHHhhcCCCchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHccc
Confidence            1111111111111                                              23332  33446677778999


Q ss_pred             HHHHHHHHHHhCCCCCCcC-HhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCC
Q 038109          259 YAQAVKFVMVCGGRDIKLD-TELFGSLGSKLIGLERFNEANFILKEMNKRDL  309 (324)
Q Consensus       259 ~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  309 (324)
                      ++.|..+++....+  .|+ +..|..=.+.+...|++++|...+++..+.+.
T Consensus       387 ~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~  436 (700)
T KOG1156|consen  387 YEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT  436 (700)
T ss_pred             HHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc
Confidence            99999999988876  333 44555556888899999999999998775543

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.54  E-value=1.2e-05  Score=68.80  Aligned_cols=221  Identities=12%  Similarity=0.007  Sum_probs=167.9

Q ss_pred             chhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHH
Q 038109           79 TENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEA  157 (324)
Q Consensus        79 ~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a  157 (324)
                      -+.+.|++.+|.-+|+......| +..+|..|.......++-..|+..+++..+.... +....-.|.-.|...|.-..|
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHHH
Confidence            35678889999999999887778 5669999999999999999999999999885433 567777788888899999999


Q ss_pred             HHHHHHHHhCCCC--------CCHHHHHHHHHHHHhcCChhhHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 038109          158 WGLMEVMKEIRVS--------PDLTAYNYLLTAYCFKGNLTATSGVLKKMEE-EKLGADARTYDALVLGACRAGRVEEAF  228 (324)
Q Consensus       158 ~~~~~~m~~~~~~--------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~~~g~~~~a~  228 (324)
                      .+.++.......+        ++...-+.  ..+.....+....++|-++.. .+..+|......|--.|--.|++++|.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            9999988665321        01100000  122222334556666666654 444578888888888899999999999


Q ss_pred             HHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          229 VLLRRMVDDGQSV-LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       229 ~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      +.|+..+..  +| |..+||.|-..++...+.++|+..|++.++..+.- +.+...|.-.|...|.+++|.+.|-+..
T Consensus       451 Dcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~y-VR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  451 DCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGY-VRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCe-eeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            999998864  45 56788999999999999999999999998864332 3444457788999999999999887653

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

Probab=98.53  E-value=0.00045  Score=59.22  Aligned_cols=101  Identities=14%  Similarity=0.014  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHH
Q 038109          209 RTYDALVLGACRAGRVEEAFVLLRRMVDDGQSV-LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSK  287 (324)
Q Consensus       209 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  287 (324)
                      .+|...++.-.+..-+..|..+|.+..+.+..+ +....++++..++. ++..-|.++|+--.+. +.-++.--...++-
T Consensus       367 Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk-f~d~p~yv~~Yldf  444 (656)
T KOG1914|consen  367 LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK-FGDSPEYVLKYLDF  444 (656)
T ss_pred             eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh-cCCChHHHHHHHHH
Confidence            456677777777888889999999999887777 66777777777665 6788899998766554 22244444566778


Q ss_pred             HhCcCCHHHHHHHHHHHHhCCCch
Q 038109          288 LIGLERFNEANFILKEMNKRDLKM  311 (324)
Q Consensus       288 ~~~~g~~~~a~~~~~~m~~~~~~~  311 (324)
                      +...|+-..|..+|++....++.|
T Consensus       445 L~~lNdd~N~R~LFEr~l~s~l~~  468 (656)
T KOG1914|consen  445 LSHLNDDNNARALFERVLTSVLSA  468 (656)
T ss_pred             HHHhCcchhHHHHHHHHHhccCCh
Confidence            888899999999999998885554

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

Probab=98.53  E-value=0.00014  Score=56.60  Aligned_cols=229  Identities=13%  Similarity=0.055  Sum_probs=149.5

Q ss_pred             hhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHH
Q 038109           77 TNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEE  156 (324)
Q Consensus        77 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~  156 (324)
                      ++-+.-.|.+..+...-........+...-.-+-++|...|.+.....   +.... -.|.......+-.....-++.++
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~~~~~e~d~y~~raylAlg~~~~~~~---eI~~~-~~~~lqAvr~~a~~~~~e~~~~~   90 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSSKTDVELDVYMYRAYLALGQYQIVIS---EIKEG-KATPLQAVRLLAEYLELESNKKS   90 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhccccchhHHHHHHHHHHHHccccccccc---ccccc-cCChHHHHHHHHHHhhCcchhHH
Confidence            344555677777766655543332223333344566666666543332   22222 23344444444443433444443


Q ss_pred             HH-HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          157 AW-GLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       157 a~-~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      -. ++.+.+.......+......-...|+..|++++|++......      +....-.=+..+.+..+++-|.+.+++|.
T Consensus        91 ~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq  164 (299)
T KOG3081|consen   91 ILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQ  164 (299)
T ss_pred             HHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33 445555555555555555555677899999999998887622      33333333556778889999999999998


Q ss_pred             HCCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCch
Q 038109          236 DDGQSVLYSTYAHVMGALLR----LGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKM  311 (324)
Q Consensus       236 ~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  311 (324)
                      +-   -+..|.+.|.+++.+    .+.+..|.-+|++|.+. ..|++.+.+...-++...|++++|..++++..+++-.-
T Consensus       165 ~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~d  240 (299)
T KOG3081|consen  165 QI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKD  240 (299)
T ss_pred             cc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCC
Confidence            53   456778877777663    45788999999999885 57899999999999999999999999999998887665


Q ss_pred             hHHHHHHH
Q 038109          312 GFKLRDYY  319 (324)
Q Consensus       312 ~~~~~~~~  319 (324)
                      ...+.+..
T Consensus       241 petL~Nli  248 (299)
T KOG3081|consen  241 PETLANLI  248 (299)
T ss_pred             HHHHHHHH
Confidence            55555443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.53  E-value=1.9e-05  Score=71.87  Aligned_cols=135  Identities=13%  Similarity=0.078  Sum_probs=100.8

Q ss_pred             CCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHH
Q 038109           66 CFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKS-AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPI  144 (324)
Q Consensus        66 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  144 (324)
                      .+.++..+..|..+..+.|..++|..+++.+.+..|+.. .+..+...+.+.+++++|+..+++..+.... +......+
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~  160 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLE  160 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHH
Confidence            456677777788888888888888888888877777544 6677778888888888888888888775433 55666667


Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          145 LSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       145 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      ..++.+.|++++|..+|++....+ +-+..++..+..++...|+.++|...|+...+.
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            777778888888888888887743 234677777777888888888888888777654

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.51  E-value=2.4e-07  Score=49.38  Aligned_cols=33  Identities=45%  Similarity=0.801  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC
Q 038109          210 TYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL  242 (324)
Q Consensus       210 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  242 (324)
                      +||++|.+|++.|++++|.++|++|.+.|++||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            466666666666666666666666666666665

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.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.51  E-value=1.5e-05  Score=58.01  Aligned_cols=90  Identities=6%  Similarity=-0.138  Sum_probs=38.2

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 038109          110 IGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNL  189 (324)
Q Consensus       110 i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  189 (324)
                      ...+...|++++|...|+....... .+...|..+...+.+.|++++|...|+...+.. +.+...+..+..++...|++
T Consensus        31 g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~~  108 (144)
T PRK15359         31 GYASWQEGDYSRAVIDFSWLVMAQP-WSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGEP  108 (144)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCH
Confidence            3344444444444444444443321 133444444444444444444444444444432 12334444444444444444


Q ss_pred             hhHHHHHHHHHH
Q 038109          190 TATSGVLKKMEE  201 (324)
Q Consensus       190 ~~a~~~~~~m~~  201 (324)
                      ++|...|+...+
T Consensus       109 ~eAi~~~~~Al~  120 (144)
T PRK15359        109 GLAREAFQTAIK  120 (144)
T ss_pred             HHHHHHHHHHHH
Confidence            444444444443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.49  E-value=2.6e-07  Score=49.22  Aligned_cols=33  Identities=39%  Similarity=0.666  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLS  137 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~  137 (324)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            577777777777777777777777777777776

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.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.48  E-value=6.2e-05  Score=69.65  Aligned_cols=228  Identities=12%  Similarity=0.103  Sum_probs=151.9

Q ss_pred             chhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 038109           70 ANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKS-AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVL  148 (324)
Q Consensus        70 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  148 (324)
                      ...+..|+..+...+++++|.++.+...+..|+.. .|-.+...+.+.++..++.-+                 .++...
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l~~~   93 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL-----------------NLIDSF   93 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh-----------------hhhhhc
Confidence            36777888888888888888888887777777654 344444466666665544433                 334444


Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 038109          149 TRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAF  228 (324)
Q Consensus       149 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  228 (324)
                      ....++..+..+...|...+  -+...+-.+..+|-+.|+.++|..+|+++.+..+. |....|.+...|+.. ++++|.
T Consensus        94 ~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-dL~KA~  169 (906)
T PRK14720         94 SQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-DKEKAI  169 (906)
T ss_pred             ccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-hHHHHH
Confidence            45555655555666666643  35567888999999999999999999999999865 899999999999999 999999


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHH---HHH--hcCCHHHHHHHHHHhCCC-CCCcCHhHHHHHHHHHhCcCCHHHHHHHHH
Q 038109          229 VLLRRMVDDGQSVLYSTYAHVMG---ALL--RLGYYAQAVKFVMVCGGR-DIKLDTELFGSLGSKLIGLERFNEANFILK  302 (324)
Q Consensus       229 ~~~~~m~~~~~~p~~~~~~~li~---~~~--~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  302 (324)
                      +++.+....-  .+..-|+.+..   -++  ...+++.-.++.+.+... |..--..++-.+...|-..++++++..+|+
T Consensus       170 ~m~~KAV~~~--i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK  247 (906)
T PRK14720        170 TYLKKAIYRF--IKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILK  247 (906)
T ss_pred             HHHHHHHHHH--HhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHH
Confidence            9998876541  11111111111   111  222344444444444433 334445666677788889999999999999


Q ss_pred             HHHhCCCc---hhHHHHHHHh
Q 038109          303 EMNKRDLK---MGFKLRDYYE  320 (324)
Q Consensus       303 ~m~~~~~~---~~~~~~~~~~  320 (324)
                      .+.+..-.   .-..+...|.
T Consensus       248 ~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        248 KILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHhcCCcchhhHHHHHHHHH
Confidence            99765433   3444444443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.48  E-value=2.8e-07  Score=48.77  Aligned_cols=31  Identities=29%  Similarity=0.418  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCC
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLG  205 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  205 (324)
                      +|++++.+|++.|+++.|.++|++|.+.|++
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~   33 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVK   33 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            3444444444444444444444444444433

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.47  E-value=0.00041  Score=66.72  Aligned_cols=267  Identities=13%  Similarity=0.022  Sum_probs=169.9

Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhcCC------CCCc--hhhHhhhhchhhhhhHHHHHHHHHHHhcCCC--CH----HH
Q 038109           40 DLVNAAGHERDLETVRYLLNKRARDCC------FNTA--NTFNFITNTENSLSVLSDLCRTLARLDKGFP--RK----SA  105 (324)
Q Consensus        40 ~ll~~~~~~~~~~~a~~~~~~m~~~~~------~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p--~~----~~  105 (324)
                      .....+...|+++++...+....+.--      .+..  .....+...+...|++++|...++......+  +.    ..
T Consensus       414 ~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a  493 (903)
T PRK04841        414 LQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVA  493 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHH
Confidence            334445678899999999887754310      1111  1122233455678999999999988754333  21    24


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhC----CCC-CChhhHHHHHHHHHccCcHHHHHHHHHHHHh----CCCC--C-CH
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIMAEG----GFG-LSAITFHPILSVLTRGKRMEEAWGLMEVMKE----IRVS--P-DL  173 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~--~-~~  173 (324)
                      .+.+...+...|++++|...+++....    |.. +...++..+...+...|+++.|...+++...    .+..  + ..
T Consensus       494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  573 (903)
T PRK04841        494 TSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHE  573 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence            566677788899999999999888742    111 1123445566677889999999998887554    2221  1 23


Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHC----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcCHHH
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEE----KLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQSVLYST  245 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~~  245 (324)
                      ..+..+...+...|++++|...+++....    +.......+..+...+...|+.++|.+.++.....    +..+....
T Consensus       574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~  653 (903)
T PRK04841        574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIA  653 (903)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhh
Confidence            34455566677889999999998876542    21112344555667788899999999998887542    11111101


Q ss_pred             H--HHHHHHHHhcCCHHHHHHHHHHhCCCCCCcC---HhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          246 Y--AHVMGALLRLGYYAQAVKFVMVCGGRDIKLD---TELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       246 ~--~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .  ...+..+...|+.+.|..++...........   ...+..+..++...|+.++|...+++...
T Consensus       654 ~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~  719 (903)
T PRK04841        654 NADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNE  719 (903)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            0  1122445568999999999877655322111   11134567788899999999999998754

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.47  E-value=0.00057  Score=58.45  Aligned_cols=130  Identities=16%  Similarity=0.135  Sum_probs=73.8

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHH-------HHHHhcCCHHHHHHHHHHHHHCCCCcCHHH---
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV-------LGACRAGRVEEAFVLLRRMVDDGQSVLYST---  245 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li-------~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~---  245 (324)
                      ++..-.+|...|.+.++...-+...+.|-. ...-|+.+.       .+|.+.++++.+...|.+....-..|+..+   
T Consensus       260 ~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk  338 (539)
T KOG0548|consen  260 LNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLK  338 (539)
T ss_pred             HHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHH
Confidence            344444455555544444444433333322 222233322       345556677777777776554433333221   


Q ss_pred             ----------------------HHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHH
Q 038109          246 ----------------------YAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKE  303 (324)
Q Consensus       246 ----------------------~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  303 (324)
                                            ...=-..+.+.|++..|...+.++.... +-|...|..-.-+|.+.|.+..|++=.+.
T Consensus       339 ~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~  417 (539)
T KOG0548|consen  339 EAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKK  417 (539)
T ss_pred             HHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence                                  0111334557788888888888888876 34788888888888888888887775554


Q ss_pred             HHhC
Q 038109          304 MNKR  307 (324)
Q Consensus       304 m~~~  307 (324)
                      -.+.
T Consensus       418 ~ieL  421 (539)
T KOG0548|consen  418 CIEL  421 (539)
T ss_pred             HHhc
Confidence            4433

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.46  E-value=0.00082  Score=58.89  Aligned_cols=288  Identities=9%  Similarity=0.091  Sum_probs=178.2

Q ss_pred             hhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcC------CCCCchhhHhhhhchhhhhhHH
Q 038109           14 PQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDC------CFNTANTFNFITNTENSLSVLS   87 (324)
Q Consensus        14 ~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~~~~~l~~~~~~~~~~~   87 (324)
                      .-+..+++.+..+.     |.  .-+-.|..+++.+++++|.+.+...+...      .+.+...|..+.+..++..+.-
T Consensus       155 ets~rvyrRYLk~~-----P~--~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~  227 (835)
T KOG2047|consen  155 ETSIRVYRRYLKVA-----PE--AREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKV  227 (835)
T ss_pred             HHHHHHHHHHHhcC-----HH--HHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchh
Confidence            34445555444443     22  25666777788888888888887765431      2444455665555544443332


Q ss_pred             ---HHHHHHHHHhcCCCCHH--HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC----------
Q 038109           88 ---DLCRTLARLDKGFPRKS--AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGK----------  152 (324)
Q Consensus        88 ---~a~~~~~~~~~~~p~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~----------  152 (324)
                         ....+++.....++|..  .|++|.+-|.+.|.+++|..+|++..+.-.  +..-|+.+.+.|+.-.          
T Consensus       228 ~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~--tvrDFt~ifd~Ya~FEE~~~~~~me~  305 (835)
T KOG2047|consen  228 QSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTVM--TVRDFTQIFDAYAQFEESCVAAKMEL  305 (835)
T ss_pred             cccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhe--ehhhHHHHHHHHHHHHHHHHHHHHhh
Confidence               23344445555567655  799999999999999999999999877532  3444555555554321          


Q ss_pred             ------------cHHHHHHHHHHHHhCCC-----------CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCC---
Q 038109          153 ------------RMEEAWGLMEVMKEIRV-----------SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA---  206 (324)
Q Consensus       153 ------------~~~~a~~~~~~m~~~~~-----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~---  206 (324)
                                  +++-...-|+.+...+.           +.++..|..-+..  ..|+..+...+|.+..+. +.|   
T Consensus       306 a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~-vdP~ka  382 (835)
T KOG2047|consen  306 ADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKT-VDPKKA  382 (835)
T ss_pred             hhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHc-cCcccC
Confidence                        12233334444433221           1234445444333  456677777777777654 222   


Q ss_pred             ---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC---HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC-------
Q 038109          207 ---DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL---YSTYAHVMGALLRLGYYAQAVKFVMVCGGRD-------  273 (324)
Q Consensus       207 ---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-------  273 (324)
                         -...|..+...|-.+|+++.|..+|++..+-..+--   ..+|..-...=.+..+++.|.++.+.....-       
T Consensus       383 ~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~  462 (835)
T KOG2047|consen  383 VGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEY  462 (835)
T ss_pred             CCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhh
Confidence               235688888899999999999999998876533211   3445555555557788899998887664321       


Q ss_pred             ----CCc------CHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhH
Q 038109          274 ----IKL------DTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGF  313 (324)
Q Consensus       274 ----~~~------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  313 (324)
                          -++      +...|...++.....|-++....+++++.+..+-.++
T Consensus       463 yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPq  512 (835)
T KOG2047|consen  463 YDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQ  512 (835)
T ss_pred             hcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHH
Confidence                011      2345666666667788999999999999887775433

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

Probab=98.46  E-value=0.00064  Score=57.57  Aligned_cols=200  Identities=14%  Similarity=0.046  Sum_probs=128.2

Q ss_pred             hhhHHHHHHHHHHHhcCC----CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHH
Q 038109           83 LSVLSDLCRTLARLDKGF----PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAW  158 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~----p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~  158 (324)
                      ..++..+....+.++...    |+...+...+.+......-..+-.++.+-.+.  .-...-|..-+. +...|+.++|+
T Consensus       250 ~~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~A~~-~~~~~~~d~A~  326 (484)
T COG4783         250 EERIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGRALQ-TYLAGQYDEAL  326 (484)
T ss_pred             hhHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHHHHH-HHHhcccchHH
Confidence            344555555555554322    45555666666554444333333333332221  112233443333 44678889999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 038109          159 GLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDG  238 (324)
Q Consensus       159 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  238 (324)
                      ..++.+.+.- +-|..........+.+.++..+|.+.++++....+. .....-.+..+|.+.|++.+|..+++..... 
T Consensus       327 ~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~-~~~l~~~~a~all~~g~~~eai~~L~~~~~~-  403 (484)
T COG4783         327 KLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALDPN-SPLLQLNLAQALLKGGKPQEAIRILNRYLFN-  403 (484)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-ccHHHHHHHHHHHhcCChHHHHHHHHHHhhc-
Confidence            9999887753 335666667778888999999999999988877433 2566677788899999999999998887754 


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          239 QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       239 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .+-|+..|..|.++|...|+..++.....                  +.|...|+++.|...+....+
T Consensus       404 ~p~dp~~w~~LAqay~~~g~~~~a~~A~A------------------E~~~~~G~~~~A~~~l~~A~~  453 (484)
T COG4783         404 DPEDPNGWDLLAQAYAELGNRAEALLARA------------------EGYALAGRLEQAIIFLMRASQ  453 (484)
T ss_pred             CCCCchHHHHHHHHHHHhCchHHHHHHHH------------------HHHHhCCCHHHHHHHHHHHHH
Confidence            34567888889999999998887766443                  334445666666665555543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.44  E-value=0.00041  Score=62.82  Aligned_cols=226  Identities=15%  Similarity=0.108  Sum_probs=121.4

Q ss_pred             hhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHH--HHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHH
Q 038109           81 NSLSVLSDLCRTLARLDKGFPRKSAYDTLIGR--LCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAW  158 (324)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~  158 (324)
                      ...+++..|.+...++.+..|+.. |..++.+  ..+.|+.++|..+++.....+.. |..|...+-..|...++.++|.
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHH
Confidence            345566666666666666666544 2222222  34667777777776666554444 6667777777777777777777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC----------HHHHH
Q 038109          159 GLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGR----------VEEAF  228 (324)
Q Consensus       159 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~----------~~~a~  228 (324)
                      .+|++..+.  .|+......+..+|.+.+++.+-.++--+|-+.-+. +...+=++++...+.-.          ..-|.
T Consensus        98 ~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk-~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~  174 (932)
T KOG2053|consen   98 HLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPK-RAYYFWSVISLILQSIFSENELLDPILLALAE  174 (932)
T ss_pred             HHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc-ccchHHHHHHHHHHhccCCcccccchhHHHHH
Confidence            777776654  355666666666777776665544444344332111 33333334444333211          12344


Q ss_pred             HHHHHHHHCC-CCcCHHHHHHHHHHHHhcCCHHHHHHHH-HHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          229 VLLRRMVDDG-QSVLYSTYAHVMGALLRLGYYAQAVKFV-MVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       229 ~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      +.++.+.+.+ -.-+..-...-...+...|.+++|++++ ....+.-..-+...-+.-++.+...+++.+..++..++..
T Consensus       175 ~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~  254 (932)
T KOG2053|consen  175 KMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLE  254 (932)
T ss_pred             HHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHH
Confidence            5555555443 1112222222233445567777777776 3333332233344444555666667777777777666666


Q ss_pred             CCCch
Q 038109          307 RDLKM  311 (324)
Q Consensus       307 ~~~~~  311 (324)
                      +|-.-
T Consensus       255 k~~Dd  259 (932)
T KOG2053|consen  255 KGNDD  259 (932)
T ss_pred             hCCcc
Confidence            55443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.43  E-value=1.8e-05  Score=57.56  Aligned_cols=93  Identities=10%  Similarity=-0.183  Sum_probs=48.9

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLG  257 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  257 (324)
                      .+...+...|++++|...|+......+. +...|..+..++.+.|++++|...|++..... +.+...+..+..++...|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC
Confidence            3444555555555555555555554333 45555555555555555555555555555432 123444455555555555


Q ss_pred             CHHHHHHHHHHhCCC
Q 038109          258 YYAQAVKFVMVCGGR  272 (324)
Q Consensus       258 ~~~~a~~~~~~~~~~  272 (324)
                      +.++|...++.....
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            555555555555443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.43  E-value=5.5e-07  Score=47.60  Aligned_cols=33  Identities=30%  Similarity=0.521  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 038109          209 RTYDALVLGACRAGRVEEAFVLLRRMVDDGQSV  241 (324)
Q Consensus       209 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  241 (324)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888876

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.41  E-value=0.00035  Score=54.13  Aligned_cols=187  Identities=13%  Similarity=0.037  Sum_probs=110.7

Q ss_pred             CCCHHHHHHHHHHHHh---cC-CCCCch-hhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHccCCHHH
Q 038109           48 ERDLETVRYLLNKRAR---DC-CFNTAN-TFNFITNTENSLSVLSDLCRTLARLDKGFPRKS-AYDTLIGRLCKLKKIDE  121 (324)
Q Consensus        48 ~~~~~~a~~~~~~m~~---~~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~  121 (324)
                      ..+.++..+++.+++.   .| ..++.. .|..++-+....|+.+.|...+..+...+|... +-..-..-+-..|++++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhh
Confidence            3455555666655542   23 344542 445556666677777777777777776666433 21111222334577777


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 038109          122 ALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEE  201 (324)
Q Consensus       122 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  201 (324)
                      |+++++.+.+.. +-|..++--=+-..-..|+..+|.+-+....+. +..|...|.-+-..|...|++++|.-.++++.-
T Consensus       105 A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            888887777765 235555555555555556666676666666554 456777777777888888888888777777776


Q ss_pred             CCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHC
Q 038109          202 EKLGADARTYDALVLGACRA---GRVEEAFVLLRRMVDD  237 (324)
Q Consensus       202 ~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~  237 (324)
                      ..+. +..-+..+...+--.   .+.+-+.+.|.+..+.
T Consensus       183 ~~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  183 IQPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             cCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            5332 333344444443332   3455666777666643

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

Probab=98.41  E-value=8.4e-06  Score=69.16  Aligned_cols=120  Identities=16%  Similarity=0.151  Sum_probs=94.9

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 038109          102 RKSAYDTLIGRLCKLKKIDEALRVVDIMAEG--GFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYL  179 (324)
Q Consensus       102 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  179 (324)
                      +......+++.+....+++.+..++-+.+..  ....-..|.+++++.|.+.|..+++..++..=...|+-||..++|.+
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            5557777888888888888888888888765  22233456678888888888888888888888888888888888888


Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 038109          180 LTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRA  221 (324)
Q Consensus       180 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  221 (324)
                      |+.+.+.|++..|.++...|...+...+..|+..-+.+|.+-
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            888888888888888888887777666777777766666655

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

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

Probab=98.39  E-value=4.5e-05  Score=55.69  Aligned_cols=127  Identities=16%  Similarity=0.174  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC--HHHHHHH
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGAD--ARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL--YSTYAHV  249 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~l  249 (324)
                      ..|..++..+ ..++...+...++.+.+....-.  ....-.+...+...|++++|...|+........|+  ......+
T Consensus        13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            3455555554 36777777777777776543311  12233344667777888888888877776552222  1233445


Q ss_pred             HHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHH
Q 038109          250 MGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKE  303 (324)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  303 (324)
                      ...+...|++++|+..++......  ..+..+....+.|.+.|++++|...|++
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            666777788888887776644433  2444566677777788888888777764

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

Probab=98.39  E-value=8.6e-06  Score=54.60  Aligned_cols=35  Identities=17%  Similarity=0.256  Sum_probs=15.2

Q ss_pred             ccCcHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHH
Q 038109          150 RGKRMEEAWGLMEVMKEIRV-SPDLTAYNYLLTAYC  184 (324)
Q Consensus       150 ~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~  184 (324)
                      ..+++.....+|+.+++.|+ .|+..+|+.++.+.+
T Consensus        37 ~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~   72 (120)
T PF08579_consen   37 ENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIA   72 (120)
T ss_pred             hhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHH
Confidence            33444444444444444444 444444444444433

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 [, , ].

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

Probab=98.39  E-value=2e-05  Score=66.96  Aligned_cols=123  Identities=12%  Similarity=0.046  Sum_probs=106.8

Q ss_pred             cCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC----CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChh
Q 038109           64 DCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP----RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAI  139 (324)
Q Consensus        64 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  139 (324)
                      .+.+.++.....+++.+....+++.+..++-++.....    -..+..++++.|.+.|..+.++.+++.=...|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            34566777888899999999999999999998865421    12255799999999999999999999999999999999


Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 038109          140 TFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFK  186 (324)
Q Consensus       140 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  186 (324)
                      +++.+|..+.+.|++..|.++...|...+...+..|+...+.+|.+.
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999999999888777888888777777776

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 [].

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

Probab=98.38  E-value=0.00027  Score=64.93  Aligned_cols=139  Identities=9%  Similarity=0.093  Sum_probs=62.3

Q ss_pred             hhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 038109           72 TFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRG  151 (324)
Q Consensus        72 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  151 (324)
                      .|+.+..+-.+.|.+.+|.+-|-+.    .|...|..+++...+.|.+++-.+.+...++..-.|...  +.+|-+|++.
T Consensus      1106 vWsqlakAQL~~~~v~dAieSyika----dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt 1179 (1666)
T KOG0985|consen 1106 VWSQLAKAQLQGGLVKDAIESYIKA----DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKT 1179 (1666)
T ss_pred             HHHHHHHHHHhcCchHHHHHHHHhc----CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHh
Confidence            3444444444444444444433322    233344555555555555555555554444443333322  3344455555


Q ss_pred             CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 038109          152 KRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLL  231 (324)
Q Consensus       152 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  231 (324)
                      ++..+.++...       -||......+.+-|...|.++.|.-+|.         ++.-|..|...++..|+++.|...-
T Consensus      1180 ~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~---------~vSN~a~La~TLV~LgeyQ~AVD~a 1243 (1666)
T KOG0985|consen 1180 NRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYS---------NVSNFAKLASTLVYLGEYQGAVDAA 1243 (1666)
T ss_pred             chHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHH---------HhhhHHHHHHHHHHHHHHHHHHHHh
Confidence            54444333221       1333333344444444444444433332         2334555666666666666655443


Q ss_pred             H
Q 038109          232 R  232 (324)
Q Consensus       232 ~  232 (324)
                      +
T Consensus      1244 R 1244 (1666)
T KOG0985|consen 1244 R 1244 (1666)
T ss_pred             h
Confidence            3

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.38  E-value=0.0006  Score=55.47  Aligned_cols=84  Identities=7%  Similarity=-0.146  Sum_probs=57.8

Q ss_pred             CCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHH
Q 038109            9 TKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSD   88 (324)
Q Consensus         9 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~   88 (324)
                      ....+..|..+++.-....   ..-...+=-.+..++.+.|++++|...+..+... -.++...+-.|..++.-.|.+.+
T Consensus        34 s~rDytGAislLefk~~~~---~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~-~~~~~el~vnLAcc~FyLg~Y~e  109 (557)
T KOG3785|consen   34 SNRDYTGAISLLEFKLNLD---REEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNK-DDAPAELGVNLACCKFYLGQYIE  109 (557)
T ss_pred             hcccchhHHHHHHHhhccc---hhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhcc-CCCCcccchhHHHHHHHHHHHHH
Confidence            3445566666665554333   1222223334555677999999999999988775 36777777788888888999999


Q ss_pred             HHHHHHHH
Q 038109           89 LCRTLARL   96 (324)
Q Consensus        89 a~~~~~~~   96 (324)
                      |..+..+.
T Consensus       110 A~~~~~ka  117 (557)
T KOG3785|consen  110 AKSIAEKA  117 (557)
T ss_pred             HHHHHhhC
Confidence            99887765

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

Probab=98.37  E-value=1.1e-05  Score=54.11  Aligned_cols=79  Identities=9%  Similarity=0.205  Sum_probs=60.4

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHCCCCcCHHHHH
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEKL-GADARTYDALVLGACRAG--------RVEEAFVLLRRMVDDGQSVLYSTYA  247 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~~~~p~~~~~~  247 (324)
                      ...|.-+...+++.....+|+.+++.|+ .|+..+|+.++.+-++..        +.-+.+.+|+.|...+++|+..||+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3445555666888888888888888888 888888888888876642        2345677888888888888888888


Q ss_pred             HHHHHHHh
Q 038109          248 HVMGALLR  255 (324)
Q Consensus       248 ~li~~~~~  255 (324)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            88877654

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 [, , ].

>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=98.36  E-value=4.2e-05  Score=64.66  Aligned_cols=125  Identities=17%  Similarity=0.095  Sum_probs=97.9

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALL  254 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  254 (324)
                      ....++..+...++++.|..+|+++.+..  |+  ....++..+...++-.+|.+++++..+.. +-+......-...|.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34556667777889999999999998874  44  44557788888888899999998888542 235556665666788


Q ss_pred             hcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          255 RLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       255 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      +.++.+.|..+.+++.+..+ -+..+|..|..+|.+.|++++|+-.++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~lsP-~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSP-SEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999988743 366799999999999999999999888775

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

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.35  E-value=0.00091  Score=54.25  Aligned_cols=264  Identities=8%  Similarity=0.002  Sum_probs=180.7

Q ss_pred             HHHHHHH---HHhcCCCHHHHHHHHHHHHhcCCCCCchhh-HhhhhchhhhhhHHHHHHHHHHHhcCCCCHH----H---
Q 038109           37 YYDDLVN---AAGHERDLETVRYLLNKRARDCCFNTANTF-NFITNTENSLSVLSDLCRTLARLDKGFPRKS----A---  105 (324)
Q Consensus        37 ~~~~ll~---~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~----~---  105 (324)
                      .|.++.+   .|...|+-..|+.=+...++  .+||-..- -.-...+.+.|.++.|..-|+.+....|+..    +   
T Consensus        71 ~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqsk  148 (504)
T KOG0624|consen   71 NYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSK  148 (504)
T ss_pred             hHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHH
Confidence            3555443   55666777777777777666  35665322 2235567889999999999999876655221    1   


Q ss_pred             -------H--HHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHH
Q 038109          106 -------Y--DTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY  176 (324)
Q Consensus       106 -------~--~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  176 (324)
                             |  ...+..+...|+...|++....+.+. .+.|...|..-..+|...|++..|..=++...+..-. ++.++
T Consensus       149 l~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi-~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~  226 (504)
T KOG0624|consen  149 LALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI-QPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGH  226 (504)
T ss_pred             HHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc-CcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHH
Confidence                   2  23455667789999999999999886 3357788888888999999999998877777665433 55566


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHH----HHHH---------HHHHHhcCCHHHHHHHHHHHHHCCCCc--
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADART----YDAL---------VLGACRAGRVEEAFVLLRRMVDDGQSV--  241 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~----~~~l---------i~~~~~~g~~~~a~~~~~~m~~~~~~p--  241 (324)
                      --+-..+...|+.+.++...++..+.+  ||...    |-.+         +......++|.++.+-.+...+.....  
T Consensus       227 ykis~L~Y~vgd~~~sL~~iRECLKld--pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~  304 (504)
T KOG0624|consen  227 YKISQLLYTVGDAENSLKEIRECLKLD--PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETM  304 (504)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHccC--cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccc
Confidence            666777888999999999988888763  44322    1111         122345677777877777766553221  


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          242 -LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       242 -~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                       ....+..+-.++...|++.+|++...+..+.. +.|+.++.-=..+|.-...+|.|+.=|+...+.
T Consensus       305 ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d-~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  305 IRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID-PDDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             eeeeeeheeeecccccCCHHHHHHHHHHHHhcC-chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence             22334555666777889999999888888753 224777777778888888888888877766543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.34  E-value=0.00064  Score=52.71  Aligned_cols=186  Identities=13%  Similarity=0.041  Sum_probs=135.7

Q ss_pred             hhHHHHHHHHHHHh----cC--CCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHH
Q 038109           84 SVLSDLCRTLARLD----KG--FPRKS-AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEE  156 (324)
Q Consensus        84 ~~~~~a~~~~~~~~----~~--~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~  156 (324)
                      .+.++..+++..+.    .+  .|+.. .|..++-+....|+.+.|..+++++.+. ++-+..+-..-.-.+-..|++++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchhh
Confidence            44566666666652    22  14433 6777888888999999999999999886 33233322222223445689999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          157 AWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       157 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      |.++++.+.+.+ +.|.+++---+...-..|+.-+|++-+.+..+.-+ .|...|.-+...|...|++++|.-.++++.-
T Consensus       105 A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~-~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFM-NDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhc-CcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            999999999886 55778888777777788888899998888887644 4999999999999999999999999999985


Q ss_pred             CCCCcCHHHHHHHHHHHHhcC---CHHHHHHHHHHhCCCC
Q 038109          237 DGQSVLYSTYAHVMGALLRLG---YYAQAVKFVMVCGGRD  273 (324)
Q Consensus       237 ~~~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~  273 (324)
                      .. +.++..|..+...+.-.|   +...+.+++....+..
T Consensus       183 ~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  183 IQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             cC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            42 234455555655544444   5667888888887754

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

Probab=98.34  E-value=5e-05  Score=54.72  Aligned_cols=58  Identities=14%  Similarity=0.013  Sum_probs=21.6

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  234 (324)
                      +..+..++...|++++|...++...+.+.. +...+..+...+...|++++|...|+..
T Consensus        54 ~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~a  111 (135)
T TIGR02552        54 WLGLAACCQMLKEYEEAIDAYALAAALDPD-DPRPYFHAAECLLALGEPESALKALDLA  111 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            333333333334444444443333333211 2333333333333444444444444333

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

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

Probab=98.33  E-value=0.00042  Score=61.70  Aligned_cols=240  Identities=12%  Similarity=-0.003  Sum_probs=161.3

Q ss_pred             cCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC-ChhhH
Q 038109           64 DCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKG-FPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGL-SAITF  141 (324)
Q Consensus        64 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~  141 (324)
                      ..+..|+..|..+.-+....|+++.+.+.|++.... +.....|+.+...|...|.-..|..+++.-......| +...+
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            346678889999999999999999999999987543 3566789999999999999999999998776544334 44444


Q ss_pred             HHHHHHHH-ccCcHHHHHHHHHHHHhC--C--CCCCHHHHHHHHHHHHhcC-----------ChhhHHHHHHHHHHCCCC
Q 038109          142 HPILSVLT-RGKRMEEAWGLMEVMKEI--R--VSPDLTAYNYLLTAYCFKG-----------NLTATSGVLKKMEEEKLG  205 (324)
Q Consensus       142 ~~li~~~~-~~~~~~~a~~~~~~m~~~--~--~~~~~~~~~~li~~~~~~~-----------~~~~a~~~~~~m~~~~~~  205 (324)
                      -..-..|. +.+..++++++-.+....  +  -......|..+.-+|...-           ...++.+.+++..+.+..
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~  476 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT  476 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC
Confidence            44444444 446777777766665552  1  1123344544544554321           235677788888776554


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHH
Q 038109          206 ADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLG  285 (324)
Q Consensus       206 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  285 (324)
                       |....-.+.--|+..++++.|.+..++..+.+..-+...|..+.-.+...+++.+|+.+.+...+. ..-|......-+
T Consensus       477 -dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E-~~~N~~l~~~~~  554 (799)
T KOG4162|consen  477 -DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE-FGDNHVLMDGKI  554 (799)
T ss_pred             -CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH-hhhhhhhchhhh
Confidence             333333344457778899999999999998866678888888888899999999999998766443 111222222223


Q ss_pred             HHHhCcCCHHHHHHHHHHHH
Q 038109          286 SKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       286 ~~~~~~g~~~~a~~~~~~m~  305 (324)
                      ..-...|+.+++......+.
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L  574 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKL  574 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHH
Confidence            33334577777776665553

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

Probab=98.33  E-value=4.3e-05  Score=55.06  Aligned_cols=97  Identities=15%  Similarity=0.030  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGAL  253 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  253 (324)
                      .....+...+...|++++|.+.|+.....+.. +...+..+...+...|++++|...++...+.+ +.+...+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            33444555555666666666666665554433 45555556666666666666666666554432 22344444455555


Q ss_pred             HhcCCHHHHHHHHHHhCCC
Q 038109          254 LRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       254 ~~~g~~~~a~~~~~~~~~~  272 (324)
                      ...|+++.|...++...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666555553

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

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.32  E-value=0.0018  Score=56.27  Aligned_cols=116  Identities=17%  Similarity=0.176  Sum_probs=59.5

Q ss_pred             HHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHH--HHHH--HccC
Q 038109           42 VNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTL--IGRL--CKLK  117 (324)
Q Consensus        42 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~l--i~~~--~~~~  117 (324)
                      ++.+.+.+++++|.+...+++..+ +.+...+..-+-+..+.+.+++|..+.+.-..    ..+++..  =.+|  .+.+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~----~~~~~~~~fEKAYc~Yrln   93 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA----LLVINSFFFEKAYCEYRLN   93 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch----hhhcchhhHHHHHHHHHcc
Confidence            344566667777777777776653 44445555556666677777777654443211    1111111  2222  3445


Q ss_pred             CHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHccCcHHHHHHHHHHHHhC
Q 038109          118 KIDEALRVVDIMAEGGFGLS-AITFHPILSVLTRGKRMEEAWGLMEVMKEI  167 (324)
Q Consensus       118 ~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  167 (324)
                      ..++|+..++     |..++ ..+...-.+.+.+.+++++|..+|+.+.+.
T Consensus        94 k~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn  139 (652)
T KOG2376|consen   94 KLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKN  139 (652)
T ss_pred             cHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            5666665555     22222 223444445555666666666666655443

>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=98.30  E-value=6.3e-05  Score=63.64  Aligned_cols=125  Identities=19%  Similarity=0.123  Sum_probs=102.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .-..++..+...++++.|..+|+++.+..  |+  ....+...+...++..+|.+++++..+.. +.+......-...+.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34567778888899999999999999874  34  45567888888889999999999888653 336677777778899


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      +.++++.|..+.+++.+..+. +-.+|..|..+|.+.|+++.|+..++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            999999999999999987443 56799999999999999999999998775

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

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

Probab=98.28  E-value=0.00095  Score=59.57  Aligned_cols=280  Identities=16%  Similarity=0.101  Sum_probs=179.5

Q ss_pred             HHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHH
Q 038109           16 SVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLAR   95 (324)
Q Consensus        16 a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   95 (324)
                      +++.++.-....  +-.|++..|-++-  ++..++++.|.+..++..+-+-..++..|..+.-.+...+++.+|+.+.+.
T Consensus       463 slqale~av~~d--~~dp~~if~lalq--~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~  538 (799)
T KOG4162|consen  463 SLQALEEAVQFD--PTDPLVIFYLALQ--YAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDA  538 (799)
T ss_pred             HHHHHHHHHhcC--CCCchHHHHHHHH--HHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            344444333333  2335554444443  778889999999999999886678889999999999999999999999888


Q ss_pred             HhcCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHh---------------------CCCC-----C--ChhhHHHHHH
Q 038109           96 LDKGFPRKS-AYDTLIGRLCKLKKIDEALRVVDIMAE---------------------GGFG-----L--SAITFHPILS  146 (324)
Q Consensus        96 ~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~---------------------~g~~-----~--~~~~~~~li~  146 (324)
                      .....|+.. -...=++.-...++.++++.....+..                     .|+.     |  ...++.-+..
T Consensus       539 al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~  618 (799)
T KOG4162|consen  539 ALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSS  618 (799)
T ss_pred             HHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHH
Confidence            765554322 111112222224444444444333221                     0100     0  1112222221


Q ss_pred             HHHccCcHHHHHHHHHHHHhCCCCC--C------HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 038109          147 VLTRGKRMEEAWGLMEVMKEIRVSP--D------LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGA  218 (324)
Q Consensus       147 ~~~~~~~~~~a~~~~~~m~~~~~~~--~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  218 (324)
                      -...  +...+..-.. +...-..|  +      ...|......+.+.+..++|...+.+.....+. ....|......+
T Consensus       619 l~a~--~~~~~~se~~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l-~~~~~~~~G~~~  694 (799)
T KOG4162|consen  619 LVAS--QLKSAGSELK-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKIDPL-SASVYYLRGLLL  694 (799)
T ss_pred             HHHh--hhhhcccccc-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcchh-hHHHHHHhhHHH
Confidence            1110  0000000000 11111112  2      234556677788889999998888877765332 567777777888


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCHHHHHH--HHHHhCCCCCCcCHhHHHHHHHHHhCcCCHH
Q 038109          219 CRAGRVEEAFVLLRRMVDDGQSVL-YSTYAHVMGALLRLGYYAQAVK--FVMVCGGRDIKLDTELFGSLGSKLIGLERFN  295 (324)
Q Consensus       219 ~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  295 (324)
                      ...|..++|.+.|.....-  .|+ ..+.+++...+.+.|+...|..  ++.++.+.++ .+...|..+...+-+.|+.+
T Consensus       695 ~~~~~~~EA~~af~~Al~l--dP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp-~n~eaW~~LG~v~k~~Gd~~  771 (799)
T KOG4162|consen  695 EVKGQLEEAKEAFLVALAL--DPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDP-LNHEAWYYLGEVFKKLGDSK  771 (799)
T ss_pred             HHHHhhHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHccchH
Confidence            8999999999999887753  343 5667788899999999888888  9999999874 48999999999999999999


Q ss_pred             HHHHHHHHHHh
Q 038109          296 EANFILKEMNK  306 (324)
Q Consensus       296 ~a~~~~~~m~~  306 (324)
                      .|-+.|+.-.+
T Consensus       772 ~Aaecf~aa~q  782 (799)
T KOG4162|consen  772 QAAECFQAALQ  782 (799)
T ss_pred             HHHHHHHHHHh
Confidence            99999987643

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.28  E-value=0.00029  Score=57.24  Aligned_cols=197  Identities=10%  Similarity=0.042  Sum_probs=132.7

Q ss_pred             hhhhchhhhhhHHHHHHHHHHHhcCCCCHH-----HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCh-hhHHHHHHHH
Q 038109           75 FITNTENSLSVLSDLCRTLARLDKGFPRKS-----AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSA-ITFHPILSVL  148 (324)
Q Consensus        75 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-----~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~  148 (324)
                      .|+--|.+.+++.+|..+...+....|-..     ++..+..-........-|.+.|+-.-+++..-|. .--.++.+.+
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~f  369 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYF  369 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHH
Confidence            455567889999999988887765444332     2333333333334566677777666666654332 2334555566


Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHH-HHHHHHhcCCHHHH
Q 038109          149 TRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDA-LVLGACRAGRVEEA  227 (324)
Q Consensus       149 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-li~~~~~~g~~~~a  227 (324)
                      .-..++++++-.+......-...|..-+ .+..+++..|++.+|.++|-......++ |..+|.+ |.++|.+++.++.|
T Consensus       370 FL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lA  447 (557)
T KOG3785|consen  370 FLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLA  447 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHH
Confidence            6667788888888887765444344444 5778999999999999999877665555 6677754 56889999999999


Q ss_pred             HHHHHHHHHCCCCcCHHHHHH-HHHHHHhcCCHHHHHHHHHHhCCCCCCc
Q 038109          228 FVLLRRMVDDGQSVLYSTYAH-VMGALLRLGYYAQAVKFVMVCGGRDIKL  276 (324)
Q Consensus       228 ~~~~~~m~~~~~~p~~~~~~~-li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (324)
                      ++++-.+...   .+..+... +..-|.+.+++--|-+.|+.+...++.|
T Consensus       448 W~~~lk~~t~---~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~p  494 (557)
T KOG3785|consen  448 WDMMLKTNTP---SERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTP  494 (557)
T ss_pred             HHHHHhcCCc---hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCc
Confidence            9987665432   23333333 3456889999999999999888765433

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.26  E-value=0.0034  Score=57.19  Aligned_cols=225  Identities=15%  Similarity=0.135  Sum_probs=153.1

Q ss_pred             CCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHH--hcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhh
Q 038109            7 LPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAA--GHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLS   84 (324)
Q Consensus         7 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~   84 (324)
                      ..+.+++.+|+.-..-+....  |-.+    |..+++++  .+.|+.++|..+++.....+. .|..|...+-.+|...+
T Consensus        19 ~ld~~qfkkal~~~~kllkk~--Pn~~----~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~-~D~~tLq~l~~~y~d~~   91 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKH--PNAL----YAKVLKALSLFRLGKGDEALKLLEALYGLKG-TDDLTLQFLQNVYRDLG   91 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHC--CCcH----HHHHHHHHHHHHhcCchhHHHHHhhhccCCC-CchHHHHHHHHHHHHHh
Confidence            345667777777666555544  2334    55555554  588999999999888776543 37789999999999999


Q ss_pred             hHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC----------cH
Q 038109           85 VLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGK----------RM  154 (324)
Q Consensus        85 ~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~----------~~  154 (324)
                      ..+++..+++.....+|+..-...+..+|.+.+++.+-.+.--+|-+. ++-+...+=++++.....-          -.
T Consensus        92 ~~d~~~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l  170 (932)
T KOG2053|consen   92 KLDEAVHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILL  170 (932)
T ss_pred             hhhHHHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhH
Confidence            999999999999999999777777888899888876655554444442 3335555555665554331          12


Q ss_pred             HHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChhhHHHHHH-HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038109          155 EEAWGLMEVMKEIR-VSPDLTAYNYLLTAYCFKGNLTATSGVLK-KMEEEKLGADARTYDALVLGACRAGRVEEAFVLLR  232 (324)
Q Consensus       155 ~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~-~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  232 (324)
                      .-|.+.++.+.+.+ -.-+..-.-.-.......|++++|.+++. ...+.-..-+...-+.-+..+...+++.+..++-.
T Consensus       171 ~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~  250 (932)
T KOG2053|consen  171 ALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSS  250 (932)
T ss_pred             HHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHH
Confidence            34556666665544 21122222223344556888999999984 44444344455666677788888999999999998


Q ss_pred             HHHHCCC
Q 038109          233 RMVDDGQ  239 (324)
Q Consensus       233 ~m~~~~~  239 (324)
                      ++...|.
T Consensus       251 ~Ll~k~~  257 (932)
T KOG2053|consen  251 RLLEKGN  257 (932)
T ss_pred             HHHHhCC
Confidence            8887763

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

Probab=98.22  E-value=0.0007  Score=57.33  Aligned_cols=131  Identities=14%  Similarity=0.025  Sum_probs=109.1

Q ss_pred             HHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCHH
Q 038109          182 AYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL-YSTYAHVMGALLRLGYYA  260 (324)
Q Consensus       182 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~  260 (324)
                      .+...|++++|+..++.+....+. |..-+......+.+.|+.++|.+.++++...  .|+ ....-.+..++.+.|++.
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~P~-N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQPD-NPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChH
Confidence            445689999999999999887554 6777788889999999999999999999865  465 444555778999999999


Q ss_pred             HHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhHHHH
Q 038109          261 QAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLR  316 (324)
Q Consensus       261 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  316 (324)
                      +|..+++...... +-|+..|..|.++|...|+..++..-..+.....-.+..+.+
T Consensus       392 eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G~~~~A~~  446 (484)
T COG4783         392 EAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQAII  446 (484)
T ss_pred             HHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhCCCHHHHHH
Confidence            9999999988875 459999999999999999999999999888766555555443

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

Probab=98.21  E-value=2.1e-06  Score=44.21  Aligned_cols=30  Identities=30%  Similarity=0.422  Sum_probs=23.4

Q ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHhCCC
Q 038109          280 LFGSLGSKLIGLERFNEANFILKEMNKRDL  309 (324)
Q Consensus       280 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  309 (324)
                      +|+.++++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            677788888888888888888888877764

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

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

Probab=98.20  E-value=1.8e-06  Score=44.41  Aligned_cols=26  Identities=35%  Similarity=0.779  Sum_probs=10.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          211 YDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       211 ~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      |++++++|++.|++++|.++|++|.+
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~~   28 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMRE   28 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHhH
Confidence            33333333333333333333333333

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.

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

Probab=98.18  E-value=0.00035  Score=50.98  Aligned_cols=116  Identities=16%  Similarity=0.060  Sum_probs=60.3

Q ss_pred             cCcHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHH
Q 038109          151 GKRMEEAWGLMEVMKEIRVSP--DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADA--RTYDALVLGACRAGRVEE  226 (324)
Q Consensus       151 ~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~li~~~~~~g~~~~  226 (324)
                      .++...+...++.+.+.....  .....-.+...+...|++++|...|+........|+.  .....+...+...|++++
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            555666666666665543111  0122223345556666666666666666665422221  233335556666666666


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038109          227 AFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMV  268 (324)
Q Consensus       227 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  268 (324)
                      |+..++......  .....+...-..+.+.|+.++|...|+.
T Consensus       104 Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            666665533222  2233444455566666666666666654

>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=98.17  E-value=9.7e-05  Score=56.00  Aligned_cols=59  Identities=12%  Similarity=0.153  Sum_probs=35.2

Q ss_pred             HHHHHhcCCCCHHHHHHHHHHHHcc-----CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 038109           92 TLARLDKGFPRKSAYDTLIGRLCKL-----KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR  150 (324)
Q Consensus        92 ~~~~~~~~~p~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  150 (324)
                      .|+.......+..+|..+++.|.+.     |.++-....+..|.+-|+.-|..+|+.|++.+=+
T Consensus        36 ~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   36 LFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             HHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            3444433334555666666666543     5566666666677777777677777777766543

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

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.14  E-value=0.00075  Score=60.83  Aligned_cols=117  Identities=14%  Similarity=0.117  Sum_probs=64.1

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHhc-C--------CCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHH
Q 038109           36 AYYDDLVNAAGHERDLETVRYLLNKRARD-C--------CFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAY  106 (324)
Q Consensus        36 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  106 (324)
                      ..|..+.+.|.+.++++-|.-.+..|... |        ..|+ .+-.-+.-.....|.+++|..++.+-++       |
T Consensus       758 ~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-------~  829 (1416)
T KOG3617|consen  758 SVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-------Y  829 (1416)
T ss_pred             HHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-------H
Confidence            35777777777777777776666665431 1        1121 1111222233556677777777666544       4


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHH
Q 038109          107 DTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEV  163 (324)
Q Consensus       107 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  163 (324)
                      ..|=..|-..|.|++|.++-+.=.+-.+   ..||......+-..++.+.|++.|+.
T Consensus       830 DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~AleyyEK  883 (1416)
T KOG3617|consen  830 DLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYYEK  883 (1416)
T ss_pred             HHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHHHh
Confidence            5555566667777777766543222111   24455555555555666666665553

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.12  E-value=0.00031  Score=62.45  Aligned_cols=165  Identities=14%  Similarity=0.093  Sum_probs=88.3

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHH
Q 038109          115 KLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSG  194 (324)
Q Consensus       115 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  194 (324)
                      ..+.|.+|+.+++.+.....  -..-|..+.+.|...|+++-|+++|-+.         ..++-.|.+|.+.|+|++|.+
T Consensus       744 ~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~k  812 (1636)
T KOG3616|consen  744 GAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFK  812 (1636)
T ss_pred             hhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHH
Confidence            33444555555544444322  1223445555566666666665555432         123445566666666666665


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCC
Q 038109          195 VLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDI  274 (324)
Q Consensus       195 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (324)
                      +-.+..  |.......|-+-..-+-++|++.+|.++|-..   | .|+.     .|+.|-+.|..+...++...-...- 
T Consensus       813 la~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti---~-~p~~-----aiqmydk~~~~ddmirlv~k~h~d~-  880 (1636)
T KOG3616|consen  813 LAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITI---G-EPDK-----AIQMYDKHGLDDDMIRLVEKHHGDH-  880 (1636)
T ss_pred             HHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEc---c-CchH-----HHHHHHhhCcchHHHHHHHHhChhh-
Confidence            543332  33334445555555555666666666655332   1 2433     3466667777776666655433221 


Q ss_pred             CcCHhHHHHHHHHHhCcCCHHHHHHHHHHH
Q 038109          275 KLDTELFGSLGSKLIGLERFNEANFILKEM  304 (324)
Q Consensus       275 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  304 (324)
                        -..|...+..-|...|+...|..-|-+.
T Consensus       881 --l~dt~~~f~~e~e~~g~lkaae~~flea  908 (1636)
T KOG3616|consen  881 --LHDTHKHFAKELEAEGDLKAAEEHFLEA  908 (1636)
T ss_pred             --hhHHHHHHHHHHHhccChhHHHHHHHhh
Confidence              2344556677777888888888777554

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.12  E-value=0.00088  Score=58.02  Aligned_cols=122  Identities=11%  Similarity=0.061  Sum_probs=87.3

Q ss_pred             hhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcH
Q 038109           76 ITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRM  154 (324)
Q Consensus        76 l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~  154 (324)
                      =++.+...+++++|.+...++....|| ...+..-+-++++.+++++|+++.+.-...  ..+..-+.-=.-+..+.+..
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccH
Confidence            356678899999999999999888885 557888888999999999999665443211  11111111112334578999


Q ss_pred             HHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCC
Q 038109          155 EEAWGLMEVMKEIRVSPD-LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKL  204 (324)
Q Consensus       155 ~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  204 (324)
                      ++|...++     |..++ ..+...-...+.+.|++++|..+|+.+.+.+.
T Consensus        96 Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~  141 (652)
T KOG2376|consen   96 DEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS  141 (652)
T ss_pred             HHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            99999988     33333 33555666788899999999999999987654

>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=98.03  E-value=0.00012  Score=55.56  Aligned_cols=49  Identities=24%  Similarity=0.381  Sum_probs=39.5

Q ss_pred             ChhhHHHHHHHHH-----ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 038109          137 SAITFHPILSVLT-----RGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF  185 (324)
Q Consensus       137 ~~~~~~~li~~~~-----~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  185 (324)
                      +..+|..+++.|.     +.|..+-....+..|.+-|+.-|..+|+.|++.+-+
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            6677777777775     347788888888889999998899999999988775

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

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

Probab=98.01  E-value=0.0018  Score=59.86  Aligned_cols=202  Identities=12%  Similarity=0.125  Sum_probs=136.2

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHc
Q 038109           36 AYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCK  115 (324)
Q Consensus        36 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~  115 (324)
                      ..|..+.++-.+.|.+..|.+-|-+      ..|+..|..+++...+.|.+++..+++...++......+=+.||-+|++
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~eLi~AyAk 1178 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDSELIFAYAK 1178 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchHHHHHHHHH
Confidence            4588888888888888888776532      2467789999999999999999999998886655444445688999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHH
Q 038109          116 LKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGV  195 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  195 (324)
                      .+++.+.++.+       ..|+......+.+-|...+.++.|.-+|...         .-|..+...+...|++..|..-
T Consensus      1179 t~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~ 1242 (1666)
T KOG0985|consen 1179 TNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDA 1242 (1666)
T ss_pred             hchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHH
Confidence            99998876654       3467777777888888888888887777643         3466666667777777776654


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhC
Q 038109          196 LKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       196 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (324)
                      -++.      -+..||-.+-.+|...+.+.-|     +|....+.....-..-++..|...|-+++...+++...
T Consensus      1243 aRKA------ns~ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1243 ARKA------NSTKTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             hhhc------cchhHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence            3332      2556666666666655544433     22222333344444555666666666666555554443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.98  E-value=0.002  Score=51.41  Aligned_cols=175  Identities=15%  Similarity=0.064  Sum_probs=89.5

Q ss_pred             hhhchhhhhhHHHHHHHHHHHhcCCCCHH-H---HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc-
Q 038109           76 ITNTENSLSVLSDLCRTLARLDKGFPRKS-A---YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR-  150 (324)
Q Consensus        76 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~---~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~-  150 (324)
                      ....+...|++++|.+.|+.+....|+.. .   .-.++.++.+.+++++|...+++..+.-..-...-|...+.+.+. 
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~  117 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNM  117 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhh
Confidence            34445667777777777777777666443 2   234566777777788888777777764322111223333333221 


Q ss_pred             -cC---------------cH---HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHH
Q 038109          151 -GK---------------RM---EEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTY  211 (324)
Q Consensus       151 -~~---------------~~---~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  211 (324)
                       .+               +.   .+|...|               ..++.-|-...-..+|...+..+...    =...-
T Consensus       118 ~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~---------------~~li~~yP~S~ya~~A~~rl~~l~~~----la~~e  178 (243)
T PRK10866        118 ALDDSALQGFFGVDRSDRDPQHARAAFRDF---------------SKLVRGYPNSQYTTDATKRLVFLKDR----LAKYE  178 (243)
T ss_pred             hcchhhhhhccCCCccccCHHHHHHHHHHH---------------HHHHHHCcCChhHHHHHHHHHHHHHH----HHHHH
Confidence             00               11   1222222               33333333333344444433333321    00111


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC--CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          212 DALVLGACRAGRVEEAFVLLRRMVDD--GQSVLYSTYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       212 ~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      -.+..-|.+.|.+.-|..-++.+.+.  +.+........++.+|...|..++|..+...+
T Consensus       179 ~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        179 LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            13445566667777677666666654  33334455556666777777777766655444

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.97  E-value=0.00029  Score=46.59  Aligned_cols=21  Identities=24%  Similarity=0.295  Sum_probs=8.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHH
Q 038109          214 LVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       214 li~~~~~~g~~~~a~~~~~~m  234 (324)
                      +...+...|++++|.+.++..
T Consensus        40 ~~~~~~~~~~~~~a~~~~~~~   60 (100)
T cd00189          40 LAAAYYKLGKYEEALEDYEKA   60 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333334444444444333

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.96  E-value=0.00068  Score=47.36  Aligned_cols=21  Identities=10%  Similarity=0.056  Sum_probs=8.9

Q ss_pred             HHHHHccCCHHHHHHHHHHHH
Q 038109          110 IGRLCKLKKIDEALRVVDIMA  130 (324)
Q Consensus       110 i~~~~~~~~~~~a~~~~~~m~  130 (324)
                      ...+.+.|++++|.+.|+.+.
T Consensus         9 ~~~~~~~~~~~~A~~~~~~~~   29 (119)
T TIGR02795         9 ALLVLKAGDYADAIQAFQAFL   29 (119)
T ss_pred             HHHHHHcCCHHHHHHHHHHHH
Confidence            333344444444444444443

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.

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

Probab=97.95  E-value=2.2e-05  Score=51.35  Aligned_cols=79  Identities=16%  Similarity=0.232  Sum_probs=34.5

Q ss_pred             CCHHHHHHHHHHHHHCCC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHH
Q 038109          222 GRVEEAFVLLRRMVDDGQ-SVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFI  300 (324)
Q Consensus       222 g~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  300 (324)
                      |+++.|+.+++++.+... .|+...+..+..++.+.|++++|..+++. .+.+.. +......+..+|.+.|++++|+++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHHH
Confidence            455555555555554322 11223333345555555555555555544 222111 122222334555555555555555


Q ss_pred             HH
Q 038109          301 LK  302 (324)
Q Consensus       301 ~~  302 (324)
                      |+
T Consensus        81 l~   82 (84)
T PF12895_consen   81 LE   82 (84)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.93  E-value=0.00063  Score=47.54  Aligned_cols=19  Identities=11%  Similarity=-0.029  Sum_probs=7.3

Q ss_pred             HHHHHhcCCHHHHHHHHHH
Q 038109          215 VLGACRAGRVEEAFVLLRR  233 (324)
Q Consensus       215 i~~~~~~g~~~~a~~~~~~  233 (324)
                      ..++.+.|++++|.+.|+.
T Consensus        46 ~~~~~~~~~~~~A~~~~~~   64 (119)
T TIGR02795        46 GEAYYAQGKYADAAKAFLA   64 (119)
T ss_pred             HHHHHhhccHHHHHHHHHH
Confidence            3333333333333333333

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.93  E-value=0.0018  Score=59.66  Aligned_cols=180  Identities=13%  Similarity=0.042  Sum_probs=129.8

Q ss_pred             HHHHHHHHHHHHhcCCCCC-chhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHH
Q 038109           51 LETVRYLLNKRARDCCFNT-ANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDI  128 (324)
Q Consensus        51 ~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~  128 (324)
                      ...+...|-+..+.  .|+ ...|..|...|....+...|.+.|....+..+ +..++....+.|+...+++.|..+.-.
T Consensus       474 ~~~al~ali~alrl--d~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRL--DVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            45555555444443  333 36788999999999999999999999988776 566899999999999999999999433


Q ss_pred             HHhCCCC-CChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC
Q 038109          129 MAEGGFG-LSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGAD  207 (324)
Q Consensus       129 m~~~g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~  207 (324)
                      .-+.... .-..-|...--.|...++...+..-|+...+..+ -|...|..+..+|..+|++..|.++|.+.....+  +
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dP-kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP--~  628 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDP-KDYNLWLGLGEAYPESGRYSHALKVFTKASLLRP--L  628 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCc-hhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCc--H
Confidence            3322110 0111222233346677899999999998888754 3888999999999999999999999998877532  2


Q ss_pred             HHHHHHH--HHHHHhcCCHHHHHHHHHHHHH
Q 038109          208 ARTYDAL--VLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       208 ~~~~~~l--i~~~~~~g~~~~a~~~~~~m~~  236 (324)
                       .+|...  ...-+..|.+.+|...+.....
T Consensus       629 -s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  629 -SKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             -hHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence             333332  3335678899999888877653

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.92  E-value=0.00026  Score=46.79  Aligned_cols=96  Identities=17%  Similarity=0.127  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHh
Q 038109          210 TYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLI  289 (324)
Q Consensus       210 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  289 (324)
                      .+..+...+...|++++|...+++..+... .+...+..+...+...|++++|...++....... .+..++..+...+.
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~   79 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELDP-DNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-cchhHHHHHHHHHH
Confidence            355677788889999999999999876532 3346677788889999999999999999877643 35568888889999


Q ss_pred             CcCCHHHHHHHHHHHHhC
Q 038109          290 GLERFNEANFILKEMNKR  307 (324)
Q Consensus       290 ~~g~~~~a~~~~~~m~~~  307 (324)
                      ..|++++|...+++..+.
T Consensus        80 ~~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          80 KLGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHHhHHHHHHHHHHHHcc
Confidence            999999999999887643

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.90  E-value=0.00069  Score=60.36  Aligned_cols=136  Identities=14%  Similarity=0.123  Sum_probs=87.4

Q ss_pred             HHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHH
Q 038109           43 NAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEA  122 (324)
Q Consensus        43 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a  122 (324)
                      .+....+.|.+|+.+++.+..+.  .-..-|..+...|...|+++.|+++|-+..       .++-.|..|.+.|+|++|
T Consensus       740 eaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~-------~~~dai~my~k~~kw~da  810 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD-------LFKDAIDMYGKAGKWEDA  810 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc-------hhHHHHHHHhccccHHHH
Confidence            34455677888888888776643  233446677888899999999988876543       366778889999999999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHH
Q 038109          123 LRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKK  198 (324)
Q Consensus       123 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  198 (324)
                      .++-.+..  |.......|-.-..-+-+.|++.+|++++-...    .|+.     .|.+|-+.|..+++.++.++
T Consensus       811 ~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  811 FKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHH
Confidence            88865543  333344555555555556666666666554332    2332     34556666666666655543

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

Probab=97.90  E-value=0.00066  Score=55.45  Aligned_cols=131  Identities=8%  Similarity=0.087  Sum_probs=75.2

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 038109          139 ITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTA-YCFKGNLTATSGVLKKMEEEKLGADARTYDALVLG  217 (324)
Q Consensus       139 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  217 (324)
                      .+|..+++..-+.+..+.|..+|.+..+.+. .+..+|-..... |...++.+.|.++|+...+. ...+...|..-+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~-~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            3566667777777777777777777764431 123333333333 22245555577777766654 23356666667777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCc---CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          218 ACRAGRVEEAFVLLRRMVDDGQSV---LYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       218 ~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      +.+.|+.+.|..+|++.... +.+   ....|...++-=.+.|+.+.+.++.+.+.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            77777777777777776644 211   2236666666666667777777776666553

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.

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

Probab=97.86  E-value=0.0009  Score=54.67  Aligned_cols=128  Identities=9%  Similarity=0.089  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGF-GLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAY  183 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  183 (324)
                      +|-.+++..-+.+..+.|..+|.+.++.+. ..+.....+.+. +...++.+.|.++|+...+. +..+...+...++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E-~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            344445555555555555555555543321 112222222221 11233444455555554443 333444455555555


Q ss_pred             HhcCChhhHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          184 CFKGNLTATSGVLKKMEEEKLGADA----RTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       184 ~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      .+.++.+.|..+|++.... + |..    ..|...+..=.+.|+.+.+.++.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l-~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-L-PKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-S-SCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-c-CchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555433 1 122    2455555555555555555555555443

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.

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

Probab=97.86  E-value=5.4e-05  Score=49.47  Aligned_cols=81  Identities=22%  Similarity=0.227  Sum_probs=39.2

Q ss_pred             cCChhhHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          186 KGNLTATSGVLKKMEEEKLG-ADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVK  264 (324)
Q Consensus       186 ~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  264 (324)
                      .|+++.|..+++++.+.... ++...+-.+..+|.+.|++++|..+++. .+.+. .+......+..+|.+.|++++|..
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            35566666666666554332 1233344455666666666666666655 11111 111222233455666666666666


Q ss_pred             HHHH
Q 038109          265 FVMV  268 (324)
Q Consensus       265 ~~~~  268 (324)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            5543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.85  E-value=0.0032  Score=57.04  Aligned_cols=166  Identities=16%  Similarity=0.129  Sum_probs=111.4

Q ss_pred             HhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHH
Q 038109           45 AGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALR  124 (324)
Q Consensus        45 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  124 (324)
                      ....|-+++|..+|++-++.+         .|=..|-..|.+++|.++-+.-.+. .=..||.....-+-..++.+.|++
T Consensus       810 AieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRi-HLr~Tyy~yA~~Lear~Di~~Ale  879 (1416)
T KOG3617|consen  810 AIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRI-HLRNTYYNYAKYLEARRDIEAALE  879 (1416)
T ss_pred             HHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccce-ehhhhHHHHHHHHHhhccHHHHHH
Confidence            456778888888888877642         4556677789999998876643322 223366666677777788888888


Q ss_pred             HHHHHHhCCC-------------------CCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 038109          125 VVDIMAEGGF-------------------GLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF  185 (324)
Q Consensus       125 ~~~~m~~~g~-------------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  185 (324)
                      .|++.....+                   .-|...|.-..+.+-..|+.+.|+.+|...+.         |-++++..|-
T Consensus       880 yyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~  950 (1416)
T KOG3617|consen  880 YYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCI  950 (1416)
T ss_pred             HHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEee
Confidence            8876321110                   11333344444444455666666666665433         5567777788


Q ss_pred             cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          186 KGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       186 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      .|+.++|-++-++-.      |......+.+.|-..|++.+|..+|.+..
T Consensus       951 qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  951 QGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             ccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            888888887765432      66677778899999999999999998764

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

Probab=97.84  E-value=0.0096  Score=51.45  Aligned_cols=150  Identities=8%  Similarity=0.013  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHH
Q 038109          119 IDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSP-DLTAYNYLLTAYCFKGNLTATSGVLK  197 (324)
Q Consensus       119 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~  197 (324)
                      .+.....++++...-..--.-+|...|+...+...+..|..+|.+..+.+..+ ++.+++++|..|| .++.+-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            56666777777654322234568888888888888999999999998888766 7788888888777 567888999998


Q ss_pred             HHH-HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          198 KME-EEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL--YSTYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       198 ~m~-~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      -=. +.|-  +..-....++-+...|+-..+..+|++....++.|+  ...|..++.-=...|+...+.++-+++..
T Consensus       426 LGLkkf~d--~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  426 LGLKKFGD--SPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHhcCC--ChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            543 3322  233345567777888888899999999888766554  47788899888888999888887766543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.84  E-value=0.0032  Score=51.64  Aligned_cols=151  Identities=19%  Similarity=0.124  Sum_probs=85.8

Q ss_pred             cHHHHHHHHHHHHh----CCC-CCCHHHHHHHHHHHHhc-CChhhHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHh
Q 038109          153 RMEEAWGLMEVMKE----IRV-SPDLTAYNYLLTAYCFK-GNLTATSGVLKKMEEE----KLGAD--ARTYDALVLGACR  220 (324)
Q Consensus       153 ~~~~a~~~~~~m~~----~~~-~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~----~~~~~--~~~~~~li~~~~~  220 (324)
                      ++++|...+++...    .|- ..-...+..+...|... |++++|.+.|++..+.    | .+.  ...+..+...+.+
T Consensus        89 ~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~  167 (282)
T PF14938_consen   89 DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYAR  167 (282)
T ss_dssp             THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHH
Confidence            66666665555432    221 11133555566677777 8888888888765532    2 111  3455667788889


Q ss_pred             cCCHHHHHHHHHHHHHCCC-----CcCHH-HHHHHHHHHHhcCCHHHHHHHHHHhCCCC--CC--cCHhHHHHHHHHHhC
Q 038109          221 AGRVEEAFVLLRRMVDDGQ-----SVLYS-TYAHVMGALLRLGYYAQAVKFVMVCGGRD--IK--LDTELFGSLGSKLIG  290 (324)
Q Consensus       221 ~g~~~~a~~~~~~m~~~~~-----~p~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~--~~~~~~~~l~~~~~~  290 (324)
                      .|++++|.++|++....-.     +++.. .|...+-.+...|++-.|.+.++......  +.  ........|+.++-.
T Consensus       168 l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~  247 (282)
T PF14938_consen  168 LGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE  247 (282)
T ss_dssp             TT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT
T ss_pred             hCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh
Confidence            9999999999988775422     22222 23333445666788999999998876542  22  224455566676654


Q ss_pred             --cCCHHHHHHHHHHH
Q 038109          291 --LERFNEANFILKEM  304 (324)
Q Consensus       291 --~g~~~~a~~~~~~m  304 (324)
                        ...++++..-|+.+
T Consensus       248 ~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  248 GDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             T-CCCHHHHCHHHTTS
T ss_pred             CCHHHHHHHHHHHccc
Confidence              24455555555444

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.84  E-value=0.0072  Score=51.99  Aligned_cols=193  Identities=14%  Similarity=0.066  Sum_probs=94.8

Q ss_pred             hhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHH-------HHHH
Q 038109           76 ITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPI-------LSVL  148 (324)
Q Consensus        76 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l-------i~~~  148 (324)
                      +.+..-+..+++.+.+-+........+..-++....+|...|.+.++...-+...+.|.. ...-|+.+       -.++
T Consensus       230 lgnaaykkk~f~~a~q~y~~a~el~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~  308 (539)
T KOG0548|consen  230 LGNAAYKKKDFETAIQHYAKALELATDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAY  308 (539)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhHhhhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhh
Confidence            334444444455555555544433322223445555566666655555555555444432 11112222       2233


Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHH-------------------------HHHHHHHHHHhcCChhhHHHHHHHHHHCC
Q 038109          149 TRGKRMEEAWGLMEVMKEIRVSPDLT-------------------------AYNYLLTAYCFKGNLTATSGVLKKMEEEK  203 (324)
Q Consensus       149 ~~~~~~~~a~~~~~~m~~~~~~~~~~-------------------------~~~~li~~~~~~~~~~~a~~~~~~m~~~~  203 (324)
                      .+.++.+.+...|.+.......|+..                         -.-.-...+.+.|++..|...|.++.+..
T Consensus       309 ~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~  388 (539)
T KOG0548|consen  309 TKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD  388 (539)
T ss_pred             hhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC
Confidence            44455555555555543332222211                         11122445566667777777777766665


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          204 LGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL-YSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       204 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      +. |...|+...-+|.+.|.+..|++=.+...+.  .|+ ...|..=..++....+++.|.+.|++.++.
T Consensus       389 P~-Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~ydkAleay~eale~  455 (539)
T KOG0548|consen  389 PE-DARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYDKALEAYQEALEL  455 (539)
T ss_pred             Cc-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            44 6666777777777777777666665555543  222 222222222333344566666666666554

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.80  E-value=0.013  Score=47.83  Aligned_cols=284  Identities=12%  Similarity=-0.016  Sum_probs=189.0

Q ss_pred             HHHHHHhhhcCCCCC-CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCc-hhhHhhhhchhhhhhHHHHHHHHHH
Q 038109           18 LVTRSFTKSGAFPDE-PTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTA-NTFNFITNTENSLSVLSDLCRTLAR   95 (324)
Q Consensus        18 ~~~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~   95 (324)
                      -+++.+-.-...+.. .++.-.--+=+.+...|++..|+.-|....+-  .|+. .++---...|...|+-..|..-++.
T Consensus        20 vll~~~~e~a~~~~~~advekhlElGk~lla~~Q~sDALt~yHaAve~--dp~~Y~aifrRaT~yLAmGksk~al~Dl~r   97 (504)
T KOG0624|consen   20 VLLELFLEGAESTASPADVEKHLELGKELLARGQLSDALTHYHAAVEG--DPNNYQAIFRRATVYLAMGKSKAALQDLSR   97 (504)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcC--CchhHHHHHHHHHHHhhhcCCccchhhHHH
Confidence            333443333333333 33334445556677788888888888877653  2332 2333335567788888888888888


Q ss_pred             HhcCCCCHHH-HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--hh------------hHHHHHHHHHccCcHHHHHHH
Q 038109           96 LDKGFPRKSA-YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLS--AI------------TFHPILSVLTRGKRMEEAWGL  160 (324)
Q Consensus        96 ~~~~~p~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~------------~~~~li~~~~~~~~~~~a~~~  160 (324)
                      ..+..||-.. ---=...+.+.|.++.|..=|+.+.+....-.  ..            .....+..+.-.|+...|...
T Consensus        98 VlelKpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~  177 (504)
T KOG0624|consen   98 VLELKPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEM  177 (504)
T ss_pred             HHhcCccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHH
Confidence            8777787542 22334567899999999999999987643211  11            122233456677999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 038109          161 MEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQS  240 (324)
Q Consensus       161 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  240 (324)
                      ...+.+..+ -|...|..-..+|...|++..|+.=++...+..-. +..++--+-..+-..|+.+.++...++..+.  .
T Consensus       178 i~~llEi~~-Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--d  253 (504)
T KOG0624|consen  178 ITHLLEIQP-WDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKL--D  253 (504)
T ss_pred             HHHHHhcCc-chhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--C
Confidence            999988643 37788888899999999999998877766665444 5566666677778889999999999888754  3


Q ss_pred             cCHHH----HHH---H------HHHHHhcCCHHHHHHHHHHhCCCCCCcCH---hHHHHHHHHHhCcCCHHHHHHHHHHH
Q 038109          241 VLYST----YAH---V------MGALLRLGYYAQAVKFVMVCGGRDIKLDT---ELFGSLGSKLIGLERFNEANFILKEM  304 (324)
Q Consensus       241 p~~~~----~~~---l------i~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m  304 (324)
                      ||...    |-.   +      +......+++.++..-.+...+..+....   ..+..+-.++...|++.+|++...+.
T Consensus       254 pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~ev  333 (504)
T KOG0624|consen  254 PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEV  333 (504)
T ss_pred             cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHH
Confidence            44221    111   1      12344667777777777776665443222   33444556777889999999999988


Q ss_pred             HhC
Q 038109          305 NKR  307 (324)
Q Consensus       305 ~~~  307 (324)
                      .+.
T Consensus       334 L~~  336 (504)
T KOG0624|consen  334 LDI  336 (504)
T ss_pred             Hhc
Confidence            743

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.76  E-value=0.00079  Score=50.50  Aligned_cols=64  Identities=8%  Similarity=-0.035  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          173 LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA--DARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       173 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      ...+..+...+...|++++|...|++.......|  ...++..+...+...|+.++|++.++....
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555666666666666666665443222  123566666666666666666666666554

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

Probab=97.74  E-value=0.0013  Score=55.73  Aligned_cols=90  Identities=12%  Similarity=-0.078  Sum_probs=46.2

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChh
Q 038109          111 GRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLT  190 (324)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  190 (324)
                      ..+...|++++|++.|++..+.... +...|..+..++.+.|++++|...+++..+... .+...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCCHH
Confidence            3444455555555555555553222 344455555555555555555555555554431 23444555555555555555


Q ss_pred             hHHHHHHHHHHC
Q 038109          191 ATSGVLKKMEEE  202 (324)
Q Consensus       191 ~a~~~~~~m~~~  202 (324)
                      +|...|++..+.
T Consensus        88 eA~~~~~~al~l   99 (356)
T PLN03088         88 TAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHh
Confidence            555555555544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.72  E-value=0.0047  Score=46.52  Aligned_cols=89  Identities=11%  Similarity=-0.007  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038109          104 SAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLS--AITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLT  181 (324)
Q Consensus       104 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  181 (324)
                      ..+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++..+... .+...+..+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~  114 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP-KQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHH
Confidence            3566777777788888888888887776433222  35667777777788888888888877776532 24555666666


Q ss_pred             HHHhcCChhhHH
Q 038109          182 AYCFKGNLTATS  193 (324)
Q Consensus       182 ~~~~~~~~~~a~  193 (324)
                      ++...|+...+.
T Consensus       115 ~~~~~g~~~~a~  126 (172)
T PRK02603        115 IYHKRGEKAEEA  126 (172)
T ss_pred             HHHHcCChHhHh
Confidence            676666654444

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.72  E-value=0.0035  Score=48.58  Aligned_cols=173  Identities=12%  Similarity=0.093  Sum_probs=72.3

Q ss_pred             chhhhhhHHHHHHHHHHHhcCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcH
Q 038109           79 TENSLSVLSDLCRTLARLDKGFPRK----SAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRM  154 (324)
Q Consensus        79 ~~~~~~~~~~a~~~~~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~  154 (324)
                      .+...|++++|.+.|+.+....|+.    .+.-.++.++.+.|+++.|...++++.+.-..-....+...+.+.+.....
T Consensus        14 ~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~   93 (203)
T PF13525_consen   14 EALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQI   93 (203)
T ss_dssp             HHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhC
Confidence            3445555666666666655444421    134455566666666666666666655431111111122222222111111


Q ss_pred             HHHHHHHHHHHhCCCCC-----CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          155 EEAWGLMEVMKEIRVSP-----DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFV  229 (324)
Q Consensus       155 ~~a~~~~~~m~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  229 (324)
                      ....       .....+     -...+..++.-|-.+.-..+|...+..+.+.    =...--.+...|.+.|.+..|..
T Consensus        94 ~~~~-------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~y~aA~~  162 (203)
T PF13525_consen   94 PGIL-------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGKYKAAII  162 (203)
T ss_dssp             HHHH--------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-HHHHHH
T ss_pred             ccch-------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcccHHHHHH
Confidence            1100       000000     0123444444455555555555544444332    01111124455666677777766


Q ss_pred             HHHHHHHC--CCCcCHHHHHHHHHHHHhcCCHHHH
Q 038109          230 LLRRMVDD--GQSVLYSTYAHVMGALLRLGYYAQA  262 (324)
Q Consensus       230 ~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~a  262 (324)
                      -++.+.+.  +..........++.++.+.|..+.+
T Consensus       163 r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  163 RFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            66666654  2222233445566666666666543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.71  E-value=0.0097  Score=47.47  Aligned_cols=181  Identities=9%  Similarity=-0.013  Sum_probs=116.0

Q ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhh---HhhhhchhhhhhHHHHHHHHHHHhcCCCCHH--HHHHH
Q 038109           35 SAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTF---NFITNTENSLSVLSDLCRTLARLDKGFPRKS--AYDTL  109 (324)
Q Consensus        35 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~--~~~~l  109 (324)
                      ...+-.....+...|++++|.+.|+.+.... +-+...-   -.+..++.+.++++.|...+++..+..|+..  .|...
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y-P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            3333344455677999999999999998752 2223322   4567888999999999999999988777433  44444


Q ss_pred             HHHHHc--c---------------CC---HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCC
Q 038109          110 IGRLCK--L---------------KK---IDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRV  169 (324)
Q Consensus       110 i~~~~~--~---------------~~---~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  169 (324)
                      +.+.+.  .               .+   ..+|++.|+++++               -|-.+.-..+|...+..+...  
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~---------------~yP~S~ya~~A~~rl~~l~~~--  173 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVR---------------GYPNSQYTTDATKRLVFLKDR--  173 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHH---------------HCcCChhHHHHHHHHHHHHHH--
Confidence            444431  1               11   2334444544444               333333345555444444331  


Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          170 SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE--KLGADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       170 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                       . ...--.+.+.|.+.|.+..|..-++.+.+.  +..........++.+|...|..++|.+....+.
T Consensus       174 -l-a~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 -L-AKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             -H-HHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence             0 111224667788999999999999988875  233345667788899999999999988876654

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.71  E-value=0.0013  Score=49.34  Aligned_cols=92  Identities=11%  Similarity=-0.049  Sum_probs=45.5

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 038109          140 TFHPILSVLTRGKRMEEAWGLMEVMKEIRVSP--DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLG  217 (324)
Q Consensus       140 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  217 (324)
                      .|..+...+...|++++|...|+........|  ...++..+..++...|++++|...++........ ...++..+...
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~-~~~~~~~la~i  115 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF-LPQALNNMAVI  115 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH
Confidence            34444444555555555555555554432111  1235555556666666666666666655544222 23344444444


Q ss_pred             HH-------hcCCHHHHHHHHH
Q 038109          218 AC-------RAGRVEEAFVLLR  232 (324)
Q Consensus       218 ~~-------~~g~~~~a~~~~~  232 (324)
                      +.       ..|++++|...++
T Consensus       116 ~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033        116 CHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHhhHHHHHcccHHHHHHHHH
Confidence            44       5555554444443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.70  E-value=0.0034  Score=51.47  Aligned_cols=149  Identities=14%  Similarity=0.122  Sum_probs=76.4

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc-CcHHHHHHHHHHHHh----CCCCC--CHHHHHH
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRG-KRMEEAWGLMEVMKE----IRVSP--DLTAYNY  178 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~----~~~~~--~~~~~~~  178 (324)
                      |...+..|...|++..|-+++.+               +...|-.. |++++|.+.|++...    .| .+  -..++..
T Consensus        97 ~~~A~~~y~~~G~~~~aA~~~~~---------------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~  160 (282)
T PF14938_consen   97 YEKAIEIYREAGRFSQAAKCLKE---------------LAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLK  160 (282)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH---------------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHH---------------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHH
Confidence            34444455555555555444433               33445555 677777777766443    22 11  1345566


Q ss_pred             HHHHHHhcCChhhHHHHHHHHHHCCCC-----CCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCcC--HHHHHH
Q 038109          179 LLTAYCFKGNLTATSGVLKKMEEEKLG-----ADAR-TYDALVLGACRAGRVEEAFVLLRRMVDD--GQSVL--YSTYAH  248 (324)
Q Consensus       179 li~~~~~~~~~~~a~~~~~~m~~~~~~-----~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~--~~~~~~  248 (324)
                      +...+.+.|++++|.++|++....-..     .+.. .|-..+-++...|+.-.|.+.+++....  ++..+  ......
T Consensus       161 ~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~  240 (282)
T PF14938_consen  161 AADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLED  240 (282)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHH
Confidence            677778888888888888877654221     1221 2233344556677888888888877643  22222  334455


Q ss_pred             HHHHHHhc--CCHHHHHHHHHHhC
Q 038109          249 VMGALLRL--GYYAQAVKFVMVCG  270 (324)
Q Consensus       249 li~~~~~~--g~~~~a~~~~~~~~  270 (324)
                      |+.+|-..  ..++.+..-|+.+.
T Consensus       241 l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  241 LLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHHHHhCCHHHHHHHHHHHcccC
Confidence            56665432  23444544444443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.69  E-value=0.0041  Score=46.85  Aligned_cols=90  Identities=11%  Similarity=0.034  Sum_probs=60.7

Q ss_pred             hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 038109          138 AITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPD--LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV  215 (324)
Q Consensus       138 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  215 (324)
                      ...+..+...+...|++++|...|++..+....+.  ...+..+..++.+.|++++|...+++..+.... +...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHH
Confidence            34566666677778888888888888776543222  356777777888888888888888877765433 455666666


Q ss_pred             HHHHhcCCHHHHH
Q 038109          216 LGACRAGRVEEAF  228 (324)
Q Consensus       216 ~~~~~~g~~~~a~  228 (324)
                      ..+...|+...+.
T Consensus       114 ~~~~~~g~~~~a~  126 (172)
T PRK02603        114 VIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHcCChHhHh
Confidence            6676666644433

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.68  E-value=0.0021  Score=46.57  Aligned_cols=91  Identities=8%  Similarity=-0.069  Sum_probs=51.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcC
Q 038109          213 ALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLE  292 (324)
Q Consensus       213 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  292 (324)
                      .+..-+...|++++|.++|+.+..-.. -+..-|-.|-.++-..|++++|...+.......+ -|+..+-.+..++...|
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG  117 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcC
Confidence            344445566666666666666554321 2223333444555566666666666666655543 25555666666666666


Q ss_pred             CHHHHHHHHHHHH
Q 038109          293 RFNEANFILKEMN  305 (324)
Q Consensus       293 ~~~~a~~~~~~m~  305 (324)
                      +.+.|.+.|+...
T Consensus       118 ~~~~A~~aF~~Ai  130 (157)
T PRK15363        118 NVCYAIKALKAVV  130 (157)
T ss_pred             CHHHHHHHHHHHH
Confidence            6666666666544

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.68  E-value=0.0035  Score=45.48  Aligned_cols=89  Identities=12%  Similarity=-0.013  Sum_probs=53.4

Q ss_pred             HHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 038109          146 SVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVE  225 (324)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  225 (324)
                      ..+...|++++|.++|+.+...... +..-|-.|..++-..|++++|...|.......+. |...+-.+..++...|+.+
T Consensus        43 ~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L~lG~~~  120 (157)
T PRK15363         43 MQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYLACDNVC  120 (157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHcCCHH
Confidence            3344556666666666666554322 4445555666666666666666666666665543 5566666666666666666


Q ss_pred             HHHHHHHHHHH
Q 038109          226 EAFVLLRRMVD  236 (324)
Q Consensus       226 ~a~~~~~~m~~  236 (324)
                      .|.+.|+....
T Consensus       121 ~A~~aF~~Ai~  131 (157)
T PRK15363        121 YAIKALKAVVR  131 (157)
T ss_pred             HHHHHHHHHHH
Confidence            66666665543

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

Probab=97.68  E-value=0.0011  Score=48.50  Aligned_cols=77  Identities=21%  Similarity=0.222  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH-----hCCCchhHHHHHHH
Q 038109          245 TYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN-----KRDLKMGFKLRDYY  319 (324)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~~~~~~~~~~~~~  319 (324)
                      +...++..+...|+++.|..+.+.+.... +.+...|..++.+|...|+..+|.++|+++.     +.|+.|+..+..+|
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~l~  142 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRALY  142 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHHHH
Confidence            45567778889999999999999998875 4488899999999999999999999999874     46999999999988


Q ss_pred             hhh
Q 038109          320 EIN  322 (324)
Q Consensus       320 ~~~  322 (324)
                      ..+
T Consensus       143 ~~i  145 (146)
T PF03704_consen  143 REI  145 (146)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            764

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

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.63  E-value=0.012  Score=54.52  Aligned_cols=180  Identities=14%  Similarity=-0.011  Sum_probs=129.8

Q ss_pred             HHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHH
Q 038109           86 LSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVM  164 (324)
Q Consensus        86 ~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  164 (324)
                      ...+...|-+..+..|+ .+.|..|...|....+...|.+.|++..+-... +..........|+...+++.|..+.-..
T Consensus       474 ~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l~~  552 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICLRA  552 (1238)
T ss_pred             HHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHHHH
Confidence            45555555555554454 348999999999999999999999999875433 6677888899999999999999984333


Q ss_pred             HhCCC-CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH
Q 038109          165 KEIRV-SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLY  243 (324)
Q Consensus       165 ~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  243 (324)
                      -+... ..-..-|.-..-.|.+.++..+|..-|+...+..+. |...|..+..+|.++|++..|.++|.+....  .|+.
T Consensus       553 ~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s  629 (1238)
T KOG1127|consen  553 AQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS  629 (1238)
T ss_pred             hhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh
Confidence            22210 001112223444577888999999999998888776 8999999999999999999999999887643  4542


Q ss_pred             HHHHHHHHH--HHhcCCHHHHHHHHHHhC
Q 038109          244 STYAHVMGA--LLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       244 ~~~~~li~~--~~~~g~~~~a~~~~~~~~  270 (324)
                       +|.....+  -+..|.+.+|...+....
T Consensus       630 -~y~~fk~A~~ecd~GkYkeald~l~~ii  657 (1238)
T KOG1127|consen  630 -KYGRFKEAVMECDNGKYKEALDALGLII  657 (1238)
T ss_pred             -HHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence             34333332  456788888888775553

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

Probab=97.62  E-value=0.0031  Score=53.52  Aligned_cols=91  Identities=11%  Similarity=-0.062  Sum_probs=78.5

Q ss_pred             hhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHH
Q 038109           77 TNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRME  155 (324)
Q Consensus        77 ~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~  155 (324)
                      ...+...|++++|...|+++.+..| +...|..+..+|.+.|++++|+..+++..+... .+...|..+..+|...|+++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCCHH
Confidence            4556778999999999999988777 456888899999999999999999999988643 36778888889999999999


Q ss_pred             HHHHHHHHHHhCC
Q 038109          156 EAWGLMEVMKEIR  168 (324)
Q Consensus       156 ~a~~~~~~m~~~~  168 (324)
                      +|...|++..+..
T Consensus        88 eA~~~~~~al~l~  100 (356)
T PLN03088         88 TAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999998864

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.58  E-value=0.0042  Score=43.30  Aligned_cols=88  Identities=18%  Similarity=0.144  Sum_probs=50.3

Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC---H-HHHHHHHHHH
Q 038109          180 LTAYCFKGNLTATSGVLKKMEEEKLGAD--ARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL---Y-STYAHVMGAL  253 (324)
Q Consensus       180 i~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~-~~~~~li~~~  253 (324)
                      -.++-..|+.++|..+|++....|....  ...+-.+.+++...|++++|..+++......  |+   . .....+.-++
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHH
Confidence            3455566777777777777776665533  2344555666667777777777777665431  22   1 1111122345


Q ss_pred             HhcCCHHHHHHHHHHh
Q 038109          254 LRLGYYAQAVKFVMVC  269 (324)
Q Consensus       254 ~~~g~~~~a~~~~~~~  269 (324)
                      ...|+.++|..++-..
T Consensus        86 ~~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEA  101 (120)
T ss_pred             HHCCCHHHHHHHHHHH
Confidence            5667777776665443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.52  E-value=0.0069  Score=47.51  Aligned_cols=60  Identities=8%  Similarity=-0.004  Sum_probs=29.5

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 038109          142 HPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEE  201 (324)
Q Consensus       142 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  201 (324)
                      +.++....-.|.+.-....+.+..+...+.++.....+.+.-.+.|+.+.|...|++..+
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek  240 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEK  240 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            334444444444444445555555444344445555555555555555555555554443

>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=97.52  E-value=0.00054  Score=42.54  Aligned_cols=49  Identities=20%  Similarity=0.268  Sum_probs=21.5

Q ss_pred             cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          186 KGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       186 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      .|++++|.+.|+.+....+. +...+..+..+|.+.|++++|.++++.+.
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             ccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444444444443332 34444444444444444444444444444

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.48  E-value=0.045  Score=45.49  Aligned_cols=108  Identities=14%  Similarity=0.048  Sum_probs=82.0

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALL  254 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  254 (324)
                      +.+..|.-+...|+...|.++-.+..    .||..-|-..+.+++..++|++-.++...    .  -++.-|-.++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCChHHHHHHHH
Confidence            44555667778888888877765542    36999999999999999999988876542    2  12366888999999


Q ss_pred             hcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHH
Q 038109          255 RLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILK  302 (324)
Q Consensus       255 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  302 (324)
                      +.|+..+|..++..     +     .+..-+..|.++|++.+|.+.--
T Consensus       249 ~~~~~~eA~~yI~k-----~-----~~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  249 KYGNKKEASKYIPK-----I-----PDEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HCCCHHHHHHHHHh-----C-----ChHHHHHHHHHCCCHHHHHHHHH
Confidence            99999999998876     1     22456788888999999876643

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

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.44  E-value=0.02  Score=51.00  Aligned_cols=139  Identities=12%  Similarity=-0.015  Sum_probs=92.9

Q ss_pred             CCCCHHHHHHHHHHHHhcC-----ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHH
Q 038109          169 VSPDLTAYNYLLTAYCFKG-----NLTATSGVLKKMEEEKLGADARTYDALVLGACRAG--------RVEEAFVLLRRMV  235 (324)
Q Consensus       169 ~~~~~~~~~~li~~~~~~~-----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~  235 (324)
                      .+.+...|...+++.....     +...|..+|++..+..+. ....|..+..++....        +...+.+..++..
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            4567788888888755432     366888999988887544 4555655544443321        1233334443332


Q ss_pred             HC-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCc
Q 038109          236 DD-GQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLK  310 (324)
Q Consensus       236 ~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  310 (324)
                      .. ....+...|..+.-.....|++++|...+++....+  |+...|..+...+...|+.++|.+.+++....+-.
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~  485 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPG  485 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            22 233345667766666667899999999999988865  57788888899999999999999999887654433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.42  E-value=0.032  Score=49.72  Aligned_cols=144  Identities=17%  Similarity=0.142  Sum_probs=97.0

Q ss_pred             CCCCCChhhHHHHHHHHHcc-----CcHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcC--------ChhhHHHHHH
Q 038109          132 GGFGLSAITFHPILSVLTRG-----KRMEEAWGLMEVMKEIRVSPD-LTAYNYLLTAYCFKG--------NLTATSGVLK  197 (324)
Q Consensus       132 ~g~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~--------~~~~a~~~~~  197 (324)
                      .+.+.+...|...+++....     ++...|..+|++..+..  |+ ...|..+..++....        +...+.+..+
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            34556778888888875543     23778889999988864  44 344444444333321        1223333333


Q ss_pred             HHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc
Q 038109          198 KMEEE-KLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL  276 (324)
Q Consensus       198 ~m~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (324)
                      ..... ....+...|.++.......|++++|...+++.....  |+...|..+...+...|+.++|...+.+.....  |
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~--P  484 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR--P  484 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--C
Confidence            33232 123355778877777777899999999999988764  788889999999999999999999998887754  4


Q ss_pred             CHhHH
Q 038109          277 DTELF  281 (324)
Q Consensus       277 ~~~~~  281 (324)
                      ...+|
T Consensus       485 ~~pt~  489 (517)
T PRK10153        485 GENTL  489 (517)
T ss_pred             CCchH
Confidence            43343

>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=97.41  E-value=0.00035  Score=43.39  Aligned_cols=49  Identities=16%  Similarity=0.087  Sum_probs=23.6

Q ss_pred             hhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038109           83 LSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAE  131 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  131 (324)
                      .|++++|.+.|+.+....| +..++..+..+|.+.|++++|.++++++..
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4455555555555444444 333444455555555555555555555444

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.40  E-value=0.0056  Score=42.69  Aligned_cols=90  Identities=16%  Similarity=0.026  Sum_probs=55.2

Q ss_pred             HHHHhcCCCHHHHHHHHHHHHhcCCCCCc--hhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC---HH-HHHHHHHHHHc
Q 038109           42 VNAAGHERDLETVRYLLNKRARDCCFNTA--NTFNFITNTENSLSVLSDLCRTLARLDKGFPR---KS-AYDTLIGRLCK  115 (324)
Q Consensus        42 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---~~-~~~~li~~~~~  115 (324)
                      ..++-..|+.++|..+|+.....|.....  ..+-.+...+...|++++|..+++.....+|+   .. ....+..++..
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHH
Confidence            34455677778888888877776654432  34445566677777777777777777665554   22 22223345566


Q ss_pred             cCCHHHHHHHHHHHHh
Q 038109          116 LKKIDEALRVVDIMAE  131 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~  131 (324)
                      .|+.++|++.+-....
T Consensus        88 ~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   88 LGRPKEALEWLLEALA  103 (120)
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            6777777776655443

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

Probab=97.38  E-value=0.0013  Score=40.44  Aligned_cols=54  Identities=15%  Similarity=0.222  Sum_probs=28.4

Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          181 TAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      ..+.+.|++++|...|+...+..+. +...+..+..++.+.|++++|...|++..
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445555555555555555555432 44555555555555555555555555554

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

Probab=97.36  E-value=0.0019  Score=47.12  Aligned_cols=71  Identities=21%  Similarity=0.161  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCcCHHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD-----DGQSVLYSTY  246 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~~  246 (324)
                      +...++..+...|++++|..+.+.+....+- |...|..+|.+|...|+..+|.+.|+.+.+     .|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            4556777778888888888888888877554 788888888888888888888888887653     3888887663

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

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.33  E-value=0.028  Score=41.86  Aligned_cols=131  Identities=12%  Similarity=0.054  Sum_probs=95.6

Q ss_pred             CCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CChhhHH
Q 038109           66 CFNTANTFNFITNTENSLSVLSDLCRTLARLDKGF--PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFG-LSAITFH  142 (324)
Q Consensus        66 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~  142 (324)
                      +-|+...-..|.++....|+..+|...|.+...+.  .|....-.+.++....++...|...++++.+.... -++.+.-
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            46777777788899999999999999999887765  46667778888888899999999999998875411 1233455


Q ss_pred             HHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHH
Q 038109          143 PILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKK  198 (324)
Q Consensus       143 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  198 (324)
                      .+...+...|...+|+..|+.....-..|....|  .-..+.+.|+.+++..-+.+
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~--Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISYYPGPQARIY--YAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHH--HHHHHHHhcchhHHHHHHHH
Confidence            6678888899999999999998876433333333  44555677776665544333

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.31  E-value=0.0036  Score=49.96  Aligned_cols=102  Identities=13%  Similarity=0.024  Sum_probs=64.7

Q ss_pred             chhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHH
Q 038109           79 TENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEA  157 (324)
Q Consensus        79 ~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a  157 (324)
                      -..+.+++.+|+..|.+.....| |.+-|..=..+|++.|.++.|++-.+........ -..+|..|-.+|...|++++|
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHHHH
Confidence            34666777777777777766666 3445555667777777777777766666553211 245677777777777777777


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHH
Q 038109          158 WGLMEVMKEIRVSPDLTAYNYLLTAY  183 (324)
Q Consensus       158 ~~~~~~m~~~~~~~~~~~~~~li~~~  183 (324)
                      .+.|+....  +.|+-.+|-.=+...
T Consensus       169 ~~aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  169 IEAYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHhhhc--cCCCcHHHHHHHHHH
Confidence            777776655  456555555444443

>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=97.29  E-value=0.0019  Score=40.18  Aligned_cols=61  Identities=23%  Similarity=0.255  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHH
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAG-RVEEAFVLLRRMV  235 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~  235 (324)
                      .+|..+...+...|++++|...|++..+.... +...|..+..+|.+.| ++++|++.+++..
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            34444555555555555555555555544332 3444555555555555 4555555554443

...

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

Probab=97.28  E-value=0.0022  Score=39.38  Aligned_cols=54  Identities=19%  Similarity=0.084  Sum_probs=30.8

Q ss_pred             hchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038109           78 NTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAE  131 (324)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~  131 (324)
                      ..+...|++++|.+.|+.+.+..|+ ...+..+...+...|++++|...|+++.+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445556666666666666555553 33555566666666666666666666554

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.25  E-value=0.0079  Score=48.07  Aligned_cols=96  Identities=17%  Similarity=0.151  Sum_probs=49.8

Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 038109          149 TRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAF  228 (324)
Q Consensus       149 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  228 (324)
                      .+.+++.+|+..|.+.++.. +-|.+.|..-..+|++.|.++.|.+--+.....+.. ...+|..|-.+|...|++++|.
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~~A~  169 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYEEAI  169 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHHHHH
Confidence            34455555555555555542 124455555555556666555555555444443222 3445555555566666666665


Q ss_pred             HHHHHHHHCCCCcCHHHHHH
Q 038109          229 VLLRRMVDDGQSVLYSTYAH  248 (324)
Q Consensus       229 ~~~~~m~~~~~~p~~~~~~~  248 (324)
                      +.|++.++  +.|+..+|-.
T Consensus       170 ~aykKaLe--ldP~Ne~~K~  187 (304)
T KOG0553|consen  170 EAYKKALE--LDPDNESYKS  187 (304)
T ss_pred             HHHHhhhc--cCCCcHHHHH
Confidence            55555442  3455444433

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.24  E-value=0.006  Score=42.97  Aligned_cols=52  Identities=13%  Similarity=-0.004  Sum_probs=37.8

Q ss_pred             CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCC-CCCCcCHhHHHHHHHHHh
Q 038109          238 GQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGG-RDIKLDTELFGSLGSKLI  289 (324)
Q Consensus       238 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~  289 (324)
                      ...|+..+..+++.+|+..|++..|.++++...+ .+++.+..+|..|++-..
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            4557788888888888888888888888766644 456667777877776443

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

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.19  E-value=0.0065  Score=48.91  Aligned_cols=92  Identities=10%  Similarity=0.108  Sum_probs=43.3

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCc----hhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC----HHHHHHH
Q 038109           38 YDDLVNAAGHERDLETVRYLLNKRARDCCFNTA----NTFNFITNTENSLSVLSDLCRTLARLDKGFPR----KSAYDTL  109 (324)
Q Consensus        38 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~l  109 (324)
                      |...+....+.|++++|...|+.+.+.  .|+.    ..+..+..+|...|++++|...|+.+.+.+|+    ..++-.+
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            444444434445555555555555543  1221    24444555555555555555555555444432    1233333


Q ss_pred             HHHHHccCCHHHHHHHHHHHHh
Q 038109          110 IGRLCKLKKIDEALRVVDIMAE  131 (324)
Q Consensus       110 i~~~~~~~~~~~a~~~~~~m~~  131 (324)
                      ...+...|+.++|.++|+++.+
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            4444445555555555555444

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.17  E-value=0.0091  Score=42.07  Aligned_cols=49  Identities=6%  Similarity=0.143  Sum_probs=26.3

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH-CCCCCCHHHHHHHHHH
Q 038109          169 VSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEE-EKLGADARTYDALVLG  217 (324)
Q Consensus       169 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~  217 (324)
                      ..|+..+..+++.+|+..|++..|+++.+...+ .+++.+...|..|+.-
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            345555555555555555555555555555443 2444455555555543

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

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.15  E-value=0.023  Score=44.73  Aligned_cols=137  Identities=11%  Similarity=0.001  Sum_probs=104.8

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHH---
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVM---  250 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li---  250 (324)
                      .+-+.++.++.-.|.+.-....+.+..+...+-+....+.|.+.-.+.|+.+.|...|++..+...+.|..+++.++   
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            34567778888888999999999999998777789999999999999999999999999887664455555555444   


Q ss_pred             --HHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCch
Q 038109          251 --GALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKM  311 (324)
Q Consensus       251 --~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  311 (324)
                        ..|..++++..|...+.+....+.. |+..-|.-.-++.-.|+..+|.+.++.|.+....|
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~  319 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRH  319 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence              3455667888888888888776533 55555554445555799999999999998765554

>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=97.09  E-value=0.0026  Score=39.54  Aligned_cols=59  Identities=14%  Similarity=0.035  Sum_probs=26.6

Q ss_pred             hhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccC-CHHHHHHHHHHHH
Q 038109           72 TFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLK-KIDEALRVVDIMA  130 (324)
Q Consensus        72 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~-~~~~a~~~~~~m~  130 (324)
                      +|..+...+...|++++|...|++..+..|+ ...|..+..++...| ++++|++.+++..
T Consensus         5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    5 AWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            3444444444444444444444444443342 224444444444444 3444444444443

...

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

Probab=97.08  E-value=0.013  Score=46.47  Aligned_cols=104  Identities=17%  Similarity=0.166  Sum_probs=58.1

Q ss_pred             ChhhHHHHHHHHH-----ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHH
Q 038109          137 SAITFHPILSVLT-----RGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTY  211 (324)
Q Consensus       137 ~~~~~~~li~~~~-----~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  211 (324)
                      |..+|-..+..+.     +.+..+-....++.|.+.|+..|..+|+.|+..+-+..-.                | ...+
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfi----------------P-~nvf  128 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFI----------------P-QNVF  128 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccc----------------c-HHHH
Confidence            4455555555443     2244555555566666666666666666666654432211                0 1111


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 038109          212 DALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYY  259 (324)
Q Consensus       212 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  259 (324)
                      ....-.|-  .+-+-+++++++|...|+.||..+-..|++++.+.+-.
T Consensus       129 Q~~F~HYP--~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  129 QKVFLHYP--QQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHhhCc--hhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            11111111  12345777888888888888888888888888877754

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.05  E-value=0.063  Score=41.64  Aligned_cols=179  Identities=15%  Similarity=0.097  Sum_probs=100.3

Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhcCCCCC---chhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHH--HHHHHHHHHH
Q 038109           40 DLVNAAGHERDLETVRYLLNKRARDCCFNT---ANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKS--AYDTLIGRLC  114 (324)
Q Consensus        40 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~--~~~~li~~~~  114 (324)
                      .....+...|++.+|.+.|+.+... .+.+   ....-.++.++-+.|+++.|...++.+.+.+|+..  .+...+.+.+
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~-~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~   88 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDR-YPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLS   88 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH--TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHH-CCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHH
Confidence            3344567889999999999999875 2222   23455678889999999999999999988777543  3333333333


Q ss_pred             ccCCHHHHHHHHHHHHhCCCC---CChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhh
Q 038109          115 KLKKIDEALRVVDIMAEGGFG---LSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTA  191 (324)
Q Consensus       115 ~~~~~~~a~~~~~~m~~~g~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  191 (324)
                      .........     .......   --...+..++.-|=.+.-..+|...+..+.+.    =...--.+...|.+.|.+..
T Consensus        89 ~~~~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~y~a  159 (203)
T PF13525_consen   89 YYKQIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGKYKA  159 (203)
T ss_dssp             HHHHHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-HHH
T ss_pred             HHHhCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcccHHH
Confidence            221111110     0000000   00123444455555555556665555554432    01112235677889999999


Q ss_pred             HHHHHHHHHHCCCC--CCHHHHHHHHHHHHhcCCHHHHH
Q 038109          192 TSGVLKKMEEEKLG--ADARTYDALVLGACRAGRVEEAF  228 (324)
Q Consensus       192 a~~~~~~m~~~~~~--~~~~~~~~li~~~~~~g~~~~a~  228 (324)
                      |..-++.+.+.=+.  ......-.++.+|.+.|..+.+.
T Consensus       160 A~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  160 AIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            99999888875222  11345566778888888877443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.99  E-value=0.004  Score=39.19  Aligned_cols=54  Identities=24%  Similarity=0.196  Sum_probs=30.1

Q ss_pred             HHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          252 ALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       252 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .|.+.++++.|.++++.+...++. ++..+......+.+.|++++|.+.|++..+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            455555666666666555555322 455555555555566666666666665553

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

Probab=96.98  E-value=0.01  Score=47.07  Aligned_cols=100  Identities=16%  Similarity=0.176  Sum_probs=76.0

Q ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHcc-----CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC------------
Q 038109           90 CRTLARLDKGFPRKSAYDTLIGRLCKL-----KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGK------------  152 (324)
Q Consensus        90 ~~~~~~~~~~~p~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~------------  152 (324)
                      ++.|..+..+..|..+|-..+..+...     +.++-....++.|.+.|+.-|..+|..||+.+-+..            
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            444555544445666777777666543     566777777888999999999999999998765442            


Q ss_pred             ----cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 038109          153 ----RMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNL  189 (324)
Q Consensus       153 ----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  189 (324)
                          +-+=+.+++++|...|+.||..+-..++.++++.+-.
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence                3455778999999999999999999999999887753

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.97  E-value=0.03  Score=45.19  Aligned_cols=99  Identities=12%  Similarity=0.007  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCcCHHHHHHH
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGAD--ARTYDALVLGACRAGRVEEAFVLLRRMVDD--GQSVLYSTYAHV  249 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~l  249 (324)
                      ..|...+....+.|++++|...|+.+.+.-+...  ...+-.+...|...|++++|...|+.+.+.  +-......+-.+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            3444444444555666666666666665533211  235555666666666666666666666543  111112333334


Q ss_pred             HHHHHhcCCHHHHHHHHHHhCCC
Q 038109          250 MGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      ...+...|+.+.|...++.+.+.
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            44555666666666666665543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.92  E-value=0.0099  Score=37.34  Aligned_cols=54  Identities=22%  Similarity=0.218  Sum_probs=30.6

Q ss_pred             HHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          182 AYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       182 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      .|.+.+++++|.++++.+...++. +...|......+.+.|++++|.+.|+...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            455555666666666655555443 455555555555566666666666655554

>PRK15331 chaperone protein SicA; Provisional

Probab=96.89  E-value=0.05  Score=39.86  Aligned_cols=85  Identities=11%  Similarity=-0.050  Sum_probs=38.0

Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVK  264 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  264 (324)
                      ..|++++|..+|+-+.-.++- +..=|..|..++-..+++++|...|......+. -|+..+-..-.++...|+.+.|..
T Consensus        49 ~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A~~  126 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKARQ  126 (165)
T ss_pred             HCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHHHH
Confidence            455555555555554443332 333344444444445555555555544332211 111222234444555555555555


Q ss_pred             HHHHhCC
Q 038109          265 FVMVCGG  271 (324)
Q Consensus       265 ~~~~~~~  271 (324)
                      .|....+
T Consensus       127 ~f~~a~~  133 (165)
T PRK15331        127 CFELVNE  133 (165)
T ss_pred             HHHHHHh
Confidence            5544443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.88  E-value=0.079  Score=42.65  Aligned_cols=99  Identities=15%  Similarity=0.055  Sum_probs=51.0

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCcCHHHHHH
Q 038109          172 DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAG---RVEEAFVLLRRMVDDGQSVLYSTYAH  248 (324)
Q Consensus       172 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~p~~~~~~~  248 (324)
                      |...|-.|..+|...|+++.|..-|....+.-.+ +...+..+..++....   ...++..+|+++.... .-+..+...
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHHH
Confidence            5556666666666666666666666655554222 4444444444433322   2345556666655432 122333333


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          249 VMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      |...+...|++.+|...|+.|.+.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhc
Confidence            444556666666666666666554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.83  E-value=0.016  Score=48.53  Aligned_cols=261  Identities=15%  Similarity=0.035  Sum_probs=151.9

Q ss_pred             HHhcCCCHHHHHHHHHHHHhcCCCCC----chhhHhhhhchhhhhhHHHHHHHHHH-------HhcCCCCHHHHHHHHHH
Q 038109           44 AAGHERDLETVRYLLNKRARDCCFNT----ANTFNFITNTENSLSVLSDLCRTLAR-------LDKGFPRKSAYDTLIGR  112 (324)
Q Consensus        44 ~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~-------~~~~~p~~~~~~~li~~  112 (324)
                      -+|+.|+......+|+..++-|- .|    ..+|..|.++|.-.++++.|.++...       +....-...+-..|.+.
T Consensus        26 RLck~gdcraGv~ff~aA~qvGT-eDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNt  104 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGT-EDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNT  104 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcc-hHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccch
Confidence            46899999999999999988763 33    34677888999999999999887432       11111111122333334


Q ss_pred             HHccCCHHHHHHHHHH----HHhCCCC-CChhhHHHHHHHHHccCc--------------------HHHHHHHHHH----
Q 038109          113 LCKLKKIDEALRVVDI----MAEGGFG-LSAITFHPILSVLTRGKR--------------------MEEAWGLMEV----  163 (324)
Q Consensus       113 ~~~~~~~~~a~~~~~~----m~~~g~~-~~~~~~~~li~~~~~~~~--------------------~~~a~~~~~~----  163 (324)
                      +--.|.+++|+-.-.+    .++-|-. .....+-.+.+.|...|+                    ++.|.++|.+    
T Consensus       105 lKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l  184 (639)
T KOG1130|consen  105 LKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLEL  184 (639)
T ss_pred             hhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555433211    1222211 122344445555544432                    2334444433    


Q ss_pred             HHhCCC-CCCHHHHHHHHHHHHhcCChhhHHHHHHHHH----HCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          164 MKEIRV-SPDLTAYNYLLTAYCFKGNLTATSGVLKKME----EEKLG-ADARTYDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       164 m~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~----~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      +.+.|- -.....|..|...|.-.|++++|....+.-.    +.|-. .....+..+.+++.-.|+++.|.+.|+.-...
T Consensus       185 ~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~L  264 (639)
T KOG1130|consen  185 SEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNL  264 (639)
T ss_pred             HHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHH
Confidence            112221 1122445566666666788898887654321    22221 13456788889999999999999988865432


Q ss_pred             ----CCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC-----CCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          238 ----GQS-VLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR-----DIKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       238 ----~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                          |-+ ....+.-+|-..|.-..++..|+.++..-...     ...-....+.+|..+|...|..++|+.+.+.-.
T Consensus       265 Aielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  265 AIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence                211 22233444667777777888888876432210     112256778889999999999999988776544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.81  E-value=0.096  Score=46.29  Aligned_cols=158  Identities=16%  Similarity=0.053  Sum_probs=78.4

Q ss_pred             hhhhchhhhhhHHHHHHHHHHHhcCC--CCH------HHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCChhhHH
Q 038109           75 FITNTENSLSVLSDLCRTLARLDKGF--PRK------SAYDTLIGRLCK----LKKIDEALRVVDIMAEGGFGLSAITFH  142 (324)
Q Consensus        75 ~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~------~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~  142 (324)
                      .++....=.|+-+.+.+.+....+..  ...      ..|+.++..++.    ..+.+.|.++++.+.+. . |+...|.
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~-y-P~s~lfl  270 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR-Y-PNSALFL  270 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh-C-CCcHHHH
Confidence            44555555566666666665553321  111      134444444433    34556666666666653 2 3433332


Q ss_pred             HH-HHHHHccCcHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH-
Q 038109          143 PI-LSVLTRGKRMEEAWGLMEVMKEIR---VSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLG-  217 (324)
Q Consensus       143 ~l-i~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-  217 (324)
                      .. -+.+...|++++|.+.|+......   .+.....+--+.-++.-..+|++|.+.|..+.+..-- +...|.-+..+ 
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~W-Ska~Y~Y~~a~c  349 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKW-SKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcccc-HHHHHHHHHHHH
Confidence            22 233445566777776666543211   1112233444555566667777777777776654221 33334333322 


Q ss_pred             HHhcCCH-------HHHHHHHHHHH
Q 038109          218 ACRAGRV-------EEAFVLLRRMV  235 (324)
Q Consensus       218 ~~~~g~~-------~~a~~~~~~m~  235 (324)
                      +...|+.       ++|.++|++..
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHH
Confidence            3344555       66666666554

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.

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.79  E-value=0.07  Score=42.97  Aligned_cols=113  Identities=13%  Similarity=0.093  Sum_probs=83.2

Q ss_pred             CCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc---CcHHHHHHHHHHHHhCCCCCCHH
Q 038109           99 GFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRG---KRMEEAWGLMEVMKEIRVSPDLT  174 (324)
Q Consensus        99 ~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~~~~~~~~  174 (324)
                      ..| |...|-.|...|...|+.+.|..-|.+..+- -+++...+..+..++...   ..-.++..+|+++.+... -|+.
T Consensus       151 ~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL-~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~-~~ir  228 (287)
T COG4235         151 QNPGDAEGWDLLGRAYMALGRASDALLAYRNALRL-AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDP-ANIR  228 (287)
T ss_pred             hCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCC-ccHH
Confidence            345 6779999999999999999999999988874 223555556555554433   345788899999988753 3667


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV  215 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  215 (324)
                      +...+...+...|++.+|...|+.|.+...  ....+..+|
T Consensus       229 al~lLA~~afe~g~~~~A~~~Wq~lL~~lp--~~~~rr~~i  267 (287)
T COG4235         229 ALSLLAFAAFEQGDYAEAAAAWQMLLDLLP--ADDPRRSLI  267 (287)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhcCC--CCCchHHHH
Confidence            777778889999999999999999998743  333344444

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.75  E-value=0.16  Score=45.83  Aligned_cols=201  Identities=13%  Similarity=0.063  Sum_probs=96.1

Q ss_pred             CCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhc-CCCCCchhhHhh-------hhchhhhhhHHHHHHHHHHHhcCCCCH
Q 038109           32 EPTSAYYDDLVNAAGHERDLETVRYLLNKRARD-CCFNTANTFNFI-------TNTENSLSVLSDLCRTLARLDKGFPRK  103 (324)
Q Consensus        32 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~p~~  103 (324)
                      .|-+..|..+.......-.++.|...|-+...- |++.--. ...+       ...-.-.|++++|++++-.+.+.    
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkr-l~~i~s~~~q~aei~~~~g~feeaek~yld~drr----  763 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKR-LRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRR----  763 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHH-hhhhhhHHHHhHhHhhhhcchhHhhhhhhccchh----
Confidence            366667777777776666777777766554331 2211000 0000       11112235666666666555432    


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC----ChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 038109          104 SAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGL----SAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYL  179 (324)
Q Consensus       104 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  179 (324)
                         ...|..+.+.|+|-.+.++++.   .|-..    -...|+.+...++....+++|.+.+..-..         -...
T Consensus       764 ---DLAielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~---------~e~~  828 (1189)
T KOG2041|consen  764 ---DLAIELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD---------TENQ  828 (1189)
T ss_pred             ---hhhHHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---------hHhH
Confidence               2345555666666555554422   11111    124556666666666666666655543221         1123


Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 038109          180 LTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYY  259 (324)
Q Consensus       180 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  259 (324)
                      +.++.+..++++-..+.+.+.+     +....-.+...+.+.|.-++|.+.|-+.   +. |..     .+..|...+++
T Consensus       829 ~ecly~le~f~~LE~la~~Lpe-----~s~llp~~a~mf~svGMC~qAV~a~Lr~---s~-pka-----Av~tCv~LnQW  894 (1189)
T KOG2041|consen  829 IECLYRLELFGELEVLARTLPE-----DSELLPVMADMFTSVGMCDQAVEAYLRR---SL-PKA-----AVHTCVELNQW  894 (1189)
T ss_pred             HHHHHHHHhhhhHHHHHHhcCc-----ccchHHHHHHHHHhhchHHHHHHHHHhc---cC-cHH-----HHHHHHHHHHH
Confidence            4444444444444433333322     3344455556666666666666555322   11 211     33445555555


Q ss_pred             HHHHHHH
Q 038109          260 AQAVKFV  266 (324)
Q Consensus       260 ~~a~~~~  266 (324)
                      .+|.++-
T Consensus       895 ~~avela  901 (1189)
T KOG2041|consen  895 GEAVELA  901 (1189)
T ss_pred             HHHHHHH
Confidence            5555544

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.72  E-value=0.061  Score=46.87  Aligned_cols=131  Identities=17%  Similarity=0.152  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      -.+.+++-+-+.|..+.|+++.+.-.            .-.....+.|+++.|.++.++.      ++...|..|.+...
T Consensus       297 ~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL  358 (443)
T PF04053_consen  297 QGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEAL  358 (443)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHH
Confidence            35556666666666666665532211            1234444556666665544322      24556666666666


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVK  264 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  264 (324)
                      +.|+++-|.+.|.+..+         |..|+-.|.-.|+.+...++.+.....|-      ++..+.++.-.|++++..+
T Consensus       359 ~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~  423 (443)
T PF04053_consen  359 RQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVD  423 (443)
T ss_dssp             HTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHH
T ss_pred             HcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHH
Confidence            66666666666655432         44455555566666655555555544432      3334444455566666555


Q ss_pred             HHHH
Q 038109          265 FVMV  268 (324)
Q Consensus       265 ~~~~  268 (324)
                      ++..
T Consensus       424 lL~~  427 (443)
T PF04053_consen  424 LLIE  427 (443)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

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.

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.70  E-value=0.12  Score=36.28  Aligned_cols=139  Identities=15%  Similarity=0.195  Sum_probs=76.0

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 038109          151 GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVL  230 (324)
Q Consensus       151 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  230 (324)
                      .|..++..++..+....   .+..-||.+|--....-+-+...++++..-+-   .|..          ..|+.......
T Consensus        15 dG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGki---FDis----------~C~NlKrVi~C   78 (161)
T PF09205_consen   15 DGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKI---FDIS----------KCGNLKRVIEC   78 (161)
T ss_dssp             TT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGG---S-GG----------G-S-THHHHHH
T ss_pred             hchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCch----------hhcchHHHHHH
Confidence            45666666666665553   24444555554444444444444444443321   1211          22233332222


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCc
Q 038109          231 LRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLK  310 (324)
Q Consensus       231 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  310 (324)
                      +-.+   |  .+...+...+.++..+|+-++-.+++.++.+.+ .+++...-.+..+|.+.|+..++-+++++.-++|++
T Consensus        79 ~~~~---n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   79 YAKR---N--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHT---T-----HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHh---c--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            2211   1  234456777888889999999999998887643 567888888999999999999999999999888876


Q ss_pred             h
Q 038109          311 M  311 (324)
Q Consensus       311 ~  311 (324)
                      -
T Consensus       153 E  153 (161)
T PF09205_consen  153 E  153 (161)
T ss_dssp             H
T ss_pred             H
Confidence            3

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.68  E-value=0.17  Score=37.90  Aligned_cols=129  Identities=19%  Similarity=0.161  Sum_probs=81.9

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCC---CCCCHHHHH
Q 038109          101 PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIR---VSPDLTAYN  177 (324)
Q Consensus       101 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~  177 (324)
                      |+...--.|..+....|+..+|...|++....-+.-|....-.+.++....+++..|...++.+.+..   -.||  +.-
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~L  164 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GHL  164 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--chH
Confidence            55555556777777888888888888777665445566666677777777788888888877776653   2333  334


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRR  233 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  233 (324)
                      .+.+.+...|.+.+|..-|+.....-..|....|.  ...+.+.|+.+++..-+..
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y--~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISYYPGPQARIYY--AEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHH--HHHHHHhcchhHHHHHHHH
Confidence            45667777788888887777777653333333333  2334566665555444333

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.67  E-value=0.2  Score=41.27  Aligned_cols=127  Identities=12%  Similarity=0.139  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHHHhcCCCCCchhhHhhhhchhh------hhhHHHHHHHHHHHhcCCC-----CHHHHHHHHHHHHccCC-
Q 038109           51 LETVRYLLNKRARDCCFNTANTFNFITNTENS------LSVLSDLCRTLARLDKGFP-----RKSAYDTLIGRLCKLKK-  118 (324)
Q Consensus        51 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~------~~~~~~a~~~~~~~~~~~p-----~~~~~~~li~~~~~~~~-  118 (324)
                      +++..++++.|.+.|+.-+..+|-+..-....      ......+..+++.|++..|     +..++..++..  ...+ 
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            56677888889998888887666443322222      1334556666666655443     23344444433  2222 


Q ss_pred             ---HHHHHHHHHHHHhCCCCCCh--hhHHHHHHHHHccCc--HHHHHHHHHHHHhCCCCCCHHHHHHH
Q 038109          119 ---IDEALRVVDIMAEGGFGLSA--ITFHPILSVLTRGKR--MEEAWGLMEVMKEIRVSPDLTAYNYL  179 (324)
Q Consensus       119 ---~~~a~~~~~~m~~~g~~~~~--~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~~~~~~~~~l  179 (324)
                         .+.++.+|+.+.+.|+..+-  ...+.++..+....+  ...+.++++.+.+.|+++....|..+
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence               24445555555555554321  222222222221111  22445555555555555555444433

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.64  E-value=0.24  Score=40.79  Aligned_cols=128  Identities=17%  Similarity=0.293  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc--c----CcHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHhcCCh
Q 038109          119 IDEALRVVDIMAEGGFGLSAITFHPILSVLTR--G----KRMEEAWGLMEVMKEIRV---SPDLTAYNYLLTAYCFKGNL  189 (324)
Q Consensus       119 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--~----~~~~~a~~~~~~m~~~~~---~~~~~~~~~li~~~~~~~~~  189 (324)
                      +++.+.+++.|.+.|+.-+..+|-+.......  .    .....|..+++.|++...   .++...+..++..  ..++.
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            45667777888888887776666553333322  1    235677788888887752   3445555555544  33333


Q ss_pred             ----hhHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCcCHHHHHH
Q 038109          190 ----TATSGVLKKMEEEKLGADAR-TYDALVLGACRAGR---VEEAFVLLRRMVDDGQSVLYSTYAH  248 (324)
Q Consensus       190 ----~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~p~~~~~~~  248 (324)
                          +.+...|+.+.+.|...+.. -+.+-+-++.....   ...+.++++.+.+.|+++....|..
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~  222 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPT  222 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccH
Confidence                45667777777777665432 33333333333222   3467777888888888777666553

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.64  E-value=0.35  Score=40.94  Aligned_cols=32  Identities=19%  Similarity=0.093  Sum_probs=21.2

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          241 VLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       241 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      .+..-+..++.++.-.|+.++|.+..+.|...
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            34444555667777777777777777777654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.63  E-value=0.33  Score=40.72  Aligned_cols=249  Identities=16%  Similarity=0.068  Sum_probs=160.2

Q ss_pred             hcCCCHHHHHHHHHHHHhcCCCCCch--hhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHccCCHHHH
Q 038109           46 GHERDLETVRYLLNKRARDCCFNTAN--TFNFITNTENSLSVLSDLCRTLARLDKGFPRKS-AYDTLIGRLCKLKKIDEA  122 (324)
Q Consensus        46 ~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a  122 (324)
                      .-.|+++.|.+-|+.|...   |...  -...|.---.+.|..+.|...-+...+.-|... .+...+...+..|+|+.|
T Consensus       131 l~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~A  207 (531)
T COG3898         131 LLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGA  207 (531)
T ss_pred             HhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHH
Confidence            3579999999999999863   3322  223333334667888888888888776667544 788899999999999999


Q ss_pred             HHHHHHHHhCC-CCCChh--hHHHHHHHHH---ccCcHHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhcCChhhHHHH
Q 038109          123 LRVVDIMAEGG-FGLSAI--TFHPILSVLT---RGKRMEEAWGLMEVMKEIRVSPDLTA-YNYLLTAYCFKGNLTATSGV  195 (324)
Q Consensus       123 ~~~~~~m~~~g-~~~~~~--~~~~li~~~~---~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~li~~~~~~~~~~~a~~~  195 (324)
                      +++++.-++.. +.++..  .-..|+.+-.   -..+...|...-.+..+  +.||..- -..-..++.+.|+..++-.+
T Consensus       208 lkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~i  285 (531)
T COG3898         208 LKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKI  285 (531)
T ss_pred             HHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhH
Confidence            99998877643 333432  2223333211   12345555555554444  3344221 22345778899999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC
Q 038109          196 LKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD-GQSVL-YSTYAHVMGALLRLGYYAQAVKFVMVCGGRD  273 (324)
Q Consensus       196 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (324)
                      ++.+-+..+.|+..  .  +..+.+.|+.  +..-+++..+. .++|| ...-..+..+....|++..|..--+....  
T Consensus       286 lE~aWK~ePHP~ia--~--lY~~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--  357 (531)
T COG3898         286 LETAWKAEPHPDIA--L--LYVRARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--  357 (531)
T ss_pred             HHHHHhcCCChHHH--H--HHHHhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--
Confidence            99999886666532  2  2334556653  33333333221 33444 45556677888888999888776655554  


Q ss_pred             CCcCHhHHHHHHHHHh-CcCCHHHHHHHHHHHHhC
Q 038109          274 IKLDTELFGSLGSKLI-GLERFNEANFILKEMNKR  307 (324)
Q Consensus       274 ~~~~~~~~~~l~~~~~-~~g~~~~a~~~~~~m~~~  307 (324)
                      ..|....|..|.+.-. ..|+-.++...+-+-...
T Consensus       358 ~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         358 EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            3677888877777554 459999998888776544

>PRK15331 chaperone protein SicA; Provisional

Probab=96.61  E-value=0.12  Score=37.85  Aligned_cols=87  Identities=9%  Similarity=-0.068  Sum_probs=60.7

Q ss_pred             HHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 038109          148 LTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEA  227 (324)
Q Consensus       148 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  227 (324)
                      +...|++++|..+|.-+...+.. +..-+..|..+|-..+++++|...|...-..+.. |...+-....++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCHHHH
Confidence            34668888888888877765543 4556667777777788888888888765554433 444455566777788888888


Q ss_pred             HHHHHHHHH
Q 038109          228 FVLLRRMVD  236 (324)
Q Consensus       228 ~~~~~~m~~  236 (324)
                      ...|.....
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            888877765

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.60  E-value=0.34  Score=40.39  Aligned_cols=111  Identities=15%  Similarity=0.178  Sum_probs=86.9

Q ss_pred             hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 038109          138 AITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLG  217 (324)
Q Consensus       138 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  217 (324)
                      ..+.+..|.-+...|+...|.++-.+.+    .|+...|-..+.+++..++|++-.++-..  +    -.+..|-.++.+
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s--k----KsPIGyepFv~~  246 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS--K----KSPIGYEPFVEA  246 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC--C----CCCCChHHHHHH
Confidence            3456666778888899988888876663    37999999999999999999988775432  1    245789999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038109          218 ACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMV  268 (324)
Q Consensus       218 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  268 (324)
                      |.+.|+..+|..+..++      |+    ..-+..|.+.|++.+|.+.-.+
T Consensus       247 ~~~~~~~~eA~~yI~k~------~~----~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  247 CLKYGNKKEASKYIPKI------PD----EERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHCCCHHHHHHHHHhC------Ch----HHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999999988762      22    3357888999999998776433

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

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.60  E-value=0.37  Score=40.79  Aligned_cols=165  Identities=13%  Similarity=-0.020  Sum_probs=88.5

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHh---cCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 038109          142 HPILSVLTRGKRMEEAWGLMEVMKEIR---VSPDLTAYNYLLTAYCF---KGNLTATSGVLKKMEEEKLGADARTYDALV  215 (324)
Q Consensus       142 ~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~li~~~~~---~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  215 (324)
                      ..++-+|....+++...++.+.+...-   +.-+...-....-++.+   .|+.++|.+++..+......++..+|..+.
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            344445666677777777777766541   11112222233334445   677777777777655554555666666666


Q ss_pred             HHHHh---------cCCHHHHHHHHHHHHHCCCCcCHHH---HHHHHHHHHhcC-CHHHHHHHH----HHhCCCC---CC
Q 038109          216 LGACR---------AGRVEEAFVLLRRMVDDGQSVLYST---YAHVMGALLRLG-YYAQAVKFV----MVCGGRD---IK  275 (324)
Q Consensus       216 ~~~~~---------~g~~~~a~~~~~~m~~~~~~p~~~~---~~~li~~~~~~g-~~~~a~~~~----~~~~~~~---~~  275 (324)
                      ..|-.         ....++|.+.|++--+.  .||..+   +..|+....... .-.+..++-    ....+.|   -.
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            55532         12356677777654432  243222   122222211111 111222222    1122222   23


Q ss_pred             cCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          276 LDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       276 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      .+-..+.+++.+..-.|+.++|.+..++|....
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            456667778888899999999999999998775

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.54  E-value=0.24  Score=42.30  Aligned_cols=145  Identities=12%  Similarity=0.141  Sum_probs=107.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHH-HHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGG-FGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTA-YNYLLTA  182 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~li~~  182 (324)
                      +|...++.-.+..-++.|..+|-+..+.| +.+++..++++|..++. |+...|.++|+.-... + ||... -+-.+..
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~-f-~d~~~y~~kyl~f  475 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK-F-PDSTLYKEKYLLF  475 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh-C-CCchHHHHHHHHH
Confidence            67788888888889999999999999988 66888999999987764 7778899999875443 2 34433 3566777


Q ss_pred             HHhcCChhhHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 038109          183 YCFKGNLTATSGVLKKMEEEKLGAD--ARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLR  255 (324)
Q Consensus       183 ~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  255 (324)
                      +..-++-+.|..+|+....+ +..+  ...|..+|..=..-|+...+..+=++|...  .|...+.....+.|.-
T Consensus       476 Li~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~i  547 (660)
T COG5107         476 LIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYAI  547 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHhh
Confidence            78889999999999854433 1112  467888888888889988888887777643  4665555555555553

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.51  E-value=0.0073  Score=38.56  Aligned_cols=60  Identities=27%  Similarity=0.237  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHC----CCC-CC-HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEE----KLG-AD-ARTYDALVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-~~-~~~~~~li~~~~~~g~~~~a~~~~~~m  234 (324)
                      +|+.+...|...|++++|+..|++..+.    |.. |+ ..+++.+..+|...|++++|++.+++.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4455555555555555555555544321    111 11 334455555555555555555555543

...

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.49  E-value=0.3  Score=38.57  Aligned_cols=175  Identities=18%  Similarity=0.116  Sum_probs=83.2

Q ss_pred             hhhhhhHHHHHHHHHHHhcCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHcc---
Q 038109           80 ENSLSVLSDLCRTLARLDKGFPR----KSAYDTLIGRLCKLKKIDEALRVVDIMAEGG-FGLSAITFHPILSVLTRG---  151 (324)
Q Consensus        80 ~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~---  151 (324)
                      -.+.|++++|.+.|+.+.+..|.    ..+--.++-++-+.+++++|+..+++....- -.|| .-|-.-|.+.+..   
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-~dY~~YlkgLs~~~~i  122 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYAYYLKGLSYFFQI  122 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHHHHHHHHHHhccC
Confidence            35667777777777777766652    2245556667777777777777777766532 2233 2233334433311   


Q ss_pred             ----CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 038109          152 ----KRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEA  227 (324)
Q Consensus       152 ----~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  227 (324)
                          .|...+...+..+..            ++.-|-.+.=..+|..-...+...    =...=..+.+.|.+.|.+..|
T Consensus       123 ~~~~rDq~~~~~A~~~f~~------------~i~ryPnS~Ya~dA~~~i~~~~d~----LA~~Em~IaryY~kr~~~~AA  186 (254)
T COG4105         123 DDVTRDQSAARAAFAAFKE------------LVQRYPNSRYAPDAKARIVKLNDA----LAGHEMAIARYYLKRGAYVAA  186 (254)
T ss_pred             CccccCHHHHHHHHHHHHH------------HHHHCCCCcchhhHHHHHHHHHHH----HHHHHHHHHHHHHHhcChHHH
Confidence                222333333322221            111111111111222111111110    000001234556667777777


Q ss_pred             HHHHHHHHHC--CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          228 FVLLRRMVDD--GQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       228 ~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      ..-+++|.+.  ...-....+-.+..+|...|-.++|.+.-.-+..
T Consensus       187 ~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         187 INRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            7767766654  1111223344555667777777766665554443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.45  E-value=0.09  Score=46.82  Aligned_cols=198  Identities=12%  Similarity=0.082  Sum_probs=110.9

Q ss_pred             HHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHH
Q 038109           17 VLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARL   96 (324)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   96 (324)
                      +.++..++++.++|..|+..   .+...|+-.|++.+|.++|.+   .|...      -.+..|.....++.|.+++..-
T Consensus       617 L~li~EL~~~k~rge~P~~i---LlA~~~Ay~gKF~EAAklFk~---~G~en------RAlEmyTDlRMFD~aQE~~~~g  684 (1081)
T KOG1538|consen  617 LELISELEERKKRGETPNDL---LLADVFAYQGKFHEAAKLFKR---SGHEN------RALEMYTDLRMFDYAQEFLGSG  684 (1081)
T ss_pred             HHHHHHHHHHHhcCCCchHH---HHHHHHHhhhhHHHHHHHHHH---cCchh------hHHHHHHHHHHHHHHHHHhhcC
Confidence            45566677777777778753   344556677788888777653   33221      2344555555566655554321


Q ss_pred             hcCC-----CCHHHH-------HHHHHHHHccCCHHHHHHHHH------HHHhCCCCC---ChhhHHHHHHHHHccCcHH
Q 038109           97 DKGF-----PRKSAY-------DTLIGRLCKLKKIDEALRVVD------IMAEGGFGL---SAITFHPILSVLTRGKRME  155 (324)
Q Consensus        97 ~~~~-----p~~~~~-------~~li~~~~~~~~~~~a~~~~~------~m~~~g~~~---~~~~~~~li~~~~~~~~~~  155 (324)
                      ....     .....|       .+....+..+|+.++|..+.-      .+.+-+-+.   +..+...+...+.+...+.
T Consensus       685 ~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~g  764 (1081)
T KOG1538|consen  685 DPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPG  764 (1081)
T ss_pred             ChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccc
Confidence            1000     000111       234556666777777766531      122222111   2334444444455556666


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHH-----------HHHHHHHHHHhcCCH
Q 038109          156 EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADAR-----------TYDALVLGACRAGRV  224 (324)
Q Consensus       156 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-----------~~~~li~~~~~~g~~  224 (324)
                      .|-++|..|-.         ...+++.+...++|++|..+-+...+.  .||+.           -|.-.-.+|.+.|+-
T Consensus       765 LAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~  833 (1081)
T KOG1538|consen  765 LAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQ  833 (1081)
T ss_pred             hHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcch
Confidence            77777776643         234677778888888888887766543  23321           233344567777888


Q ss_pred             HHHHHHHHHHHHC
Q 038109          225 EEAFVLLRRMVDD  237 (324)
Q Consensus       225 ~~a~~~~~~m~~~  237 (324)
                      .+|.++++++...
T Consensus       834 ~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  834 REAVQVLEQLTNN  846 (1081)
T ss_pred             HHHHHHHHHhhhh
Confidence            8888888777654

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.45  E-value=0.47  Score=40.16  Aligned_cols=154  Identities=12%  Similarity=0.039  Sum_probs=79.8

Q ss_pred             HHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH--HHHhcCChhhHHHHHHHHHHCCCCCCHHH-------------HH
Q 038109          148 LTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLT--AYCFKGNLTATSGVLKKMEEEKLGADART-------------YD  212 (324)
Q Consensus       148 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-------------~~  212 (324)
                      +.-.|+.++|..+--..++..   ....+...++  ++.-.++.+.+...|++-...++  +...             +.
T Consensus       179 l~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldp--dh~~sk~~~~~~k~le~~k  253 (486)
T KOG0550|consen  179 LAFLGDYDEAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRLDP--DHQKSKSASMMPKKLEVKK  253 (486)
T ss_pred             hhhcccchhHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhccCh--hhhhHHhHhhhHHHHHHHH
Confidence            344566667766666555542   1122222222  23345566666666666555432  2211             11


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC---CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHh
Q 038109          213 ALVLGACRAGRVEEAFVLLRRMVDD---GQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLI  289 (324)
Q Consensus       213 ~li~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  289 (324)
                      .--+-..+.|++.+|.+.|.+.+..   ...|+...|.....+..+.|+.++|+.--++..+.... -...|..-..++.
T Consensus       254 ~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~s-yikall~ra~c~l  332 (486)
T KOG0550|consen  254 ERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSS-YIKALLRRANCHL  332 (486)
T ss_pred             hhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHH-HHHHHHHHHHHHH
Confidence            1122234667777777777776643   34455666666666667777777777666655543210 1111222223344


Q ss_pred             CcCCHHHHHHHHHHHHhC
Q 038109          290 GLERFNEANFILKEMNKR  307 (324)
Q Consensus       290 ~~g~~~~a~~~~~~m~~~  307 (324)
                      -.++|++|.+-++...+.
T Consensus       333 ~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  333 ALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence            457777777777665443

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.43  E-value=0.017  Score=36.84  Aligned_cols=61  Identities=23%  Similarity=0.318  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CcC-HHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          209 RTYDALVLGACRAGRVEEAFVLLRRMVDD----GQ-SVL-YSTYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       209 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      .+|+.+...|...|++++|+..|++..+.    |- .|+ ..++..+...+...|++++|++++++.
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45666666677777777777776665432    11 122 344555555666666666666665543

...

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.38  E-value=0.059  Score=45.31  Aligned_cols=263  Identities=14%  Similarity=0.007  Sum_probs=157.9

Q ss_pred             cCCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHH--hc--CC-CCCchhhHhhhhch
Q 038109            6 KLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRA--RD--CC-FNTANTFNFITNTE   80 (324)
Q Consensus         6 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~--~~--~~-~~~~~~~~~l~~~~   80 (324)
                      ++++.|.+...+..|..-...+....+.=...|..|=.+|.-.+++++|++++..=+  .+  |- .-.+.+...|.+.+
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtl  105 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTL  105 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchh
Confidence            355566666666666665555544444445567777778888889999998865421  11  11 11223344556666


Q ss_pred             hhhhhHHHHHHHHH-HH------hcCCCCHHHHHHHHHHHHccCC--------------------HHHHHHHHHHHH---
Q 038109           81 NSLSVLSDLCRTLA-RL------DKGFPRKSAYDTLIGRLCKLKK--------------------IDEALRVVDIMA---  130 (324)
Q Consensus        81 ~~~~~~~~a~~~~~-~~------~~~~p~~~~~~~li~~~~~~~~--------------------~~~a~~~~~~m~---  130 (324)
                      --.|.+++|.-.-. .+      ........++-.+...|...|+                    ++.|.+.|.+-.   
T Consensus       106 Kv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~  185 (639)
T KOG1130|consen  106 KVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELS  185 (639)
T ss_pred             hhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence            66677777654322 11      1111122244445555554442                    233444443211   


Q ss_pred             -hCCCC-CChhhHHHHHHHHHccCcHHHHHHHHHHHH----hCCC-CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH--
Q 038109          131 -EGGFG-LSAITFHPILSVLTRGKRMEEAWGLMEVMK----EIRV-SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEE--  201 (324)
Q Consensus       131 -~~g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~----~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--  201 (324)
                       +.|-. .--..|..|-+.|.-.|+++.|....+.-.    +-|- ......+..+..++.-.|+++.|.+.|+.-..  
T Consensus       186 ~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LA  265 (639)
T KOG1130|consen  186 EKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLA  265 (639)
T ss_pred             HHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHH
Confidence             11111 123457777777888899999987766532    2232 12345778889999999999999999875432  


Q ss_pred             --CCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----C-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038109          202 --EKL-GADARTYDALVLGACRAGRVEEAFVLLRRMVD----D-GQSVLYSTYAHVMGALLRLGYYAQAVKFVMV  268 (324)
Q Consensus       202 --~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  268 (324)
                        .|- .....+..+|.++|.-..++++|+.++.+=..    . ...-....+.+|-.+|...|..++|+.+...
T Consensus       266 ielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~  340 (639)
T KOG1130|consen  266 IELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAEL  340 (639)
T ss_pred             HHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence              221 22455677788889888899999988865321    1 1112346778899999999999988876543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.32  E-value=0.15  Score=43.44  Aligned_cols=127  Identities=13%  Similarity=0.130  Sum_probs=59.2

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcC-CCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHH-HHHHHHHHc
Q 038109           38 YDDLVNAAGHERDLETVRYLLNKRARDC-CFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAY-DTLIGRLCK  115 (324)
Q Consensus        38 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-~~li~~~~~  115 (324)
                      |-..|....+..-++.|..+|-+..+.| +.++...+++.+..++ .|+...|.++|+.=...+||...| +-.+.-+..
T Consensus       400 ~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~  478 (660)
T COG5107         400 FCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIR  478 (660)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHH
Confidence            3444444444555555555555555544 3444455555554332 344444555554444444544433 334444455


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHccCcHHHHHHHHHHHHh
Q 038109          116 LKKIDEALRVVDIMAEGGFGLS--AITFHPILSVLTRGKRMEEAWGLMEVMKE  166 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~  166 (324)
                      .++-+.|..+|+...++ +.-+  ...|..+|.-=..-|+...+..+=++|..
T Consensus       479 inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         479 INDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             hCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            55555555555533321 1111  23455555544455555555444444443

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.31  E-value=0.076  Score=46.30  Aligned_cols=156  Identities=19%  Similarity=0.088  Sum_probs=83.1

Q ss_pred             HhcCCCHHHHHHHHHH-HHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHH
Q 038109           45 AGHERDLETVRYLLNK-RARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEAL  123 (324)
Q Consensus        45 ~~~~~~~~~a~~~~~~-m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~  123 (324)
                      ..-.++++.+.++... -.-..++  ....+.++..+.+.|-.+.|.++...-          ..=.....+.|+++.|.
T Consensus       271 av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~----------~~rFeLAl~lg~L~~A~  338 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTDP----------DHRFELALQLGNLDIAL  338 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-H----------HHHHHHHHHCT-HHHHH
T ss_pred             HHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCCh----------HHHhHHHHhcCCHHHHH
Confidence            3456677776666541 1111122  334566677777777777776653321          12233445667777776


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC
Q 038109          124 RVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK  203 (324)
Q Consensus       124 ~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  203 (324)
                      ++.++.      .+...|..|.....+.|+++-|++.|++...         +..++-.|.-.|+.+...++-+.....|
T Consensus       339 ~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  339 EIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            653222      2556777777777777777777777775543         4556666667777777666666666554


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038109          204 LGADARTYDALVLGACRAGRVEEAFVLLRR  233 (324)
Q Consensus       204 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  233 (324)
                      -      +|....++.-.|+.++..+++.+
T Consensus       404 ~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  404 D------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             -------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             C------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            3      34444555556677766666543

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.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.29  E-value=0.6  Score=42.52  Aligned_cols=261  Identities=14%  Similarity=0.078  Sum_probs=147.9

Q ss_pred             HHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCC-C---CCchhhHhhhhchhhhhhHHHHHHHHH
Q 038109           19 VTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCC-F---NTANTFNFITNTENSLSVLSDLCRTLA   94 (324)
Q Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~---~~~~~~~~l~~~~~~~~~~~~a~~~~~   94 (324)
                      +++.+...-+....|. ..|..+....-..|+++.|..+++.=.+.+. .   .+..-+...+.-+...|+.+....++-
T Consensus       492 vld~I~~kls~~~~~~-iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vll  570 (829)
T KOG2280|consen  492 VLDKIDEKLSAKLTPG-ISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLL  570 (829)
T ss_pred             HHHHHHHHhcccCCCc-eeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHH
Confidence            3444444444333343 3578888888888888888888876444321 1   122233444555666677666666655


Q ss_pred             HHhcC------------CCC-HHHHHHHHH--------HHHccCCHHHHHHHH--HHHH----hCCCCCChhhHHHHHHH
Q 038109           95 RLDKG------------FPR-KSAYDTLIG--------RLCKLKKIDEALRVV--DIMA----EGGFGLSAITFHPILSV  147 (324)
Q Consensus        95 ~~~~~------------~p~-~~~~~~li~--------~~~~~~~~~~a~~~~--~~m~----~~g~~~~~~~~~~li~~  147 (324)
                      .+...            .|. ...|.-+++        .+.+.++-..+..-|  +...    ..|..|+.   ...-+.
T Consensus       571 hlk~~~~~s~l~~~l~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~l---k~~a~~  647 (829)
T KOG2280|consen  571 HLKNKLNRSSLFMTLRNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPAL---KTAANA  647 (829)
T ss_pred             HHHHHHHHHHHHHHHHhchhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhH---HHHHHH
Confidence            54321            121 123333332        111222222222222  1100    12233332   333344


Q ss_pred             HHccCcHHHHH----------HHHHHHHh-CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHH
Q 038109          148 LTRGKRMEEAW----------GLMEVMKE-IRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVL  216 (324)
Q Consensus       148 ~~~~~~~~~a~----------~~~~~m~~-~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  216 (324)
                      +.+........          ++.+.+.. .|..-..-+.+--+.-+..-|+..+|.++-.+.+    -||-..|-.-+.
T Consensus       648 ~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  648 FAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLT  723 (829)
T ss_pred             HhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHH
Confidence            54444322111          12222221 2222233344555566677888888887766554    369999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHH
Q 038109          217 GACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNE  296 (324)
Q Consensus       217 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  296 (324)
                      +++..+++++-+++-+.++.      +.-|..++.+|.+.|+.++|.+++......         .-...+|.+.|++.+
T Consensus       724 aLa~~~kweeLekfAkskks------PIGy~PFVe~c~~~~n~~EA~KYiprv~~l---------~ekv~ay~~~~~~~e  788 (829)
T KOG2280|consen  724 ALADIKKWEELEKFAKSKKS------PIGYLPFVEACLKQGNKDEAKKYIPRVGGL---------QEKVKAYLRVGDVKE  788 (829)
T ss_pred             HHHhhhhHHHHHHHHhccCC------CCCchhHHHHHHhcccHHHHhhhhhccCCh---------HHHHHHHHHhccHHH
Confidence            99999999998887766542      245666889999999999999987654332         156788888999988


Q ss_pred             HHHHHH
Q 038109          297 ANFILK  302 (324)
Q Consensus       297 a~~~~~  302 (324)
                      |.++--
T Consensus       789 Aad~A~  794 (829)
T KOG2280|consen  789 AADLAA  794 (829)
T ss_pred             HHHHHH
Confidence            877644

>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=96.24  E-value=0.52  Score=38.60  Aligned_cols=122  Identities=15%  Similarity=0.039  Sum_probs=58.4

Q ss_pred             HhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhc-------hhhhh-hHHHHHHHHHHHhc----------CCCCHH--
Q 038109           45 AGHERDLETVRYLLNKRARDCCFNTANTFNFITNT-------ENSLS-VLSDLCRTLARLDK----------GFPRKS--  104 (324)
Q Consensus        45 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~-------~~~~~-~~~~a~~~~~~~~~----------~~p~~~--  104 (324)
                      ..+.|+++.|..++.+........++.....+...       ....+ +++.|..++++..+          ..|+..  
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            34667777777777776543212222222222222       22333 55555555444311          112221  


Q ss_pred             ---HHHHHHHHHHccCCHH---HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC
Q 038109          105 ---AYDTLIGRLCKLKKID---EALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI  167 (324)
Q Consensus       105 ---~~~~li~~~~~~~~~~---~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  167 (324)
                         +...++.+|...+..+   +|.++++.+..... -...++..-+..+.+.++.+.+.+++.+|...
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~-~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEYG-NKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCC-CCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence               4555666666655433   34444444433211 12344445555555566666666666666654

It is also involved in sporulation [].

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.22  E-value=0.2  Score=43.09  Aligned_cols=63  Identities=16%  Similarity=0.166  Sum_probs=36.2

Q ss_pred             hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          138 AITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDL----TAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       138 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      ...++.+..+|.+.|++++|...|++..+..  |+.    .+|..+..+|...|+.++|...+++..+.
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4555556666666666666666666655532  332    23555666666666666666666665553

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.17  E-value=0.92  Score=40.81  Aligned_cols=216  Identities=13%  Similarity=0.061  Sum_probs=126.4

Q ss_pred             HHHHHHHhcCCCH--HHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHH-----HHH
Q 038109           39 DDLVNAAGHERDL--ETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDT-----LIG  111 (324)
Q Consensus        39 ~~ll~~~~~~~~~--~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~-----li~  111 (324)
                      +..=++|.+-++.  -+...-++++.++|-.|+..   .+...++-.|++.+|.++|.+-.....-...|+-     ...
T Consensus       602 ~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~i---LlA~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD~aQ  678 (1081)
T KOG1538|consen  602 ETARKAYIRVRDLRYLELISELEERKKRGETPNDL---LLADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFDYAQ  678 (1081)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHH---HHHHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHHHHH
Confidence            3333444444432  23333345667777778776   4566778899999999998875332222223322     234


Q ss_pred             HHHccCCHHHHHHHHHHHHh--CCC-CCChhhHHHHHHHHHccCcHHHHHHHHH------HHHhCCCC---CCHHHHHHH
Q 038109          112 RLCKLKKIDEALRVVDIMAE--GGF-GLSAITFHPILSVLTRGKRMEEAWGLME------VMKEIRVS---PDLTAYNYL  179 (324)
Q Consensus       112 ~~~~~~~~~~a~~~~~~m~~--~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~------~m~~~~~~---~~~~~~~~l  179 (324)
                      -+...|+.++-..+.++--+  ..+ .|.     +....+...|+.++|..+.-      -+.+.+.+   .+..+...+
T Consensus       679 E~~~~g~~~eKKmL~RKRA~WAr~~kePk-----aAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~  753 (1081)
T KOG1538|consen  679 EFLGSGDPKEKKMLIRKRADWARNIKEPK-----AAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLC  753 (1081)
T ss_pred             HHhhcCChHHHHHHHHHHHHHhhhcCCcH-----HHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHH
Confidence            45555555554444433222  111 122     23345556677777765432      12222222   233444455


Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH-----------HHHHH
Q 038109          180 LTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLY-----------STYAH  248 (324)
Q Consensus       180 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-----------~~~~~  248 (324)
                      ..-+.+...+..|-++|..|-+.         .+++......++|++|..+-+...+.  .||.           .-|..
T Consensus       754 a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeE  822 (1081)
T KOG1538|consen  754 ATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEE  822 (1081)
T ss_pred             HHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHH
Confidence            55556677888999999888643         34667788899999999998876532  3332           22444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhCCCC
Q 038109          249 VMGALLRLGYYAQAVKFVMVCGGRD  273 (324)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~~~  273 (324)
                      .-++|.+.|+-.+|.++++++....
T Consensus       823 AqkAfhkAGr~~EA~~vLeQLtnna  847 (1081)
T KOG1538|consen  823 AQKAFHKAGRQREAVQVLEQLTNNA  847 (1081)
T ss_pred             HHHHHHHhcchHHHHHHHHHhhhhh
Confidence            5578888999999999988876543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.17  E-value=0.22  Score=45.74  Aligned_cols=213  Identities=9%  Similarity=0.008  Sum_probs=129.4

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHh----cC----------C--CCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCC
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRAR----DC----------C--FNTANTFNFITNTENSLSVLSDLCRTLARLDKGF  100 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~----~~----------~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  100 (324)
                      ..+.++.++...+++-.-.-++....+    .+          .  .........-++...+...++-|..+...-.   
T Consensus       285 s~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~w~~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LAk~~~---  361 (933)
T KOG2114|consen  285 SSNRIFKAYDLRNRYVLYSSVLEDLSDNLIEWSFDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLAKSQH---  361 (933)
T ss_pred             chhheeehhhhcCcccchHHhHHHHHHHHHhcCCcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHHHhcC---
Confidence            466777777777665433333333222    22          0  1111223344556666666666666544322   


Q ss_pred             CCHH----HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHH
Q 038109          101 PRKS----AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY  176 (324)
Q Consensus       101 p~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  176 (324)
                      .+..    ......+-+.+.|++++|...|-+-... +.|     +.+|.-|........--.+++.+.+.|+. +...-
T Consensus       362 ~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dht  434 (933)
T KOG2114|consen  362 LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHT  434 (933)
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhH
Confidence            2222    3444555666788999988888766543 222     33566677777777778888888888875 66677


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRL  256 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  256 (324)
                      +.|+.+|.+.++.++-.+..+.-. .|..  ..-....+..+.+.+-.++|..+-.....     +......+   +-..
T Consensus       435 tlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~il---le~~  503 (933)
T KOG2114|consen  435 TLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDIL---LEDL  503 (933)
T ss_pred             HHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHH---HHHh
Confidence            788899999998888877776554 3222  11244566777777778888777655432     23333333   4456


Q ss_pred             CCHHHHHHHHHHhC
Q 038109          257 GYYAQAVKFVMVCG  270 (324)
Q Consensus       257 g~~~~a~~~~~~~~  270 (324)
                      |++++|.+++..+-
T Consensus       504 ~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  504 HNYEEALRYISSLP  517 (933)
T ss_pred             cCHHHHHHHHhcCC
Confidence            88999988876654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.10  E-value=0.068  Score=45.82  Aligned_cols=64  Identities=13%  Similarity=-0.062  Sum_probs=47.2

Q ss_pred             CchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHH----HHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038109           69 TANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKS----AYDTLIGRLCKLKKIDEALRVVDIMAEG  132 (324)
Q Consensus        69 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~  132 (324)
                      +...++.+..+|...|++++|...|++..+..|+..    +|..+..+|...|+.++|++.+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345677777777788888888888877766666532    4777778888888888888888777764

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.01  E-value=0.079  Score=42.73  Aligned_cols=76  Identities=17%  Similarity=0.131  Sum_probs=44.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh-----CCCchhHHHHHHH
Q 038109          245 TYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK-----RDLKMGFKLRDYY  319 (324)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~~~~  319 (324)
                      ++..++..+...|+++.+...++.+....+ -+...|..++.+|.+.|+...|+..++++.+     .|+.|...+...|
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            445555666666666666666666655542 2555666666666666666666666665533     4666666655555


Q ss_pred             hh
Q 038109          320 EI  321 (324)
Q Consensus       320 ~~  321 (324)
                      ..
T Consensus       234 ~~  235 (280)
T COG3629         234 EE  235 (280)
T ss_pred             HH
Confidence            44

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.96  E-value=0.39  Score=34.61  Aligned_cols=84  Identities=13%  Similarity=0.120  Sum_probs=36.9

Q ss_pred             HHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 038109          143 PILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAG  222 (324)
Q Consensus       143 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  222 (324)
                      .++..+...+.......+++.+...+. .+...++.++..|++.+ .++..+.++.   .   .+......++..|.+.+
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHHcC
Confidence            344444444455555555555444432 34445555555555432 2222222221   0   12222333455555555


Q ss_pred             CHHHHHHHHHHH
Q 038109          223 RVEEAFVLLRRM  234 (324)
Q Consensus       223 ~~~~a~~~~~~m  234 (324)
                      .++++..++.++
T Consensus        84 l~~~~~~l~~k~   95 (140)
T smart00299       84 LYEEAVELYKKD   95 (140)
T ss_pred             cHHHHHHHHHhh
Confidence            555555555544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.85  E-value=1.2  Score=39.47  Aligned_cols=160  Identities=14%  Similarity=0.156  Sum_probs=106.6

Q ss_pred             HHHHHHHccCcHHHHHHHHHHHHhCC-CCCC-----HHHHHHHHHHHHh----cCChhhHHHHHHHHHHCCCCCCHHHHH
Q 038109          143 PILSVLTRGKRMEEAWGLMEVMKEIR-VSPD-----LTAYNYLLTAYCF----KGNLTATSGVLKKMEEEKLGADARTYD  212 (324)
Q Consensus       143 ~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~-----~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~  212 (324)
                      .+++..+=.||-+.+++.+.+-.+.+ +...     .-+|...+..++.    ....+.|.++++.+.+.  -|+...|.
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl  270 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFL  270 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHH
Confidence            34445566688999998888766543 2211     1234444444443    44678899999999876  46766665


Q ss_pred             HHH-HHHHhcCCHHHHHHHHHHHHHCC---CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHH-H
Q 038109          213 ALV-LGACRAGRVEEAFVLLRRMVDDG---QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGS-K  287 (324)
Q Consensus       213 ~li-~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~  287 (324)
                      ..- +.+...|++++|.+.|++.....   .+.....+--+.-.+.-.+++++|...+..+.+.. .-+..+|.-+.. +
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHH
Confidence            443 55667899999999999765321   12234455556677888999999999999998753 334555554433 4


Q ss_pred             HhCcCCH-------HHHHHHHHHHH
Q 038109          288 LIGLERF-------NEANFILKEMN  305 (324)
Q Consensus       288 ~~~~g~~-------~~a~~~~~~m~  305 (324)
                      +...|+.       ++|.++|.+..
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHH
Confidence            4567877       88999988774

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.83  E-value=0.31  Score=34.89  Aligned_cols=75  Identities=19%  Similarity=0.126  Sum_probs=41.3

Q ss_pred             HHhcCChhhHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 038109          183 YCFKGNLTATSGVLKKMEEEKLGA--DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLG  257 (324)
Q Consensus       183 ~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  257 (324)
                      ..+.|++++|.+.|+.+...-+..  ....--.++.+|.+.+++++|...+++..+....--..-|...+.+++...
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            345677777777777776552211  234445566777777777777777777665432111223444444444433

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.79  E-value=0.46  Score=34.20  Aligned_cols=85  Identities=5%  Similarity=-0.040  Sum_probs=44.8

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 038109          107 DTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFK  186 (324)
Q Consensus       107 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  186 (324)
                      ..++..+...+........++.+...+. .+...++.++..|++.+. .+....++.   .   ++......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~---~---~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN---K---SNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh---c---cccCCHHHHHHHHHHc
Confidence            4555666666666666666666666553 455566666666665432 222233221   1   1222233355566666


Q ss_pred             CChhhHHHHHHHH
Q 038109          187 GNLTATSGVLKKM  199 (324)
Q Consensus       187 ~~~~~a~~~~~~m  199 (324)
                      +.++++..++.++
T Consensus        83 ~l~~~~~~l~~k~   95 (140)
T smart00299       83 KLYEEAVELYKKD   95 (140)
T ss_pred             CcHHHHHHHHHhh
Confidence            6666666655554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.74  E-value=0.55  Score=39.60  Aligned_cols=92  Identities=14%  Similarity=0.003  Sum_probs=54.2

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhC-----CCCC---------ChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHH
Q 038109          110 IGRLCKLKKIDEALRVVDIMAEG-----GFGL---------SAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTA  175 (324)
Q Consensus       110 i~~~~~~~~~~~a~~~~~~m~~~-----g~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~  175 (324)
                      .+.|.+.|++..|...|++....     +..+         -..++..+.-++.+.+++..|...-......+ ++|+..
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhH
Confidence            45677888888888888876542     1111         12344455555566666666666666655554 235555


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      .-.-..+|...|+++.|+..|+++.+.
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            555555666666666666666666654

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.71  E-value=0.58  Score=34.71  Aligned_cols=101  Identities=13%  Similarity=0.180  Sum_probs=48.4

Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC
Q 038109          124 RVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK  203 (324)
Q Consensus       124 ~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  203 (324)
                      +.++.+.+.+++|+...+..+++.+.+.|++.    .+..+.+.++-+|.......+-.+..  ....+.++=-+|.++ 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~----~L~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR-   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFS----QLHQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR-   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH----HHHHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH-
Confidence            44445555666666666666666666666543    33444444544554444433322222  223333333333322 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038109          204 LGADARTYDALVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       204 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  234 (324)
                         =...+..++..+...|++-+|.++.+..
T Consensus        88 ---L~~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   88 ---LGTAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             ---hhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence               0112444555555666666666665543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.71  E-value=0.2  Score=40.51  Aligned_cols=78  Identities=21%  Similarity=0.076  Sum_probs=62.9

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCcCHHHHHH
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD-----DGQSVLYSTYAH  248 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~~~~  248 (324)
                      .++..++..+...|+++.+.+.++++....+- +...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            45677888888889999999999888887665 888899999999999999999988888765     378888777665


Q ss_pred             HHHH
Q 038109          249 VMGA  252 (324)
Q Consensus       249 li~~  252 (324)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5555

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.60  E-value=0.77  Score=37.88  Aligned_cols=46  Identities=13%  Similarity=-0.057  Sum_probs=20.2

Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLL  231 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  231 (324)
                      .+|-+++|++.-++..+-+.. |.-.-.+....+--.|++.++.++.
T Consensus       187 E~g~y~dAEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM  232 (491)
T KOG2610|consen  187 ECGIYDDAEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFM  232 (491)
T ss_pred             HhccchhHHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHH
Confidence            344444444444444433322 3334444444444444444444443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.59  E-value=0.16  Score=40.44  Aligned_cols=94  Identities=17%  Similarity=0.216  Sum_probs=45.5

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHhcC--CCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC----HHHHHHHH
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRARDC--CFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPR----KSAYDTLI  110 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~li  110 (324)
                      .|+.-+. +.+.|++..|.+.|....+..  -.-.+..+-.|..++...|++++|...|..+.+.+|+    ..++--|.
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            3555544 334444666666665555431  1111233344555555555555555555555444432    12444444


Q ss_pred             HHHHccCCHHHHHHHHHHHHh
Q 038109          111 GRLCKLKKIDEALRVVDIMAE  131 (324)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~m~~  131 (324)
                      ....+.|+.++|-..|+++.+
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHH
Confidence            455555555555555555544

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.55  E-value=1.3  Score=37.58  Aligned_cols=63  Identities=16%  Similarity=0.043  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc---CHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          244 STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL---DTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .++..+.+.+-+.|+++.|...+..+...+...   ++...-.-+..+-..|+..+|+..+++..+
T Consensus       147 ~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  147 ETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444555555555555555554444422111   222222334444444555555555554443

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.51  E-value=0.38  Score=34.48  Aligned_cols=54  Identities=19%  Similarity=0.134  Sum_probs=33.9

Q ss_pred             hhhhhhHHHHHHHHHHHhcCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038109           80 ENSLSVLSDLCRTLARLDKGFPR----KSAYDTLIGRLCKLKKIDEALRVVDIMAEGG  133 (324)
Q Consensus        80 ~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  133 (324)
                      ..+.|++++|.+.|+.+...+|-    ..+--.++.+|.+.+++++|...+++.++..
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            35566666666666666666542    2245556677777777777777777766643

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.40  E-value=0.83  Score=34.48  Aligned_cols=62  Identities=15%  Similarity=0.115  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHccCcHHHHHHHHHHHHh
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLS--AITFHPILSVLTRGKRMEEAWGLMEVMKE  166 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~  166 (324)
                      .+..+..-|.+.|+.+.|.+.|.++.+....+.  ...+-.+|....-.+++..+.....+...
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            677888888888888888888888887655443  34566777777778888888777776554

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.21  E-value=1.4  Score=40.90  Aligned_cols=246  Identities=9%  Similarity=-0.020  Sum_probs=144.8

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCc--hhhHhhhhchhhhhhHHHHHHHHHHHhcCC-CCHHHHHHHHHHH
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRARDCCFNTA--NTFNFITNTENSLSVLSDLCRTLARLDKGF-PRKSAYDTLIGRL  113 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~li~~~  113 (324)
                      ....-|....+...++-|..+-+   ..+..++.  .......+-+.+.|++++|...+-+.-... |     ..+|.-|
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk---~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~-----s~Vi~kf  407 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAK---SQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEP-----SEVIKKF  407 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHH---hcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCCh-----HHHHHHh
Confidence            35566666677777777776643   33333332  233334455667899999988776654322 3     2456677


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHH
Q 038109          114 CKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATS  193 (324)
Q Consensus       114 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  193 (324)
                      ....+...--.+++.+.+.|+. +...-..|+.+|.+.++.++-.+..+... .|..  ..-....+..+.+.+-.++|.
T Consensus       408 Ldaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~  483 (933)
T KOG2114|consen  408 LDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAE  483 (933)
T ss_pred             cCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHH
Confidence            7777888888899999999886 66667889999999999988877766544 3321  112345667777778788887


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC
Q 038109          194 GVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRD  273 (324)
Q Consensus       194 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (324)
                      .+-.....     +......+   +-..+++++|++.+..+.-...-+....|...+-    ...+++-..++-+.....
T Consensus       484 ~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~slp~~e~l~~l~kyGk~Ll----~h~P~~t~~ili~~~t~~  551 (933)
T KOG2114|consen  484 LLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSLPISELLRTLNKYGKILL----EHDPEETMKILIELITEL  551 (933)
T ss_pred             HHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcCCHHHHHHHHHHHHHHHH----hhChHHHHHHHHHHHhhc
Confidence            66554432     33333333   3467889999999987643222233333333221    234455544443333222


Q ss_pred             CCcCHhHHHHHH-----HHHhCcCCHHHHHHHHHHHHh
Q 038109          274 IKLDTELFGSLG-----SKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       274 ~~~~~~~~~~l~-----~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .+++.......+     ....-.+++....-.++.|.+
T Consensus       552 ~~~~~~~~~s~~~~~~~~i~if~~~~~~~~~Fl~~~~E  589 (933)
T KOG2114|consen  552 NSQGKGKSLSNIPDSIEFIGIFSQNYQILLNFLESMSE  589 (933)
T ss_pred             CCCCCCchhhcCccchhheeeeccCHHHHHHHHHHHHh
Confidence            222222222222     223445677766666665654

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.19  E-value=1.5  Score=36.25  Aligned_cols=155  Identities=10%  Similarity=-0.034  Sum_probs=105.2

Q ss_pred             hhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC---CCCCChhhHHHHHHHHHccCcHH
Q 038109           80 ENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEG---GFGLSAITFHPILSVLTRGKRME  155 (324)
Q Consensus        80 ~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~~~~~  155 (324)
                      ....|+..+|...++++.+.+| |..++.-.-.+|...|+.+.-...+++....   +++....+-....-++...|-++
T Consensus       113 ~~~~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  113 LWGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             hhccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            3456777777788888877777 5668888888999999999988888888764   22222233333344455778999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038109          156 EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG---ADARTYDALVLGACRAGRVEEAFVLLR  232 (324)
Q Consensus       156 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~  232 (324)
                      +|++.-++..+.+ +-|...-.+....+...|++.++.+...+-...--.   .-..-|=...-.+...+.++.|+++|+
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9998888877764 346777777888888889999998776554332111   011223233344566789999999997


Q ss_pred             HHH
Q 038109          233 RMV  235 (324)
Q Consensus       233 ~m~  235 (324)
                      .-.
T Consensus       272 ~ei  274 (491)
T KOG2610|consen  272 REI  274 (491)
T ss_pred             HHH
Confidence            643

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.11  E-value=1.4  Score=35.61  Aligned_cols=138  Identities=9%  Similarity=0.107  Sum_probs=93.7

Q ss_pred             cCChhhHHHHHHHHHH-CCCCCCHHHHHHHHHHHHh-cC-CHHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHHhcCCHHH
Q 038109          186 KGNLTATSGVLKKMEE-EKLGADARTYDALVLGACR-AG-RVEEAFVLLRRMVDD-GQSVLYSTYAHVMGALLRLGYYAQ  261 (324)
Q Consensus       186 ~~~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~~-~g-~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~  261 (324)
                      .....+|+++|+.... ..+--|..+...+++.... .+ ....-.++.+-+... |..++..+...++..++..+++..
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            3445667777764332 2234477777777777765 22 223333444444433 456777888889999999999999


Q ss_pred             HHHHHHHhCCC-CCCcCHhHHHHHHHHHhCcCCHHHHHHHHHH-----HHhCCCchhHHHHHHHhhhc
Q 038109          262 AVKFVMVCGGR-DIKLDTELFGSLGSKLIGLERFNEANFILKE-----MNKRDLKMGFKLRDYYEINV  323 (324)
Q Consensus       262 a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-----m~~~~~~~~~~~~~~~~~~v  323 (324)
                      -.++|...... ++.-|...|..+|+.....|+..-..++.++     +++.|+..++.+...+..+.
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            99988877665 6667888999999999999998877777764     35667777777666655543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.08  E-value=0.29  Score=38.98  Aligned_cols=97  Identities=13%  Similarity=0.043  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC--CChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCC-C-CHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFG--LSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVS-P-DLTAYNYLL  180 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~-~~~~~~~li  180 (324)
                      .|+.-+..+ +.|++..|...|....+....  -....+-.|..++...|+++.|..+|..+.+.-.+ | -....--+.
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            566655544 456688888888887775321  12344556778888888888888888877764321 1 135566666


Q ss_pred             HHHHhcCChhhHHHHHHHHHHC
Q 038109          181 TAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      .+..+.|+.++|..+|++..+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            7777788888888888887765

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.02  E-value=0.81  Score=32.25  Aligned_cols=62  Identities=13%  Similarity=0.182  Sum_probs=25.4

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQ  239 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  239 (324)
                      ...++.....|+-++-.+++.++.+ +-.+++.....+..+|.+.|+..++.+++++..+.|+
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            3344444444444444444444433 1223444444444555555555555555554444443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>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=94.95  E-value=1  Score=34.01  Aligned_cols=97  Identities=12%  Similarity=0.054  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCcCHHHHHH
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGAD--ARTYDALVLGACRAGRVEEAFVLLRRMVDD---GQSVLYSTYAH  248 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~~~~  248 (324)
                      ..+..+...|++.|+.+.|.+.|.++.+....|.  ...+-.+|......+++..+...+.+....   |-.++...-..
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            4566677777777777777777777776644433  344566677777777777777776655432   22222222112


Q ss_pred             HHHH--HHhcCCHHHHHHHHHHhC
Q 038109          249 VMGA--LLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       249 li~~--~~~~g~~~~a~~~~~~~~  270 (324)
                      +..+  +...+++..|-+.|-...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            2222  335678888777765543

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.87  E-value=0.13  Score=28.41  Aligned_cols=25  Identities=20%  Similarity=0.173  Sum_probs=10.9

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      .+..+|...|++++|.++|++..+.
T Consensus         6 ~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    6 ALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3344444444444444444444443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.83  E-value=0.72  Score=38.95  Aligned_cols=123  Identities=11%  Similarity=0.006  Sum_probs=79.5

Q ss_pred             HHHHhcCChhhHHHHHHHHHHC-----CCC---------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHH
Q 038109          181 TAYCFKGNLTATSGVLKKMEEE-----KLG---------ADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTY  246 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~~-----~~~---------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  246 (324)
                      ..|.+.|++..|..-|++....     +..         .-..+++.+.-+|.+.+++.+|++.....+..+. +|.-..
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~-~N~KAL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP-NNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC-CchhHH
Confidence            4667777777777777664321     111         1224567778888888888888888888876542 455555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHH-HHHHHHHHH
Q 038109          247 AHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNE-ANFILKEMN  305 (324)
Q Consensus       247 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~  305 (324)
                      -.=-+++...|+++.|+..|+.+.+..+. |...-+.++..--+..+..+ ..++|..|-
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~~P~-Nka~~~el~~l~~k~~~~~~kekk~y~~mF  353 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKLEPS-NKAARAELIKLKQKIREYEEKEKKMYANMF  353 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            55567888888999999988888876422 44444445554444444433 367777774

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=94.82  E-value=2.4  Score=36.65  Aligned_cols=80  Identities=18%  Similarity=0.181  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHHCCCCcC----HHHHHHHHHH--HHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHH
Q 038109          225 EEAFVLLRRMVDDGQSVL----YSTYAHVMGA--LLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEAN  298 (324)
Q Consensus       225 ~~a~~~~~~m~~~~~~p~----~~~~~~li~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  298 (324)
                      .+-..+-+-+.+.|+.|-    ...-|.|.+|  +..+|++.++.-.-.-+.+  +.|++.+|..+.-++....++++|.
T Consensus       438 ~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~  515 (549)
T PF07079_consen  438 PRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAW  515 (549)
T ss_pred             HHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHH
Confidence            333333333445566552    3334444443  5577888888755444443  6789999999999999999999999


Q ss_pred             HHHHHHHh
Q 038109          299 FILKEMNK  306 (324)
Q Consensus       299 ~~~~~m~~  306 (324)
                      .++..+.-
T Consensus       516 ~~l~~LP~  523 (549)
T PF07079_consen  516 EYLQKLPP  523 (549)
T ss_pred             HHHHhCCC
Confidence            99998765

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.75  E-value=2.1  Score=35.79  Aligned_cols=221  Identities=10%  Similarity=0.027  Sum_probs=123.7

Q ss_pred             cCCCHHHHHHHHHHHHhc--CCCCCchhhHhhhhchhhhhhHHHHHHHH-HHH---hcCCC---CHHHHHHHHHHHHccC
Q 038109           47 HERDLETVRYLLNKRARD--CCFNTANTFNFITNTENSLSVLSDLCRTL-ARL---DKGFP---RKSAYDTLIGRLCKLK  117 (324)
Q Consensus        47 ~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~-~~~---~~~~p---~~~~~~~li~~~~~~~  117 (324)
                      ...+.++++..|.+-+.+  +...-..++..+..+.++.|.++++...- ..+   .+...   -..+|-.+.+++-+..
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455677777777665543  11112245666777778888887776542 222   11111   1225556666666666


Q ss_pred             CHHHHHHHHHHHHh-CCCCCC---hhhHHHHHHHHHccCcHHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhcCC
Q 038109          118 KIDEALRVVDIMAE-GGFGLS---AITFHPILSVLTRGKRMEEAWGLMEVMKEIR-----VSPDLTAYNYLLTAYCFKGN  188 (324)
Q Consensus       118 ~~~~a~~~~~~m~~-~g~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~~~~~~~~~li~~~~~~~~  188 (324)
                      ++.+++.+-..-.. .|..|.   -....++-.+..-.+.++++++.|+...+..     ......+|-.+-+.|.+..+
T Consensus        98 ~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D  177 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKD  177 (518)
T ss_pred             HhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHh
Confidence            66666655443332 222221   1233345556666677888888887755421     11234567788888888888


Q ss_pred             hhhHHHHHHHHH----HCCCCCCHH-HHH-----HHHHHHHhcCCHHHHHHHHHHHHH----CCCCcC-HHHHHHHHHHH
Q 038109          189 LTATSGVLKKME----EEKLGADAR-TYD-----ALVLGACRAGRVEEAFVLLRRMVD----DGQSVL-YSTYAHVMGAL  253 (324)
Q Consensus       189 ~~~a~~~~~~m~----~~~~~~~~~-~~~-----~li~~~~~~g~~~~a~~~~~~m~~----~~~~p~-~~~~~~li~~~  253 (324)
                      +++|.-+..+..    ..++. |.. -|.     .|.-++...|+.-.|.+..++..+    .|-+|. ......+.+.|
T Consensus       178 ~~Kal~f~~kA~~lv~s~~l~-d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  178 YEKALFFPCKAAELVNSYGLK-DWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhHHhhhhHhHHHHHHhcCcC-chhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            888776655433    23333 322 222     234556667777777776665433    344432 34455666777


Q ss_pred             HhcCCHHHHHHHHHH
Q 038109          254 LRLGYYAQAVKFVMV  268 (324)
Q Consensus       254 ~~~g~~~~a~~~~~~  268 (324)
                      -..|+.+.|+.-|+.
T Consensus       257 R~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQ  271 (518)
T ss_pred             HhcccHhHHHHHHHH
Confidence            788888877766543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.70  E-value=2  Score=37.64  Aligned_cols=73  Identities=12%  Similarity=0.068  Sum_probs=48.6

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC--HHHHHHHH
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGA-DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL--YSTYAHVM  250 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li  250 (324)
                      ..+..++-+.|+.++|.+.|++|.+..... +......|+.++...+.+.++..++.+..+... |.  ..+|+..+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~l-pkSAti~YTaAL  338 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISL-PKSATICYTAAL  338 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccC-CchHHHHHHHHH
Confidence            445566667888888888888887653322 344667788888888888888888887643322 33  34455544

The molecular function of this protein is uncertain.

>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=94.50  E-value=1.4  Score=32.67  Aligned_cols=137  Identities=12%  Similarity=0.186  Sum_probs=92.7

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          158 WGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       158 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      .+.+..+.+.+++|+...+..+++.+.+.|++....    .+...++-+|.......+-.+..  ....+.++--+|.+.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            456677778899999999999999999999876654    45566666776666555543333  233344444444432


Q ss_pred             -CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCC
Q 038109          238 -GQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDL  309 (324)
Q Consensus       238 -~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  309 (324)
                       +     ..+..+++.+...|++-+|.++.+......    ......++++..+.++...-..+++-..+++.
T Consensus        88 L~-----~~~~~iievLL~~g~vl~ALr~ar~~~~~~----~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n~  151 (167)
T PF07035_consen   88 LG-----TAYEEIIEVLLSKGQVLEALRYARQYHKVD----SVPARKFLEAAANSNDDQLFYAVFRFFEERNL  151 (167)
T ss_pred             hh-----hhHHHHHHHHHhCCCHHHHHHHHHHcCCcc----cCCHHHHHHHHHHcCCHHHHHHHHHHHHHhhH
Confidence             2     135667888999999999999987764432    12234577777788887777777776666553

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.46  E-value=1.7  Score=33.50  Aligned_cols=166  Identities=22%  Similarity=0.119  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH-H
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEG-GFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLT-A  182 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~-~  182 (324)
                      .+......+...+++..+...+...... ........+......+...++...+...+.........+ ......... .
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  139 (291)
T COG0457          61 LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGA  139 (291)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHH
Confidence            3444444444444444444444444331 111222333333333344444444444444444332221 111111111 4


Q ss_pred             HHhcCChhhHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHH
Q 038109          183 YCFKGNLTATSGVLKKMEEEKL--GADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYA  260 (324)
Q Consensus       183 ~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  260 (324)
                      +...|+++.|...+.+......  ......+......+...++.+++...+..............+..+-..+...++++
T Consensus       140 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  219 (291)
T COG0457         140 LYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYE  219 (291)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccHH
Confidence            4445555555555554433111  01122222222333444455555555554443211102333444444444445555


Q ss_pred             HHHHHHHHhCC
Q 038109          261 QAVKFVMVCGG  271 (324)
Q Consensus       261 ~a~~~~~~~~~  271 (324)
                      .+...+.....
T Consensus       220 ~a~~~~~~~~~  230 (291)
T COG0457         220 EALEYYEKALE  230 (291)
T ss_pred             HHHHHHHHHHh
Confidence            55555544444

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.28  E-value=2.9  Score=35.38  Aligned_cols=66  Identities=15%  Similarity=0.105  Sum_probs=46.6

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          171 PDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA---DARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       171 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      ....++..+...+.+.|.++.|...+..+...+...   +....-.-+..+-..|+.++|+..++....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345677788888888888888888888887654221   233444445566677888888888887776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.03  E-value=2.4  Score=33.46  Aligned_cols=92  Identities=16%  Similarity=0.040  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcCH-HHHHHHHHHHHhcCCHHHHHHHHHHhCCC---CCCcCHhHH
Q 038109          210 TYDALVLGACRAGRVEEAFVLLRRMVDD----GQSVLY-STYAHVMGALLRLGYYAQAVKFVMVCGGR---DIKLDTELF  281 (324)
Q Consensus       210 ~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~  281 (324)
                      .+...-+.+++...+++|-..+.+-...    .--|+. ..|...|-.+....++..|++.++.--+.   .-.-+..+.
T Consensus       152 l~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~l  231 (308)
T KOG1585|consen  152 LYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSL  231 (308)
T ss_pred             HHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHH
Confidence            3455556677777777776655443211    111221 23555555666777999999999874432   223367788


Q ss_pred             HHHHHHHhCcCCHHHHHHHHH
Q 038109          282 GSLGSKLIGLERFNEANFILK  302 (324)
Q Consensus       282 ~~l~~~~~~~g~~~~a~~~~~  302 (324)
                      ..|+.+|- .|+.+++.+++.
T Consensus       232 enLL~ayd-~gD~E~~~kvl~  251 (308)
T KOG1585|consen  232 ENLLTAYD-EGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHhc-cCCHHHHHHHHc
Confidence            88888885 588888877764

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.03  E-value=2.8  Score=34.12  Aligned_cols=175  Identities=11%  Similarity=0.052  Sum_probs=108.4

Q ss_pred             hhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHH
Q 038109           77 TNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEE  156 (324)
Q Consensus        77 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~  156 (324)
                      +..+.....-+...++++..... +....+ .-.......|+..+|..+|+........ +...--.+..+|...|+.+.
T Consensus       110 VdgF~G~qPesqlr~~ld~~~~~-~~e~~~-~~~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~  186 (304)
T COG3118         110 VDGFQGAQPESQLRQFLDKVLPA-EEEEAL-AEAKELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEA  186 (304)
T ss_pred             ccccCCCCcHHHHHHHHHHhcCh-HHHHHH-HHhhhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHH
Confidence            33333333344455555554322 112222 2234566788888888888888875433 45566677888889999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          157 AWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA-DARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       157 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      |..++..+...--........+-|..+.+.....+...+-.+.-..   | |...-..+...+...|+.++|.+.+-.+.
T Consensus       187 A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l  263 (304)
T COG3118         187 AQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALL  263 (304)
T ss_pred             HHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9998888765432222233334566666777666666666665553   4 67777778888888999998888766655


Q ss_pred             HC--CCCcCHHHHHHHHHHHHhcCC
Q 038109          236 DD--GQSVLYSTYAHVMGALLRLGY  258 (324)
Q Consensus       236 ~~--~~~p~~~~~~~li~~~~~~g~  258 (324)
                      +.  |. -|...=..++..+.-.|.
T Consensus       264 ~~d~~~-~d~~~Rk~lle~f~~~g~  287 (304)
T COG3118         264 RRDRGF-EDGEARKTLLELFEAFGP  287 (304)
T ss_pred             Hhcccc-cCcHHHHHHHHHHHhcCC
Confidence            43  33 334445556666666663

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.02  E-value=0.17  Score=27.95  Aligned_cols=26  Identities=38%  Similarity=0.402  Sum_probs=11.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          211 YDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       211 ~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      +..+...|.+.|++++|.++|++..+
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33344444444444444444444443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.00  E-value=1.5  Score=30.92  Aligned_cols=92  Identities=17%  Similarity=0.038  Sum_probs=58.1

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHHhcC
Q 038109          111 GRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTA---YNYLLTAYCFKG  187 (324)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~---~~~li~~~~~~~  187 (324)
                      -+....|+++.|++.|.+...- .+-....||.-.+++.-.|+.++|++=+++..+..-..+...   |..-...|-..|
T Consensus        51 valaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            3556677788888887777654 233567777777777777777777777776655432223222   222334456677


Q ss_pred             ChhhHHHHHHHHHHCC
Q 038109          188 NLTATSGVLKKMEEEK  203 (324)
Q Consensus       188 ~~~~a~~~~~~m~~~~  203 (324)
                      +-+.|..=|+..-+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            7777777777666555

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=93.93  E-value=3  Score=34.19  Aligned_cols=221  Identities=11%  Similarity=0.022  Sum_probs=127.0

Q ss_pred             hhhhhhHHHHHHHHHHHhcC----CCCHH------HHHHHHHHHHccCCHHHHHHHHHHHHhC--------CCCCC----
Q 038109           80 ENSLSVLSDLCRTLARLDKG----FPRKS------AYDTLIGRLCKLKKIDEALRVVDIMAEG--------GFGLS----  137 (324)
Q Consensus        80 ~~~~~~~~~a~~~~~~~~~~----~p~~~------~~~~li~~~~~~~~~~~a~~~~~~m~~~--------g~~~~----  137 (324)
                      ..+.|+.+.|...+.+....    .|+..      .|+.-.+.+.+..+++.|...+++..+.        ...|+    
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            35789999999999988542    24332      3555555555444888888777765442        12233    


Q ss_pred             -hhhHHHHHHHHHccCcHH---HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHH
Q 038109          138 -AITFHPILSVLTRGKRME---EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDA  213 (324)
Q Consensus       138 -~~~~~~li~~~~~~~~~~---~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  213 (324)
                       ..++..++.++...+..+   +|.++++.+..... -...++-.-+..+.+.++.+.+.+++.+|...-.. ....+..
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~-~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~-~e~~~~~  160 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEYG-NKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDH-SESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCC-CCcHHHHHHHHHHhccCChhHHHHHHHHHHHhccc-ccchHHH
Confidence             246677778888777654   45556666654432 23555656677777899999999999999986221 3344555


Q ss_pred             HHHHH---HhcCCHHHHHHHHHHHHHCCCCcCHH-HHH-HHHH---HHHhcCC------HHHHHHHHHHhCC-CCCCcCH
Q 038109          214 LVLGA---CRAGRVEEAFVLLRRMVDDGQSVLYS-TYA-HVMG---ALLRLGY------YAQAVKFVMVCGG-RDIKLDT  278 (324)
Q Consensus       214 li~~~---~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~-~li~---~~~~~g~------~~~a~~~~~~~~~-~~~~~~~  278 (324)
                      ++..+   ... ....|...+..+....+.|... ... .++.   ...+.++      ++....++....+ .+.+.+.
T Consensus       161 ~l~~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~  239 (278)
T PF08631_consen  161 ILHHIKQLAEK-SPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSA  239 (278)
T ss_pred             HHHHHHHHHhh-CcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCH
Confidence            55444   443 3456777777776665556553 111 1111   1112111      4444444443222 1222333


Q ss_pred             hHHHHH-------HHHHhCcCCHHHHHHHHHH
Q 038109          279 ELFGSL-------GSKLIGLERFNEANFILKE  303 (324)
Q Consensus       279 ~~~~~l-------~~~~~~~g~~~~a~~~~~~  303 (324)
                      .+-..+       ...+.+.+++++|.+.|+-
T Consensus       240 ~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~  271 (278)
T PF08631_consen  240 EAASAIHTLLWNKGKKHYKAKNYDEAIEWYEL  271 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            332222       2345567999999999874

It is also involved in sporulation [].

>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=93.85  E-value=1.9  Score=31.66  Aligned_cols=52  Identities=19%  Similarity=0.353  Sum_probs=27.1

Q ss_pred             HccCcHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          149 TRGKRMEEAWGLMEVMKEIRVS-PDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       149 ~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      .+.++.+++..++.-+.-.... |...++..  ..+...|+|.+|..+|+++...
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~--~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDG--WLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHH--HHHHHhCCHHHHHHHHHHHhcc
Confidence            3455666666666666553211 12222322  2344666666666666666554

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.83  E-value=0.83  Score=37.29  Aligned_cols=98  Identities=14%  Similarity=0.081  Sum_probs=52.9

Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC---CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 038109          170 SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK---LGAD--ARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYS  244 (324)
Q Consensus       170 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  244 (324)
                      +..+.+...++..-....+++++...+-+++..-   ..|+  .++|-.++    -.=++++++.++..=.+.|+-||..
T Consensus        61 ~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll----lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   61 PVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL----LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH----HccChHHHHHHHhCcchhccccchh
Confidence            3344455555555555566666666665555431   1111  22222222    2224556666666656666667777


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          245 TYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      +++.+|+.+.+.+++.+|.++...|..
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            777777777777776666666554443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=93.77  E-value=5.4  Score=36.61  Aligned_cols=254  Identities=13%  Similarity=0.094  Sum_probs=131.4

Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHhc-CCCCCchhhHhhhhchhhhhhHHHHHHHHHHHh--------------------
Q 038109           39 DDLVNAAGHERDLETVRYLLNKRARD-CCFNTANTFNFITNTENSLSVLSDLCRTLARLD--------------------   97 (324)
Q Consensus        39 ~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------------------   97 (324)
                      ...|....+.|++-.+.++++.--.. .-..-...|+.+...+.....+++|.+.+..-.                    
T Consensus       764 DLAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~e~~~ecly~le~f~~LE~  843 (1189)
T KOG2041|consen  764 DLAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDTENQIECLYRLELFGELEV  843 (1189)
T ss_pred             hhhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHhHHHHHHHHHhhhhHHH
Confidence            34556666777776666665431100 001112356666666666666666666655321                    


Q ss_pred             --cCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHH
Q 038109           98 --KGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLT  174 (324)
Q Consensus        98 --~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~  174 (324)
                        ...| +....-.+.+++.+.|.-++|.+.|-+-.   . |     -..+..|...+++.+|.++-++..-    |.+.
T Consensus       844 la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s---~-p-----kaAv~tCv~LnQW~~avelaq~~~l----~qv~  910 (1189)
T KOG2041|consen  844 LARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRS---L-P-----KAAVHTCVELNQWGEAVELAQRFQL----PQVQ  910 (1189)
T ss_pred             HHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhcc---C-c-----HHHHHHHHHHHHHHHHHHHHHhccc----hhHH
Confidence              1123 23345556677777777777766653322   1 1     2234566666777777666554321    1211


Q ss_pred             HH--------------HHHHHHHHhcCChhhHHHHHHHHHHC----CCCCCHH----HHHH-HHHHHH----------hc
Q 038109          175 AY--------------NYLLTAYCFKGNLTATSGVLKKMEEE----KLGADAR----TYDA-LVLGAC----------RA  221 (324)
Q Consensus       175 ~~--------------~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~----~~~~-li~~~~----------~~  221 (324)
                      |.              .--|..+.+.|.+-+|-+++.+|.+.    +.+|-..    ...+ |+.-+.          ..
T Consensus       911 tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~  990 (1189)
T KOG2041|consen  911 TLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKH  990 (1189)
T ss_pred             HHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence            11              12345566777777777777777643    3332211    1111 111111          34


Q ss_pred             CCHHHHHHHHHHHHHC---CCC------cCHHHHHHHHHHHHhcCCHHHHHHHHHHhCC-CCCCcCHhHHHHHHHHHhCc
Q 038109          222 GRVEEAFVLLRRMVDD---GQS------VLYSTYAHVMGALLRLGYYAQAVKFVMVCGG-RDIKLDTELFGSLGSKLIGL  291 (324)
Q Consensus       222 g~~~~a~~~~~~m~~~---~~~------p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~  291 (324)
                      |..++|..+++.-.-.   .+.      .....|-.|.+--...|.++.|...--.+.. ..+-|....|+.+.-+-+..
T Consensus       991 g~~~dat~lles~~l~~~~ri~~n~WrgAEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~ 1070 (1189)
T KOG2041|consen  991 GFLEDATDLLESGLLAEQSRILENTWRGAEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAV 1070 (1189)
T ss_pred             CcchhhhhhhhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhh
Confidence            6666777655543211   110      1234455555666677888888775444444 24567778887776655554


Q ss_pred             CCHHHHHHHHHHHH
Q 038109          292 ERFNEANFILKEMN  305 (324)
Q Consensus       292 g~~~~a~~~~~~m~  305 (324)
                      ..+.-..+.|-++.
T Consensus      1071 raFGtCSKAfmkLe 1084 (1189)
T KOG2041|consen 1071 RAFGTCSKAFMKLE 1084 (1189)
T ss_pred             hhhhhhHHHHHHHH
Confidence            44444444444443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.75  E-value=2.2  Score=34.95  Aligned_cols=96  Identities=15%  Similarity=0.181  Sum_probs=53.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCC---CCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGG---FGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLT  181 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  181 (324)
                      +...++..-....++++++..+-+++...   ..|+.. -..+++.+.+ -++++++.++..=.+.|+-||..+++.+|+
T Consensus        66 ~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-~~~~irlllk-y~pq~~i~~l~npIqYGiF~dqf~~c~l~D  143 (418)
T KOG4570|consen   66 TVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-IHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQFTFCLLMD  143 (418)
T ss_pred             ehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-HHHHHHHHHc-cChHHHHHHHhCcchhccccchhhHHHHHH
Confidence            44445544455566666666666665431   122222 2223333333 344566666666666676677777777777


Q ss_pred             HHHhcCChhhHHHHHHHHHHC
Q 038109          182 AYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       182 ~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      .+.+.+++.+|.++.-.|...
T Consensus       144 ~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  144 SFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHhcccHHHHHHHHHHHHHH
Confidence            777777776666666655543

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

Probab=93.69  E-value=0.18  Score=26.44  Aligned_cols=24  Identities=8%  Similarity=0.038  Sum_probs=14.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHH
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIM  129 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m  129 (324)
                      |+.|...|.+.|++++|+++|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            556666666666666666666663

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

Probab=93.67  E-value=0.21  Score=26.18  Aligned_cols=26  Identities=15%  Similarity=0.103  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          210 TYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       210 ~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      +|+.|...|.+.|++++|+++|++..
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            35566677777777777777776643

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.61  E-value=7.7  Score=37.85  Aligned_cols=55  Identities=15%  Similarity=0.123  Sum_probs=26.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhC
Q 038109          215 VLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       215 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (324)
                      +.+|..+|+|++|+.+..++.....+ -..+--.|+.-+...++.-+|-++..+..
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~~de-~~~~a~~L~s~L~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEGKDE-LVILAEELVSRLVEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCCHHH-HHHHHHHHHHHHHHcccchhHHHHHHHHh
Confidence            45555666666666665555321100 01111334555556666655555554443

>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=93.48  E-value=2.2  Score=31.29  Aligned_cols=111  Identities=12%  Similarity=0.062  Sum_probs=61.3

Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 038109          181 TAYCFKGNLTATSGVLKKMEEEKLG-ADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYY  259 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  259 (324)
                      ..-.+.++.+++..+++.+.-..+. |...++..  ..+.+.|++.+|.++|+++...+  |....-..|+..|.... -
T Consensus        18 ~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~--~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~-~   92 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALRVLRPEFPELDLFDG--WLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYAL-G   92 (160)
T ss_pred             HHHHccCChHHHHHHHHHHHHhCCCchHHHHHHH--HHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHc-C
Confidence            3445677899999999988875332 12333333  34678899999999999987553  33333333444433322 2


Q ss_pred             HHHHHHH-HHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHH
Q 038109          260 AQAVKFV-MVCGGRDIKLDTELFGSLGSKLIGLERFNEANF  299 (324)
Q Consensus       260 ~~a~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  299 (324)
                      +-.++.+ +++.+.+..|+..   .+++.+....+...|..
T Consensus        93 D~~Wr~~A~evle~~~d~~a~---~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   93 DPSWRRYADEVLESGADPDAR---ALVRALLARADLEPAHE  130 (160)
T ss_pred             ChHHHHHHHHHHhcCCChHHH---HHHHHHHHhccccchhh
Confidence            2233333 3445544333332   35555555555444443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.37  E-value=4.8  Score=39.14  Aligned_cols=116  Identities=16%  Similarity=0.103  Sum_probs=70.7

Q ss_pred             CCChhhHHHHH----HHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHH-
Q 038109          135 GLSAITFHPIL----SVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADAR-  209 (324)
Q Consensus       135 ~~~~~~~~~li----~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-  209 (324)
                      .|+...+..+.    ..+.....+++|--.|+..-+         ..--+.+|..+|+|.+|+.+-.++...   -|.. 
T Consensus       932 ~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~  999 (1265)
T KOG1920|consen  932 KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEG---KDELV  999 (1265)
T ss_pred             ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCC---HHHHH
Confidence            34554444433    444556677777666665432         123567788888888888887776542   1222 


Q ss_pred             -HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhC
Q 038109          210 -TYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       210 -~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (324)
                       +--.|+.-+...++.-+|-++..+....   |.     ..+..+++...+++|.++.....
T Consensus      1000 ~~a~~L~s~L~e~~kh~eAa~il~e~~sd---~~-----~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1000 ILAEELVSRLVEQRKHYEAAKILLEYLSD---PE-----EAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHHHHHHcccchhHHHHHHHHhcC---HH-----HHHHHHhhHhHHHHHHHHHHhcc
Confidence             2356778888888888888888776542   22     23344556667777777654443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=93.32  E-value=3.7  Score=33.39  Aligned_cols=181  Identities=14%  Similarity=0.068  Sum_probs=118.5

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 038109          109 LIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGN  188 (324)
Q Consensus       109 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  188 (324)
                      -+++|.....-+...+.+++....   +....+.. .......|+..+|...|+........ +...--.+..+|...|+
T Consensus       109 pVdgF~G~qPesqlr~~ld~~~~~---~~e~~~~~-~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~  183 (304)
T COG3118         109 PVDGFQGAQPESQLRQFLDKVLPA---EEEEALAE-AKELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGD  183 (304)
T ss_pred             CccccCCCCcHHHHHHHHHHhcCh---HHHHHHHH-hhhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCC
Confidence            345555544555555555555433   23333322 34466789999999999988776433 45666778899999999


Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038109          189 LTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSV-LYSTYAHVMGALLRLGYYAQAVKFVM  267 (324)
Q Consensus       189 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~  267 (324)
                      .+.|..++..+...--.........-|..+.+.....+...+-++.-..   | |...-..+...+...|+.+.|.+.+-
T Consensus       184 ~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll  260 (304)
T COG3118         184 VEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLL  260 (304)
T ss_pred             hHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999998876533323333334456666666666666666666543   4 55555667788999999999988765


Q ss_pred             HhCC--CCCCcCHhHHHHHHHHHhCcCCHHHHH
Q 038109          268 VCGG--RDIKLDTELFGSLGSKLIGLERFNEAN  298 (324)
Q Consensus       268 ~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~a~  298 (324)
                      .+.+  .|.. |...-..+++.+.-.|.-+.+.
T Consensus       261 ~~l~~d~~~~-d~~~Rk~lle~f~~~g~~Dp~~  292 (304)
T COG3118         261 ALLRRDRGFE-DGEARKTLLELFEAFGPADPLV  292 (304)
T ss_pred             HHHHhccccc-CcHHHHHHHHHHHhcCCCCHHH
Confidence            5543  3444 6666677888887777554443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.23  E-value=2.6  Score=31.37  Aligned_cols=128  Identities=16%  Similarity=0.176  Sum_probs=61.9

Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH---HHHHhcCCh
Q 038109          114 CKLKKIDEALRVVDIMAEGGFGLS-AITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLL---TAYCFKGNL  189 (324)
Q Consensus       114 ~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li---~~~~~~~~~  189 (324)
                      .+.+..++|+.-|..+.+.|...= .-.-.-........|+...|...|++.-+....|...-=.+-+   ..+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            345556666666666666544310 0001111123345566666666666665544333322111111   123345666


Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 038109          190 TATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSV  241 (324)
Q Consensus       190 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  241 (324)
                      +++....+-+...+-+.-...-..|--+-.+.|++.+|.+.|..+......|
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            6666555555444333334444555555556666666666666665543333

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=92.73  E-value=6.6  Score=34.67  Aligned_cols=179  Identities=13%  Similarity=0.047  Sum_probs=109.0

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038109          102 RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLT  181 (324)
Q Consensus       102 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  181 (324)
                      |....-+++..+..+..+.-++.+-.+|...|-  +...|..+++.|..+ ..+.-..+|+++.+..+. |++.-.-+..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e--~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGE--SKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhcc--hHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHH
Confidence            445566777777777777777777777777543  556677777777776 556667777777776553 4444444444


Q ss_pred             HHHhcCChhhHHHHHHHHHHCCCCC-----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHHh
Q 038109          182 AYCFKGNLTATSGVLKKMEEEKLGA-----DARTYDALVLGACRAGRVEEAFVLLRRMVDD-GQSVLYSTYAHVMGALLR  255 (324)
Q Consensus       182 ~~~~~~~~~~a~~~~~~m~~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~  255 (324)
                      -|.+ ++.+.+...|.+....-++.     -...|.-++..  -..+.+..+.+...+.+. |..--...+.-+-.-|..
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            4444 77777777777766542221     11234444321  145566666666666543 443444555555566777


Q ss_pred             cCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHH
Q 038109          256 LGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKL  288 (324)
Q Consensus       256 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  288 (324)
                      ..++++|.+++..+.+..- .|...-..++..+
T Consensus       218 ~eN~~eai~Ilk~il~~d~-k~~~ar~~~i~~l  249 (711)
T COG1747         218 NENWTEAIRILKHILEHDE-KDVWARKEIIENL  249 (711)
T ss_pred             ccCHHHHHHHHHHHhhhcc-hhhhHHHHHHHHH
Confidence            7778888888777776642 3555555565544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.72  E-value=1.4  Score=29.04  Aligned_cols=49  Identities=10%  Similarity=0.055  Sum_probs=32.0

Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 038109          153 RMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEE  201 (324)
Q Consensus       153 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  201 (324)
                      +.-++.+-++.+....+.|+.....+.+++|-+.+++..|.++|+..+.
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3445555666666666667777777777777777777777777766653

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.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.59  E-value=3.6  Score=31.28  Aligned_cols=130  Identities=12%  Similarity=0.043  Sum_probs=85.2

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHH--HHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHH--
Q 038109          172 DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDA--LVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYA--  247 (324)
Q Consensus       172 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~--li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~--  247 (324)
                      -...|..++.... .+.. +.....+.+......-...++.+  +...+...|++++|..-++.....   |....+.  
T Consensus        53 AS~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l  127 (207)
T COG2976          53 ASAQYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ---TKDENLKAL  127 (207)
T ss_pred             HHHHHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHH
Confidence            3455666666543 3333 55555666666532212222332  345678899999999998876643   3223333  


Q ss_pred             ---HHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          248 ---HVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       248 ---~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                         .|.+.....|.+++|+..++...+.++.  ......-.+.+...|+-++|..-|++-.+.+
T Consensus       128 ~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         128 AALRLARVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence               3456677889999999999888776543  3334445678889999999999999988887

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.54  E-value=3.4  Score=30.83  Aligned_cols=139  Identities=12%  Similarity=0.066  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHH-HHHH--
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADART-YDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYST-YAHV--  249 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-~~~l--  249 (324)
                      ..|..-+.. .+.+..++|+.-|..+.+.|..--... --.......+.|+...|...|.+.-...-.|-..- ...|  
T Consensus        60 d~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlra  138 (221)
T COG4649          60 DAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRA  138 (221)
T ss_pred             HHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHH
Confidence            334433332 344555666666666665544321111 11122334455666666666666554433332220 0111  


Q ss_pred             HHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhH
Q 038109          250 MGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGF  313 (324)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  313 (324)
                      .-.+...|-++....-.+-+...+-+.....-..|.-+-.+.|++.+|.+.|..+.+..-.|.+
T Consensus       139 a~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~aprn  202 (221)
T COG4649         139 AYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPRN  202 (221)
T ss_pred             HHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcHH
Confidence            1123455666666655555544443333333444545555666666666666666654444433

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=92.46  E-value=2.8  Score=29.63  Aligned_cols=89  Identities=16%  Similarity=0.022  Sum_probs=64.9

Q ss_pred             chhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCCChhhHHHH---HHHHHccCc
Q 038109           79 TENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEG-GFGLSAITFHPI---LSVLTRGKR  153 (324)
Q Consensus        79 ~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~l---i~~~~~~~~  153 (324)
                      +....|+.+.|.+.|.+.....| +..+||.=..++--.|+.++|+.=+++..+- |-. +...+.+.   ...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhCc
Confidence            45778888999988888877666 5668998889999999999999888887763 322 33323222   234666788


Q ss_pred             HHHHHHHHHHHHhCC
Q 038109          154 MEEAWGLMEVMKEIR  168 (324)
Q Consensus       154 ~~~a~~~~~~m~~~~  168 (324)
                      .+.|..=|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            888888888777766

>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=92.44  E-value=2  Score=32.81  Aligned_cols=22  Identities=18%  Similarity=0.141  Sum_probs=9.7

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHH
Q 038109          241 VLYSTYAHVMGALLRLGYYAQA  262 (324)
Q Consensus       241 p~~~~~~~li~~~~~~g~~~~a  262 (324)
                      +|+..+..|...+.+.|+++.|
T Consensus       176 ~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  176 FNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             CCHHHHHHHHHHHHHhcchhhh
Confidence            3444444444444444444443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=92.41  E-value=6.8  Score=34.02  Aligned_cols=259  Identities=8%  Similarity=0.063  Sum_probs=152.5

Q ss_pred             CCCccchhHHHHHHHHhhhcCCC-CCCC-HHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhc--hhhh
Q 038109            8 PTKFLIPQSVLVTRSFTKSGAFP-DEPT-SAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNT--ENSL   83 (324)
Q Consensus         8 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~--~~~~   83 (324)
                      ...+.+.+|-.++.........+ .... ...-+.+|++|... +.+.....+....+.  .| ...|-.+..+  +-+.
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~~   92 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHHh
Confidence            34566788888888887766432 2222 23356677777654 566666666666553  22 2233344333  3567


Q ss_pred             hhHHHHHHHHHHHhcCC-----C--CHH---------HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC----CChhhHHH
Q 038109           84 SVLSDLCRTLARLDKGF-----P--RKS---------AYDTLIGRLCKLKKIDEALRVVDIMAEGGFG----LSAITFHP  143 (324)
Q Consensus        84 ~~~~~a~~~~~~~~~~~-----p--~~~---------~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~----~~~~~~~~  143 (324)
                      +.++.|.+.+..-.+..     |  |..         -=+..++.+...|++.++..+++++...=++    .+..+|+.
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~  172 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDR  172 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHH
Confidence            88888888887664331     1  111         1256788999999999999999998865333    67888888


Q ss_pred             HHHHHHccC---------------cHHHHHHHHHHHHhC------CCCCCHHHHHHHHHHHHhcC--ChhhHHHHHHHHH
Q 038109          144 ILSVLTRGK---------------RMEEAWGLMEVMKEI------RVSPDLTAYNYLLTAYCFKG--NLTATSGVLKKME  200 (324)
Q Consensus       144 li~~~~~~~---------------~~~~a~~~~~~m~~~------~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~  200 (324)
                      ++-.++++=               -++.+.-..++|...      .+.|.......++....-..  +..--+++++.-.
T Consensus       173 ~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We  252 (549)
T PF07079_consen  173 AVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWE  252 (549)
T ss_pred             HHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHH
Confidence            665554431               123333333333322      23455555555555544332  2223334444444


Q ss_pred             HCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc----CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          201 EEKLGADAR-TYDALVLGACRAGRVEEAFVLLRRMVDDGQSV----LYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       201 ~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      ..-+.|+-. ....++..+.+  +.+++..+.+.+....+.+    -..+|..++....+.++...|.+.+..+...
T Consensus       253 ~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l  327 (549)
T PF07079_consen  253 NFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL  327 (549)
T ss_pred             hhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc
Confidence            444556533 23344444444  5666666666554433222    2467888999999999999999888776553

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.27  E-value=1.1  Score=29.94  Aligned_cols=43  Identities=12%  Similarity=-0.008  Sum_probs=18.0

Q ss_pred             HHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHH
Q 038109           54 VRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARL   96 (324)
Q Consensus        54 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   96 (324)
                      ..+-++.+....+.|++.+..+.+++|.+..++..|.++|+.+
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~i   71 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGI   71 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            3333444444444444444444444444444444444444444

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 ....

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=92.22  E-value=4.3  Score=31.24  Aligned_cols=222  Identities=18%  Similarity=0.047  Sum_probs=149.5

Q ss_pred             CCCHHHHHHHHHHHHhcCCC-CCchhhHhhhhchhhhhhHHHHHHHHHHHhc--CC-CCHHHHHHHHHHHHccCCHHHHH
Q 038109           48 ERDLETVRYLLNKRARDCCF-NTANTFNFITNTENSLSVLSDLCRTLARLDK--GF-PRKSAYDTLIGRLCKLKKIDEAL  123 (324)
Q Consensus        48 ~~~~~~a~~~~~~m~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~-p~~~~~~~li~~~~~~~~~~~a~  123 (324)
                      .+....+...+......... ............+...+.+..+...+.....  .. .....+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            35556666666666554221 1245666777777888888888888777754  23 34557777778888888889999


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHH-HHHccCcHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 038109          124 RVVDIMAEGGFGLSAITFHPILS-VLTRGKRMEEAWGLMEVMKEIRV--SPDLTAYNYLLTAYCFKGNLTATSGVLKKME  200 (324)
Q Consensus       124 ~~~~~m~~~g~~~~~~~~~~li~-~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  200 (324)
                      +.+.........+ ......... .+...|+++.+...+........  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            9998888754433 122222333 67888999999999998855321  1234444455555777889999999999888


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          201 EEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL-YSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       201 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      ..........+..+...+...++.+.+...+.......  |+ ...+..+...+...+..+.+...+......
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         195 KLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELD--PDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             hhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhC--cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            76332246777888888888889999999998887643  33 334444444444677788888888777664

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.05  E-value=2.3  Score=28.45  Aligned_cols=44  Identities=14%  Similarity=-0.026  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhC
Q 038109          227 AFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       227 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (324)
                      ..+-+..+....+.|++....+.+++|-+.+++..|.++++..+
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33444444444455555555555555555555555555555443

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 ....

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.95  E-value=0.33  Score=25.12  Aligned_cols=22  Identities=32%  Similarity=0.368  Sum_probs=12.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHH
Q 038109          207 DARTYDALVLGACRAGRVEEAF  228 (324)
Q Consensus       207 ~~~~~~~li~~~~~~g~~~~a~  228 (324)
                      +...|+.+...|...|++++|.
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            4555555555555555555553

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.78  E-value=6.4  Score=35.47  Aligned_cols=97  Identities=18%  Similarity=0.171  Sum_probs=46.6

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHH
Q 038109          115 KLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSG  194 (324)
Q Consensus       115 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  194 (324)
                      +.|+++.|.++..+..      +..-|..|-++..+.+++..|.+.|.....         |..|+-.+...|+-+....
T Consensus       649 ~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~  713 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAV  713 (794)
T ss_pred             hcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHH
Confidence            4455555555543332      334455555555555666555555554432         2334444445555554444


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038109          195 VLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLR  232 (324)
Q Consensus       195 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  232 (324)
                      +-....+.|..      |.-..+|...|+++++.+++.
T Consensus       714 la~~~~~~g~~------N~AF~~~~l~g~~~~C~~lLi  745 (794)
T KOG0276|consen  714 LASLAKKQGKN------NLAFLAYFLSGDYEECLELLI  745 (794)
T ss_pred             HHHHHHhhccc------chHHHHHHHcCCHHHHHHHHH
Confidence            44444444432      122233445555555555543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.62  E-value=0.21  Score=25.90  Aligned_cols=26  Identities=23%  Similarity=0.304  Sum_probs=16.9

Q ss_pred             cCCC-CHHHHHHHHHHHHccCCHHHHH
Q 038109           98 KGFP-RKSAYDTLIGRLCKLKKIDEAL  123 (324)
Q Consensus        98 ~~~p-~~~~~~~li~~~~~~~~~~~a~  123 (324)
                      +..| +..+|+.+...|...|++++|+
T Consensus         7 e~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    7 ELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3345 4557777777777777777664

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.55  E-value=6  Score=31.55  Aligned_cols=185  Identities=10%  Similarity=0.060  Sum_probs=108.6

Q ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCc---hhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHH--HHH
Q 038109           33 PTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTA---NTFNFITNTENSLSVLSDLCRTLARLDKGFPRKS--AYD  107 (324)
Q Consensus        33 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~--~~~  107 (324)
                      |-...|+.-+. -.+.|++++|.+.|+.+... .+-++   .+--.++-++-+.++++.|...+++..+.+|+..  .|.
T Consensus        33 p~~~LY~~g~~-~L~~gn~~~A~~~fe~l~~~-~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~  110 (254)
T COG4105          33 PASELYNEGLT-ELQKGNYEEAIKYFEALDSR-HPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYA  110 (254)
T ss_pred             CHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHc-CCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHH
Confidence            33445665554 56889999999999999865 23333   4555667788899999999999999988776433  566


Q ss_pred             HHHHHHHcc-------CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 038109          108 TLIGRLCKL-------KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLL  180 (324)
Q Consensus       108 ~li~~~~~~-------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  180 (324)
                      ..|.+++..       +|...+.+.+..+.+            ++.-|=.+.=...|..-...+...    =...=..+.
T Consensus       111 ~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~------------~i~ryPnS~Ya~dA~~~i~~~~d~----LA~~Em~Ia  174 (254)
T COG4105         111 YYLKGLSYFFQIDDVTRDQSAARAAFAAFKE------------LVQRYPNSRYAPDAKARIVKLNDA----LAGHEMAIA  174 (254)
T ss_pred             HHHHHHHHhccCCccccCHHHHHHHHHHHHH------------HHHHCCCCcchhhHHHHHHHHHHH----HHHHHHHHH
Confidence            666665532       233333333333221            111111111112222222211110    001112456


Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          181 TAYCFKGNLTATSGVLKKMEEEKLGAD---ARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      +.|.+.|.+..|..-+++|.+. ..-+   ....-.+..+|...|-.++|.+.-+-+..
T Consensus       175 ryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         175 RYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            7788888888888888888876 2212   23455566778888888888777665554

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.45  E-value=11  Score=34.43  Aligned_cols=185  Identities=12%  Similarity=-0.010  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHH--HH-HHccCcHHHHHHHHHHHHh-------CCCCCCHHHHHHHHHHHHhcC-
Q 038109          119 IDEALRVVDIMAEGGFGLSAITFHPIL--SV-LTRGKRMEEAWGLMEVMKE-------IRVSPDLTAYNYLLTAYCFKG-  187 (324)
Q Consensus       119 ~~~a~~~~~~m~~~g~~~~~~~~~~li--~~-~~~~~~~~~a~~~~~~m~~-------~~~~~~~~~~~~li~~~~~~~-  187 (324)
                      ...|...++...+.|.. .......++  .+ ++...+.+.|..+++...+       .|   +.....-+..+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g~~-~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS-EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcch-HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            45566666666665532 111111111  12 3355667777777776655       33   2223444555555532 


Q ss_pred             ----ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH--hcCCHH
Q 038109          188 ----NLTATSGVLKKMEEEKLGADARTYDALVLGACR-AGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALL--RLGYYA  260 (324)
Q Consensus       188 ----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~--~~g~~~  260 (324)
                          +.+.|..++....+.|.. +....-..+.-... ..+...|.++|...-+.|..+ ...+.+++-...  ...+..
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~-A~~~la~~y~~G~gv~r~~~  381 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHIL-AIYRLALCYELGLGVERNLE  381 (552)
T ss_pred             CccccHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChH-HHHHHHHHHHhCCCcCCCHH
Confidence                445577777666666543 33333222222222 234567777777766666522 222111111111  223566


Q ss_pred             HHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCch
Q 038109          261 QAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKM  311 (324)
Q Consensus       261 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  311 (324)
                      .|..++....+.| .|...--...+..+.. ++++.+.-.+..+.+.|...
T Consensus       382 ~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~  430 (552)
T KOG1550|consen  382 LAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEV  430 (552)
T ss_pred             HHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhH
Confidence            6777776666665 2222222222333333 55666655555555554443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=91.43  E-value=1.7  Score=28.76  Aligned_cols=48  Identities=15%  Similarity=-0.026  Sum_probs=32.8

Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhC
Q 038109          223 RVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       223 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (324)
                      +.-++.+-++.+......|++....+.+++|-+.+++..|.++++..+
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344555556666666677777777777777777777777777776655

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=91.40  E-value=4.1  Score=29.42  Aligned_cols=78  Identities=15%  Similarity=0.208  Sum_probs=35.2

Q ss_pred             HhhhhchhhhhhHHHHHHHHHHHhcCC-------CCHHHHHHHHHHHHccCC-HHHHHHHHHHHHhCCCCCChhhHHHHH
Q 038109           74 NFITNTENSLSVLSDLCRTLARLDKGF-------PRKSAYDTLIGRLCKLKK-IDEALRVVDIMAEGGFGLSAITFHPIL  145 (324)
Q Consensus        74 ~~l~~~~~~~~~~~~a~~~~~~~~~~~-------p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~g~~~~~~~~~~li  145 (324)
                      +.+++-....+++....++++.+....       .+...|++++.+..+... ---+..+|+-|.+.+.+++..-|..+|
T Consensus        43 N~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li  122 (145)
T PF13762_consen   43 NCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLI  122 (145)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            444444444555555555555442211       122244555555544433 233344444444444444555555555


Q ss_pred             HHHHcc
Q 038109          146 SVLTRG  151 (324)
Q Consensus       146 ~~~~~~  151 (324)
                      .++.+.
T Consensus       123 ~~~l~g  128 (145)
T PF13762_consen  123 KAALRG  128 (145)
T ss_pred             HHHHcC
Confidence            544443

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=91.01  E-value=2.5  Score=36.81  Aligned_cols=128  Identities=9%  Similarity=0.029  Sum_probs=85.5

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCC-CCHHHHHHHHHHHH
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRAR-DCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGF-PRKSAYDTLIGRLC  114 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~li~~~~  114 (324)
                      .-..-|.--...|++..|-+-+...++ ....|+...  .........|.++.+...+....+.. ....+-..+++...
T Consensus       291 ~~~~si~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~--l~~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~  368 (831)
T PRK15180        291 EITLSITKQLADGDIIAASQQLFAALRNQQQDPVLIQ--LRSVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLH  368 (831)
T ss_pred             HHHHHHHHHhhccCHHHHHHHHHHHHHhCCCCchhhH--HHHHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhh
Confidence            344445555667777766555444443 333344333  33445578899999988888776655 34557888899999


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC
Q 038109          115 KLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI  167 (324)
Q Consensus       115 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  167 (324)
                      +.|+++.|..+-.-|....+. +..+........-..|-++++...|+++...
T Consensus       369 ~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~  420 (831)
T PRK15180        369 GLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLL  420 (831)
T ss_pred             chhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhcc
Confidence            999999999998888876555 4444444444455567788888888887654

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=90.93  E-value=11  Score=33.42  Aligned_cols=164  Identities=12%  Similarity=0.019  Sum_probs=108.3

Q ss_pred             CChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 038109          136 LSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV  215 (324)
Q Consensus       136 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  215 (324)
                      .|....-+++..++.+....-++.+-.+|...|  .+...|-.++.+|... ..++-..+|+++.+..+. |++.-..|.
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHH
Confidence            355556677788888888888888888888765  4667788888888877 667777888888877665 555555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCc------CHHHHHHHHHHHHhcCCHHHHHHHHHHhCC-CCCCcCHhHHHHHHHHH
Q 038109          216 LGACRAGRVEEAFVLLRRMVDDGQSV------LYSTYAHVMGALLRLGYYAQAVKFVMVCGG-RDIKLDTELFGSLGSKL  288 (324)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~m~~~~~~p------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~  288 (324)
                      .-|-+ ++.+.+..+|.+....=+ |      -...|.-+....  ..+.+....+...+.. .|...-...+.-+-.-|
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~yrfI-~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALYRFI-PRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHHHhc-chhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            55555 777788888877664321 2      122344444321  3566777776666544 34444556666677778


Q ss_pred             hCcCCHHHHHHHHHHHHhC
Q 038109          289 IGLERFNEANFILKEMNKR  307 (324)
Q Consensus       289 ~~~g~~~~a~~~~~~m~~~  307 (324)
                      ....++++|++++..+.+.
T Consensus       216 s~~eN~~eai~Ilk~il~~  234 (711)
T COG1747         216 SENENWTEAIRILKHILEH  234 (711)
T ss_pred             ccccCHHHHHHHHHHHhhh
Confidence            8888888888888865543

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.89  E-value=3.5  Score=37.04  Aligned_cols=133  Identities=16%  Similarity=0.135  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      ..+.+++-+.+.|-.++|+++-         +|..-   -.....+.|+++.|.++..+.      .+..-|..|.++..
T Consensus       616 ~rt~va~Fle~~g~~e~AL~~s---------~D~d~---rFelal~lgrl~iA~~la~e~------~s~~Kw~~Lg~~al  677 (794)
T KOG0276|consen  616 IRTKVAHFLESQGMKEQALELS---------TDPDQ---RFELALKLGRLDIAFDLAVEA------NSEVKWRQLGDAAL  677 (794)
T ss_pred             hhhhHHhHhhhccchHhhhhcC---------CChhh---hhhhhhhcCcHHHHHHHHHhh------cchHHHHHHHHHHh
Confidence            5667777788888888887652         23221   134455779999988877654      25667999999999


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVK  264 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  264 (324)
                      +.+++..|.+.|....+         |..|+-.+...|+.+....+-....+.|.      .|...-++...|+++++.+
T Consensus       678 ~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~------~N~AF~~~~l~g~~~~C~~  742 (794)
T KOG0276|consen  678 SAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK------NNLAFLAYFLSGDYEECLE  742 (794)
T ss_pred             hcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc------cchHHHHHHHcCCHHHHHH
Confidence            99999999998876543         66778888888888877777776666664      3444566778899999999


Q ss_pred             HHHHhC
Q 038109          265 FVMVCG  270 (324)
Q Consensus       265 ~~~~~~  270 (324)
                      ++..-.
T Consensus       743 lLi~t~  748 (794)
T KOG0276|consen  743 LLISTQ  748 (794)
T ss_pred             HHHhcC
Confidence            876543

>PRK11906 transcriptional regulator; Provisional

Probab=90.78  E-value=4.6  Score=35.17  Aligned_cols=81  Identities=7%  Similarity=-0.129  Sum_probs=35.5

Q ss_pred             hHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHH
Q 038109           85 VLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEV  163 (324)
Q Consensus        85 ~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  163 (324)
                      ...+|.++.+...+..| |..+...+..+..-.++++.|..+|++...-+.. ...+|...-..+.-.|+.++|.+.+++
T Consensus       319 ~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~  397 (458)
T PRK11906        319 AAQKALELLDYVSDITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDK  397 (458)
T ss_pred             HHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            34444444444444333 3334444444444445555555555555542211 122233333333344555555555555


Q ss_pred             HHh
Q 038109          164 MKE  166 (324)
Q Consensus       164 m~~  166 (324)
                      ..+
T Consensus       398 alr  400 (458)
T PRK11906        398 SLQ  400 (458)
T ss_pred             Hhc
Confidence            433

>PRK11906 transcriptional regulator; Provisional

Probab=90.28  E-value=12  Score=32.78  Aligned_cols=114  Identities=13%  Similarity=0.044  Sum_probs=53.0

Q ss_pred             hHHHHHHHHHHHh---cCCCCH-HHHHHHHHHHHc---------cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 038109           85 VLSDLCRTLARLD---KGFPRK-SAYDTLIGRLCK---------LKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRG  151 (324)
Q Consensus        85 ~~~~a~~~~~~~~---~~~p~~-~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  151 (324)
                      ..+.|..+|.+..   ...|+- ..|..+..++..         ..+..+|.++-++..+.+.. |......+.....-.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~-Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTV-DGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhh
Confidence            3556666677665   444532 233333222211         12334444555555544332 444444444444555


Q ss_pred             CcHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 038109          152 KRMEEAWGLMEVMKEIRVSPD-LTAYNYLLTAYCFKGNLTATSGVLKKMEE  201 (324)
Q Consensus       152 ~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~  201 (324)
                      ++.+.|...|++....+  || ..+|......+.-+|+.++|.+.+++..+
T Consensus       352 ~~~~~a~~~f~rA~~L~--Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alr  400 (458)
T PRK11906        352 GQAKVSHILFEQAKIHS--TDIASLYYYRALVHFHNEKIEEARICIDKSLQ  400 (458)
T ss_pred             cchhhHHHHHHHHhhcC--CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            55666666666555543  22 22333333333445566666665555443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.02  E-value=1.1  Score=24.00  Aligned_cols=27  Identities=30%  Similarity=0.353  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          209 RTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       209 ~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      .+++.|...|...|++++|..++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            455666666666666666666666554

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.87  E-value=4  Score=31.68  Aligned_cols=56  Identities=14%  Similarity=0.116  Sum_probs=29.2

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHH
Q 038109          109 LIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMK  165 (324)
Q Consensus       109 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  165 (324)
                      -++.+.+.+++.+|+...++-++.... |...-..+++.++-.|++++|..-++-.-
T Consensus         7 t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a   62 (273)
T COG4455           7 TISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAA   62 (273)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHh
Confidence            344555555555555555555444222 44445555556666666666555444433

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.83  E-value=17  Score=33.83  Aligned_cols=135  Identities=8%  Similarity=-0.029  Sum_probs=60.9

Q ss_pred             CCCCCCCHHHHH-----HHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhh---HHHHHHHHHHHhcC
Q 038109           28 AFPDEPTSAYYD-----DLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSV---LSDLCRTLARLDKG   99 (324)
Q Consensus        28 ~~~~~~~~~~~~-----~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~   99 (324)
                      ..|+..|..-|.     .+|+-+...+.+..|.++-..+-..-..- ...|......+.+..+   -+.+..+-+++...
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~  503 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK  503 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhccc
Confidence            445555555443     34555566667777777755553221111 3444444444444321   12222222222221


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC----CChhhHHHHHHHHHccCcHHHHHHHHHH
Q 038109          100 FPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFG----LSAITFHPILSVLTRGKRMEEAWGLMEV  163 (324)
Q Consensus       100 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~  163 (324)
                      .-...+|..+.+-....|+.+.|..+++.=...+..    .+..-+...+.-+...|+.+-...++-.
T Consensus       504 ~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllh  571 (829)
T KOG2280|consen  504 LTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLH  571 (829)
T ss_pred             CCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHH
Confidence            123335666666666667776666665432221110    1222334444444555555444444433

>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=89.67  E-value=0.18  Score=36.54  Aligned_cols=54  Identities=17%  Similarity=0.148  Sum_probs=27.9

Q ss_pred             HHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHH
Q 038109          144 ILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLK  197 (324)
Q Consensus       144 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  197 (324)
                      +++.+.+.+.+.....+++.+...+...+....+.++..|++.+..++..++++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            344455555555555555555554444445555555555555555555555544

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=89.58  E-value=0.81  Score=24.51  Aligned_cols=27  Identities=22%  Similarity=0.257  Sum_probs=19.8

Q ss_pred             hHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          279 ELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       279 ~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      .+++.|...|...|++++|..++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            467777788888888888888887764

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=89.50  E-value=4.3  Score=35.47  Aligned_cols=86  Identities=16%  Similarity=0.152  Sum_probs=43.1

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHH
Q 038109          218 ACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEA  297 (324)
Q Consensus       218 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  297 (324)
                      +...|+++.+...+...... +.....+..++++...+.|+++.|...-..|....+. ++.......-..-..|-+|++
T Consensus       333 ~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~  410 (831)
T PRK15180        333 FSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKS  410 (831)
T ss_pred             HHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHH
Confidence            34556666666555444321 2223345555666666666666666666655555444 333332222223334555666


Q ss_pred             HHHHHHHH
Q 038109          298 NFILKEMN  305 (324)
Q Consensus       298 ~~~~~~m~  305 (324)
                      .-.|+++.
T Consensus       411 ~~~wk~~~  418 (831)
T PRK15180        411 YHYWKRVL  418 (831)
T ss_pred             HHHHHHHh
Confidence            66555553

>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=89.41  E-value=0.14  Score=37.00  Aligned_cols=84  Identities=12%  Similarity=0.097  Sum_probs=46.0

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 038109          179 LLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGY  258 (324)
Q Consensus       179 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  258 (324)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++...  ...     ...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~--~yd-----~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN--NYD-----LDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS--SS------CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc--ccC-----HHHHHHHHHhcch
Confidence            455556666667777777776665544456666777777777766666666665111  111     1224455555555


Q ss_pred             HHHHHHHHHHh
Q 038109          259 YAQAVKFVMVC  269 (324)
Q Consensus       259 ~~~a~~~~~~~  269 (324)
                      +++|.-++..+
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            55555555433

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.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.84  E-value=4.7  Score=31.34  Aligned_cols=77  Identities=18%  Similarity=0.259  Sum_probs=51.8

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC--CCCCHHHHHHHHHH
Q 038109          140 TFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK--LGADARTYDALVLG  217 (324)
Q Consensus       140 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~  217 (324)
                      |.+..++.+.+.+.+.+++...++-.+.. +.|..+-..+++.+|-.|+|++|..-++-.-...  ..+...+|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            44556677778888888888877766653 2356666778888888888888887766554432  22345666666654

>PRK09687 putative lyase; Provisional

Probab=88.77  E-value=12  Score=30.73  Aligned_cols=121  Identities=7%  Similarity=-0.089  Sum_probs=54.2

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCcCHHHHHHHH
Q 038109          172 DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAG-RVEEAFVLLRRMVDDGQSVLYSTYAHVM  250 (324)
Q Consensus       172 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~li  250 (324)
                      +..+-...+.++++.++ +.+...+-.+.+.   +|...-...+.++.+.+ +.+.+...+..+...   ++..+-...+
T Consensus       141 ~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~D---~~~~VR~~A~  213 (280)
T PRK09687        141 STNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFALNSNKYDNPDIREAFVAMLQD---KNEEIRIEAI  213 (280)
T ss_pred             CHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcC---CChHHHHHHH
Confidence            44444455555555554 2344444444332   34344444444444432 123444444444432   3444444555


Q ss_pred             HHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          251 GALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       251 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .++.+.|+. .|...+-...+.+   +  .....+.++...|.. +|...+.++.+
T Consensus       214 ~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p~L~~l~~  262 (280)
T PRK09687        214 IGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLPVLDTLLY  262 (280)
T ss_pred             HHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHHHHHHHHh
Confidence            555555553 3333333333322   1  123455556556653 45555555554

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.73  E-value=11  Score=30.06  Aligned_cols=206  Identities=14%  Similarity=0.071  Sum_probs=113.4

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHc
Q 038109           36 AYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCK  115 (324)
Q Consensus        36 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~  115 (324)
                      ..|.....+|...+++++|...+.+..+. ..-+...|       .....++.|.-+..++.+..--...|+.....|..
T Consensus        32 s~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslf-------hAAKayEqaamLake~~klsEvvdl~eKAs~lY~E  103 (308)
T KOG1585|consen   32 SLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLF-------HAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVE  103 (308)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHH-------HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            45777777788889999999887776542 22222222       22333444545555554332223356666777777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC---C--CCCCHHHHHHHHHHHHhcCChh
Q 038109          116 LKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI---R--VSPDLTAYNYLLTAYCFKGNLT  190 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~--~~~~~~~~~~li~~~~~~~~~~  190 (324)
                      +|..+.|-..+++.-+.                ..+.++++|++++++....   +  ...-...+..+-+.+.+...++
T Consensus       104 ~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~  167 (308)
T KOG1585|consen  104 CGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFT  167 (308)
T ss_pred             hCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhh
Confidence            78777776666654431                1223445555555543221   1  0111233444555666666676


Q ss_pred             hHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCcCHHHHHHHHHHHHhcCCHHHH
Q 038109          191 ATSGVLKKMEEE----KLGAD-ARTYDALVLGACRAGRVEEAFVLLRRMVDDG---QSVLYSTYAHVMGALLRLGYYAQA  262 (324)
Q Consensus       191 ~a~~~~~~m~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~~~li~~~~~~g~~~~a  262 (324)
                      +|-..|.+-...    .--++ -..|...|-.+....++..|.+.++.-.+-+   -.-+..+...|+.+| ..|+.+++
T Consensus       168 Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~  246 (308)
T KOG1585|consen  168 EAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEI  246 (308)
T ss_pred             HHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHH
Confidence            665555432211    01112 2346666777777788888888888754332   123456677777775 45777777


Q ss_pred             HHHH
Q 038109          263 VKFV  266 (324)
Q Consensus       263 ~~~~  266 (324)
                      ..++
T Consensus       247 ~kvl  250 (308)
T KOG1585|consen  247 KKVL  250 (308)
T ss_pred             HHHH
Confidence            6654

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=88.49  E-value=8.4  Score=31.19  Aligned_cols=87  Identities=11%  Similarity=0.125  Sum_probs=45.8

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----
Q 038109          110 IGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF----  185 (324)
Q Consensus       110 i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----  185 (324)
                      |.+++..++|.+++...-+--+.--+....+...-|-.|.+.+.+..+.++-....+.--.-+...|.++...|..    
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLl  169 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLL  169 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHh
Confidence            5666677777766665544433221122233344444566666666666666655544222233345555555443    


Q ss_pred             -cCChhhHHHHH
Q 038109          186 -KGNLTATSGVL  196 (324)
Q Consensus       186 -~~~~~~a~~~~  196 (324)
                       .|.+++|+++.
T Consensus       170 PLG~~~eAeelv  181 (309)
T PF07163_consen  170 PLGHFSEAEELV  181 (309)
T ss_pred             ccccHHHHHHHH
Confidence             46666666555

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=88.05  E-value=16  Score=31.41  Aligned_cols=88  Identities=9%  Similarity=-0.035  Sum_probs=47.4

Q ss_pred             HHccCcHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 038109          148 LTRGKRMEEAWGLMEVMKEIR---VSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRV  224 (324)
Q Consensus       148 ~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  224 (324)
                      ..+.|.+..|.+.+.+.+...   ..|+...|-.......+.|+.++|+.--++..+.+.. -...|..-..++.-.++|
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~s-yikall~ra~c~l~le~~  337 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSS-YIKALLRRANCHLALEKW  337 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHH-HHHHHHHHHHHHHHHHHH
Confidence            345666677777776665542   3445555655556666667777666665555443111 112222223344445666


Q ss_pred             HHHHHHHHHHHH
Q 038109          225 EEAFVLLRRMVD  236 (324)
Q Consensus       225 ~~a~~~~~~m~~  236 (324)
                      ++|.+-|+...+
T Consensus       338 e~AV~d~~~a~q  349 (486)
T KOG0550|consen  338 EEAVEDYEKAMQ  349 (486)
T ss_pred             HHHHHHHHHHHh
Confidence            666666665544

>PHA02875 ankyrin repeat protein; Provisional

Probab=87.79  E-value=15  Score=32.12  Aligned_cols=13  Identities=0%  Similarity=-0.059  Sum_probs=5.7

Q ss_pred             HHHccCCHHHHHH
Q 038109          112 RLCKLKKIDEALR  124 (324)
Q Consensus       112 ~~~~~~~~~~a~~  124 (324)
                      ..+..|+.+.+..
T Consensus        74 ~A~~~g~~~~v~~   86 (413)
T PHA02875         74 DAVEEGDVKAVEE   86 (413)
T ss_pred             HHHHCCCHHHHHH
Confidence            3344455544333

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=87.78  E-value=9.1  Score=29.41  Aligned_cols=81  Identities=16%  Similarity=0.031  Sum_probs=57.2

Q ss_pred             HHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH---CCCCCCHHHHHHHHHHHHhcC
Q 038109          146 SVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEE---EKLGADARTYDALVLGACRAG  222 (324)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~~~~~li~~~~~~g  222 (324)
                      -.+.+.|+ +.|.+.|-.+...+.--++.....+...|. ..+.+++..++....+   .+-.+|+..+.+|++.+.+.|
T Consensus       115 y~Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~  192 (203)
T PF11207_consen  115 YHWSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLK  192 (203)
T ss_pred             HHhhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhc
Confidence            34555565 567778888877775556666555555555 6678888888776654   344678888889999998888


Q ss_pred             CHHHHH
Q 038109          223 RVEEAF  228 (324)
Q Consensus       223 ~~~~a~  228 (324)
                      +.+.|.
T Consensus       193 ~~e~AY  198 (203)
T PF11207_consen  193 NYEQAY  198 (203)
T ss_pred             chhhhh
Confidence            888875

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=87.70  E-value=1  Score=24.98  Aligned_cols=29  Identities=17%  Similarity=0.218  Sum_probs=23.7

Q ss_pred             HHHHHHhCcCCHHHHHHHHHHHHhCCCch
Q 038109          283 SLGSKLIGLERFNEANFILKEMNKRDLKM  311 (324)
Q Consensus       283 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  311 (324)
                      .+..+|...|+.+.|.++++++...|-.+
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~~~~~   32 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEEGDEA   32 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCHH
Confidence            46788999999999999999998665443

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=87.53  E-value=1.5  Score=22.25  Aligned_cols=28  Identities=21%  Similarity=0.266  Sum_probs=20.7

Q ss_pred             hHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          279 ELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       279 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .+|..+...|...|++++|+..|++..+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            4567777888888888888888887664

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 ....

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=87.48  E-value=2.4  Score=21.50  Aligned_cols=27  Identities=26%  Similarity=0.319  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          210 TYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       210 ~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      +|..+..+|...|++++|+..|++..+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            455556666666666666666665553

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 ....

>PF11838 ERAP1_C: ERAP1-like C-terminal domain; InterPro: IPR024571 This entry represents the uncharacterised C-terminal domain of zinc metallopeptidases belonging to MEROPS peptidase family M1 (aminopeptidase N, clan MA), with a single member characterised in Streptomyces lividans: aminopeptidase G []

Probab=87.34  E-value=16  Score=30.54  Aligned_cols=144  Identities=12%  Similarity=0.022  Sum_probs=84.1

Q ss_pred             HHHHHHHHHHHHhCCC----CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          154 MEEAWGLMEVMKEIRV----SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFV  229 (324)
Q Consensus       154 ~~~a~~~~~~m~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  229 (324)
                      ...|.+.|+.....+.    ..+......++....+.|+.+.-..+++.....   ++......++.+++...+.+...+
T Consensus       146 ~~~a~~~~~~~~~~~~~~~~~i~~dlr~~v~~~~~~~g~~~~~~~l~~~~~~~---~~~~~k~~~l~aLa~~~d~~~~~~  222 (324)
T PF11838_consen  146 VAEARELFKAWLDGNDSPESSIPPDLRWAVYCAGVRNGDEEEWDFLWELYKNS---TSPEEKRRLLSALACSPDPELLKR  222 (324)
T ss_dssp             HHHHHHHHHHHHHTTT-TTSTS-HHHHHHHHHHHTTS--HHHHHHHHHHHHTT---STHHHHHHHHHHHTT-S-HHHHHH
T ss_pred             HHHHHHHHHHHhcCCcccccccchHHHHHHHHHHHHHhhHhhHHHHHHHHhcc---CCHHHHHHHHHhhhccCCHHHHHH
Confidence            5677788888776422    345566667777777888876666666665544   477888889999999999999899


Q ss_pred             HHHHHHHCC-CCcCHHHHHHHHHHHHhcCCH--HHHHHHH----HHhCCCCCCcCHhHHHHHHHHHhC----cCCHHHHH
Q 038109          230 LLRRMVDDG-QSVLYSTYAHVMGALLRLGYY--AQAVKFV----MVCGGRDIKLDTELFGSLGSKLIG----LERFNEAN  298 (324)
Q Consensus       230 ~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~--~~a~~~~----~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~  298 (324)
                      +++.....+ +++.. . ..++.++...+..  +.++.++    +.+.+. +..+......++..+..    ....++..
T Consensus       223 ~l~~~l~~~~v~~~d-~-~~~~~~~~~~~~~~~~~~~~~~~~n~~~i~~~-~~~~~~~~~~~~~~~~~~~~t~~~~~~~~  299 (324)
T PF11838_consen  223 LLDLLLSNDKVRSQD-I-RYVLAGLASSNPVGRDLAWEFFKENWDAIIKK-FGTNSSALSRVIKSFAGNFSTEEQLDELE  299 (324)
T ss_dssp             HHHHHHCTSTS-TTT-H-HHHHHHHH-CSTTCHHHHHHHHHHCHHHHHCH-C-TTSHCCHHHHHCCCTT--SHHHHHHHH
T ss_pred             HHHHHcCCcccccHH-H-HHHHHHHhcCChhhHHHHHHHHHHHHHHHHHH-hcCCChHHHHHHHHHhccCCCHHHHHHHH
Confidence            999888754 54433 3 3355555534433  6676665    334332 22222245556665443    34444444


Q ss_pred             HHHHH
Q 038109          299 FILKE  303 (324)
Q Consensus       299 ~~~~~  303 (324)
                      +.|+.
T Consensus       300 ~f~~~  304 (324)
T PF11838_consen  300 EFFED  304 (324)
T ss_dssp             HHHHH
T ss_pred             HHHhh
Confidence            55543

The rest of the members of this family are identified as aminopeptidase N of the actinomycete-type. The spectrum of activity may differ somewhat from the aminopeptidase N clade of Escherichia coli and most other proteobacteria, which are well separated phylogenetically within the M1 family. ; PDB: 3MDJ_A 2YD0_A 3QNF_C 3RJO_A 1Z5H_A 3Q7J_A 1Z1W_A 3SE6_B.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=87.23  E-value=9.4  Score=27.73  Aligned_cols=49  Identities=20%  Similarity=0.130  Sum_probs=24.2

Q ss_pred             hhhHHHHHHHHHHHhcCCCCH---HHHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038109           83 LSVLSDLCRTLARLDKGFPRK---SAYDTLIGRLCKLKKIDEALRVVDIMAEGG  133 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  133 (324)
                      .++.+++..+++.+.-..|+.   .++..+  .+...|++++|.++|+++.+.+
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFDGW--LLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhHHH--HHHHcCCHHHHHHHHHhhhccC
Confidence            444555555555554333322   233332  2345566666666666665543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=87.22  E-value=18  Score=30.98  Aligned_cols=253  Identities=13%  Similarity=0.075  Sum_probs=117.9

Q ss_pred             HHHHHHHHh--cCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhch--hhhhhHHHHHHHHHHHhcCCCCHH--HHHHHHH
Q 038109           38 YDDLVNAAG--HERDLETVRYLLNKRARDCCFNTANTFNFITNTE--NSLSVLSDLCRTLARLDKGFPRKS--AYDTLIG  111 (324)
Q Consensus        38 ~~~ll~~~~--~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~p~~~--~~~~li~  111 (324)
                      |..|-.++.  -.|+-..|.++-.+-.+. +..|....-.++.+-  .-.|+.+.|.+-|+.|.+- |...  -...|.-
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d-PEtRllGLRgLyl  162 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD-PETRLLGLRGLYL  162 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC-hHHHHHhHHHHHH
Confidence            444444333  244555555554433221 233333333333322  2346777777777766432 2211  2233333


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCC-CCCCHHH--HHHHHHHHHh---
Q 038109          112 RLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIR-VSPDLTA--YNYLLTAYCF---  185 (324)
Q Consensus       112 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~--~~~li~~~~~---  185 (324)
                      .--+.|+.+.|.+.-++.-..-.. -...+...+...+..|+++.|+++.+.-+... +.+++.-  -..|+.+-..   
T Consensus       163 eAqr~GareaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~l  241 (531)
T COG3898         163 EAQRLGAREAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLL  241 (531)
T ss_pred             HHHhcccHHHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHh
Confidence            344566666666666655543221 24556666777777777777777777654433 3333321  1122222111   


Q ss_pred             cCChhhHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHH-
Q 038109          186 KGNLTATSGVLKKMEEEKLGADAR-TYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAV-  263 (324)
Q Consensus       186 ~~~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~-  263 (324)
                      ..+...|...-.+..+  +.||-. .-..-..++.+.|+..++-.+++.+-+....|  ...  .+....+.|+..... 
T Consensus       242 dadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP--~ia--~lY~~ar~gdta~dRl  315 (531)
T COG3898         242 DADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHP--DIA--LLYVRARSGDTALDRL  315 (531)
T ss_pred             cCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCCh--HHH--HHHHHhcCCCcHHHHH
Confidence            1233344433333322  344422 22333466777777777777777776554333  332  223344555432211 


Q ss_pred             HHHHHhCCCCCCc-CHhHHHHHHHHHhCcCCHHHHHHHH
Q 038109          264 KFVMVCGGRDIKL-DTELFGSLGSKLIGLERFNEANFIL  301 (324)
Q Consensus       264 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~  301 (324)
                      +-...+..  .+| +......+.++-...|++..|..--
T Consensus       316 kRa~~L~s--lk~nnaes~~~va~aAlda~e~~~ARa~A  352 (531)
T COG3898         316 KRAKKLES--LKPNNAESSLAVAEAALDAGEFSAARAKA  352 (531)
T ss_pred             HHHHHHHh--cCccchHHHHHHHHHHHhccchHHHHHHH
Confidence            00111111  122 3444445566666666666555433

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=87.15  E-value=15  Score=30.01  Aligned_cols=138  Identities=12%  Similarity=0.085  Sum_probs=87.5

Q ss_pred             cCcHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHh-cC-ChhhHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhcCCHHH
Q 038109          151 GKRMEEAWGLMEVMKE-IRVSPDLTAYNYLLTAYCF-KG-NLTATSGVLKKMEE-EKLGADARTYDALVLGACRAGRVEE  226 (324)
Q Consensus       151 ~~~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~~-~~-~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~~~g~~~~  226 (324)
                      +....+|+++|+.... ..+--|..+...+++.... .+ ....-.++.+-+.. .|-.++..+...++..++..+++.+
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            3345566666663322 2244566666667766555 22 22223333343332 3456778888888899999999999


Q ss_pred             HHHHHHHHHHC-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHh-----CCCCCCcCHhHHHHHHHHH
Q 038109          227 AFVLLRRMVDD-GQSVLYSTYAHVMGALLRLGYYAQAVKFVMVC-----GGRDIKLDTELFGSLGSKL  288 (324)
Q Consensus       227 a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~-----~~~~~~~~~~~~~~l~~~~  288 (324)
                      -+++++..... +..-|..-|..+|......|+..-..+++.+-     .+.++..+...-..+-+.+
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            88888877655 55567778888999999999988877776543     4455665665555544444

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.89  E-value=5.1  Score=32.60  Aligned_cols=207  Identities=14%  Similarity=0.014  Sum_probs=128.7

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc------C-----cHHHHHHHHHHHHhCCCCCCHHHHHH
Q 038109          110 IGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRG------K-----RMEEAWGLMEVMKEIRVSPDLTAYNY  178 (324)
Q Consensus       110 i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~------~-----~~~~a~~~~~~m~~~~~~~~~~~~~~  178 (324)
                      ++-..+-=..++-.+..++..+.-.+....++...+.+++..      |     ...+|.++|.-+..+.-+  .++-+-
T Consensus        94 ~dYl~KPvt~ekLnraIdr~~k~ve~~~eee~~~~iscfgg~ev~~rqg~~vkWis~KA~ELFayLv~hkgk--~v~~~~  171 (361)
T COG3947          94 DDYLPKPVTPEKLNRAIDRRLKRVELTAEEESGTQISCFGGTEVVLRQGQQVKWISRKALELFAYLVEHKGK--EVTSWE  171 (361)
T ss_pred             HhhccCCCCHHHHHHHHHHHhccccccchhccCeeeEeccceeeeccCCceeeehhhHHHHHHHHHHHhcCC--cccHhH
Confidence            333333334455555555555433333455666666666521      1     246788888877765432  234445


Q ss_pred             HHHHHHhcCChhhHHHHHHH-------HHH-------------------CCCCCCHHHHHHHHHHHHh-cCCHHHHHHHH
Q 038109          179 LLTAYCFKGNLTATSGVLKK-------MEE-------------------EKLGADARTYDALVLGACR-AGRVEEAFVLL  231 (324)
Q Consensus       179 li~~~~~~~~~~~a~~~~~~-------m~~-------------------~~~~~~~~~~~~li~~~~~-~g~~~~a~~~~  231 (324)
                      ++.++....+..+|...+..       +..                   .++..|..-|-..+..... +..++++-++.
T Consensus       172 ~ie~lwpe~D~kka~s~lhTtvyqlRKaLs~L~~ne~vts~d~~Ykld~~~~k~Dv~e~es~~rqi~~inltide~kelv  251 (361)
T COG3947         172 AIEALWPEKDEKKASSLLHTTVYQLRKALSRLNANEAVTSQDRKYKLDAGLPKYDVQEYESLARQIEAINLTIDELKELV  251 (361)
T ss_pred             HHHHHccccchhhHHHHHHHHHHHHHHHhchhccCceEEEcCCceEEecCCccccHHHHHHHhhhhhccccCHHHHHHHH
Confidence            66666666666666555432       221                   1234466666666655443 23466666666


Q ss_pred             HHHHHCCCCc-----------------CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCH
Q 038109          232 RRMVDDGQSV-----------------LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERF  294 (324)
Q Consensus       232 ~~m~~~~~~p-----------------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  294 (324)
                      ..... +.-|                 -..+++.....|...|.+.+|..+.+...... +.+...+-.++..+...|+-
T Consensus       252 ~~ykg-dyl~e~~y~Waedererle~ly~kllgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~  329 (361)
T COG3947         252 GQYKG-DYLPEADYPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDE  329 (361)
T ss_pred             HHhcC-CcCCccccccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccc
Confidence            65532 1111                 12335556678999999999999999998875 56888899999999999998


Q ss_pred             HHHHHHHHHHH-----hCCCchhHHHHHHHh
Q 038109          295 NEANFILKEMN-----KRDLKMGFKLRDYYE  320 (324)
Q Consensus       295 ~~a~~~~~~m~-----~~~~~~~~~~~~~~~  320 (324)
                      -.+.+-++++.     +.|+..+.++..-|.
T Consensus       330 is~~khyerya~vleaelgi~vddsieewy~  360 (361)
T COG3947         330 ISAIKHYERYAEVLEAELGIDVDDSIEEWYK  360 (361)
T ss_pred             hhhhhHHHHHHHHHHHHhCCCcchhHHHHhh
Confidence            88887777763     458888888776664

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=86.73  E-value=9.9  Score=27.52  Aligned_cols=81  Identities=14%  Similarity=0.169  Sum_probs=40.6

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCC-----CCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHCCCCcCHHHHHHH
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEEKL-----GADARTYDALVLGACRAGR-VEEAFVLLRRMVDDGQSVLYSTYAHV  249 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~p~~~~~~~l  249 (324)
                      .|+++.-....+++.....+++.+.....     ..+..+|.+++.+.++..- ---+..+|..|++.+.+++..-|..+
T Consensus        42 iN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~l  121 (145)
T PF13762_consen   42 INCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCL  121 (145)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            35555555555555555555555432110     1234455555555544443 23345555555555555555556666


Q ss_pred             HHHHHhc
Q 038109          250 MGALLRL  256 (324)
Q Consensus       250 i~~~~~~  256 (324)
                      +.++.+.
T Consensus       122 i~~~l~g  128 (145)
T PF13762_consen  122 IKAALRG  128 (145)
T ss_pred             HHHHHcC
Confidence            6555443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=86.36  E-value=1.9  Score=21.73  Aligned_cols=27  Identities=19%  Similarity=0.189  Sum_probs=19.0

Q ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          280 LFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       280 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .+..+...+.+.|++++|.+.|++..+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            455677777788888888888877654

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 ....

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=86.22  E-value=0.84  Score=22.90  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=10.9

Q ss_pred             hchhhhhhHHHHHHHHHHHhcCCC
Q 038109           78 NTENSLSVLSDLCRTLARLDKGFP  101 (324)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~~~~~~p  101 (324)
                      .++.+.|+.++|.+.|+++.+.+|
T Consensus         8 ~~~~~~g~~~~A~~~~~~~~~~~P   31 (33)
T PF13174_consen    8 RCYYKLGDYDEAIEYFQRLIKRYP   31 (33)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHHHST
T ss_pred             HHHHHccCHHHHHHHHHHHHHHCc
Confidence            334444444455444444444433

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=85.98  E-value=12  Score=30.43  Aligned_cols=88  Identities=13%  Similarity=0.107  Sum_probs=52.6

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH-----H
Q 038109          179 LLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGA-----L  253 (324)
Q Consensus       179 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-----~  253 (324)
                      =|.++...++|.++....-.--..--+........-|-.|.+.+++..+.++-..-.+..-.-+...|..++..     +
T Consensus        89 GIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VL  168 (309)
T PF07163_consen   89 GIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVL  168 (309)
T ss_pred             hHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHH
Confidence            46778888888887765543332211223444555566678888888888877776654211222235555444     4


Q ss_pred             HhcCCHHHHHHHH
Q 038109          254 LRLGYYAQAVKFV  266 (324)
Q Consensus       254 ~~~g~~~~a~~~~  266 (324)
                      .-.|.+++|+++.
T Consensus       169 lPLG~~~eAeelv  181 (309)
T PF07163_consen  169 LPLGHFSEAEELV  181 (309)
T ss_pred             hccccHHHHHHHH
Confidence            4568888888776

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]

Probab=85.94  E-value=5  Score=27.51  Aligned_cols=21  Identities=24%  Similarity=0.469  Sum_probs=10.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHH
Q 038109          214 LVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       214 li~~~~~~g~~~~a~~~~~~m  234 (324)
                      ++..|...|+.++|...++++
T Consensus         8 ~l~ey~~~~d~~ea~~~l~el   28 (113)
T PF02847_consen    8 ILMEYFSSGDVDEAVECLKEL   28 (113)
T ss_dssp             HHHHHHHHT-HHHHHHHHHHT
T ss_pred             HHHHHhcCCCHHHHHHHHHHh
Confidence            344444555555555555443

It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=85.52  E-value=1.2  Score=21.27  Aligned_cols=20  Identities=25%  Similarity=0.355  Sum_probs=10.2

Q ss_pred             HHHHHHhCcCCHHHHHHHHH
Q 038109          283 SLGSKLIGLERFNEANFILK  302 (324)
Q Consensus       283 ~l~~~~~~~g~~~~a~~~~~  302 (324)
                      .+...+...|+.++|..+++
T Consensus         6 ~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHHh
Confidence            34445555555555555443

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

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.94  E-value=15  Score=28.05  Aligned_cols=91  Identities=13%  Similarity=0.090  Sum_probs=65.0

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHH-----HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 038109          109 LIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPI-----LSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAY  183 (324)
Q Consensus       109 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l-----i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  183 (324)
                      +...+...+++++|+..++.....   |....+..+     .......|..++|+.+++.....+..  ......-.+.+
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDil  169 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDIL  169 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHH
Confidence            457788888999998888877653   233333333     34566778889999888888776543  33345566788


Q ss_pred             HhcCChhhHHHHHHHHHHCCC
Q 038109          184 CFKGNLTATSGVLKKMEEEKL  204 (324)
Q Consensus       184 ~~~~~~~~a~~~~~~m~~~~~  204 (324)
                      ...|+-++|..-|+.....+.
T Consensus       170 l~kg~k~~Ar~ay~kAl~~~~  190 (207)
T COG2976         170 LAKGDKQEARAAYEKALESDA  190 (207)
T ss_pred             HHcCchHHHHHHHHHHHHccC
Confidence            888999999998888887753

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=84.74  E-value=18  Score=28.68  Aligned_cols=58  Identities=16%  Similarity=0.134  Sum_probs=30.9

Q ss_pred             HhcCCHHHHHHHHHHHHHC-C-----------CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcC
Q 038109          219 CRAGRVEEAFVLLRRMVDD-G-----------QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLD  277 (324)
Q Consensus       219 ~~~g~~~~a~~~~~~m~~~-~-----------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (324)
                      ...|+..+|+.-++.-... |           -.|.+.....++..|.. +++++|.+.+.++-+.|+.|.
T Consensus       203 ta~GDMRQalNnLQst~~g~g~Vn~enVfKv~d~PhP~~v~~ml~~~~~-~~~~~A~~il~~lw~lgysp~  272 (333)
T KOG0991|consen  203 TAQGDMRQALNNLQSTVNGFGLVNQENVFKVCDEPHPLLVKKMLQACLK-RNIDEALKILAELWKLGYSPE  272 (333)
T ss_pred             hccchHHHHHHHHHHHhccccccchhhhhhccCCCChHHHHHHHHHHHh-ccHHHHHHHHHHHHHcCCCHH
Confidence            3456666666555544321 1           13555555555555443 456666666666666666543

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.73  E-value=1  Score=22.80  Aligned_cols=26  Identities=19%  Similarity=0.188  Sum_probs=12.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHh
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIMAE  131 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m~~  131 (324)
                      |..+...+...|++++|++.|++..+
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34444455555555555555555443

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 ....

>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=84.72  E-value=2.6  Score=21.30  Aligned_cols=27  Identities=19%  Similarity=0.186  Sum_probs=19.9

Q ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          280 LFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       280 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      +|..+...|...|++++|.+.|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            566677777788888888888876543

...

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=84.67  E-value=3.6  Score=22.79  Aligned_cols=21  Identities=24%  Similarity=0.264  Sum_probs=9.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHH
Q 038109          215 VLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       215 i~~~~~~g~~~~a~~~~~~m~  235 (324)
                      ..+|...|+.+.|.+++++..
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHH
Confidence            344444444444444444444

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.56  E-value=18  Score=28.60  Aligned_cols=22  Identities=9%  Similarity=0.155  Sum_probs=16.7

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCC
Q 038109          218 ACRAGRVEEAFVLLRRMVDDGQ  239 (324)
Q Consensus       218 ~~~~g~~~~a~~~~~~m~~~~~  239 (324)
                      -+..+++.+|+++|++.....+
T Consensus       164 aa~leqY~~Ai~iyeqva~~s~  185 (288)
T KOG1586|consen  164 AAQLEQYSKAIDIYEQVARSSL  185 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhc
Confidence            3566888999999998876544

>PRK09687 putative lyase; Provisional

Probab=84.40  E-value=21  Score=29.28  Aligned_cols=235  Identities=12%  Similarity=0.007  Sum_probs=148.8

Q ss_pred             CCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhH----HHHHHHHHHHhcCCCCHHHHH
Q 038109           32 EPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVL----SDLCRTLARLDKGFPRKSAYD  107 (324)
Q Consensus        32 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~p~~~~~~  107 (324)
                      .+|.......+.++...|..+ +...+..+..   .+|+..=...+.++...|+.    .++...+..+....|+..+-.
T Consensus        34 d~d~~vR~~A~~aL~~~~~~~-~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D~d~~VR~  109 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQD-VFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALEDKSACVRA  109 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcch-HHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcCCCHHHHH
Confidence            456666666777777777543 3333444443   24555445556666666653    456677766644557777777


Q ss_pred             HHHHHHHccCCH-----HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 038109          108 TLIGRLCKLKKI-----DEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTA  182 (324)
Q Consensus       108 ~li~~~~~~~~~-----~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  182 (324)
                      ..+.+++..+..     ..+...+......   ++..+-...+.++++.++. .+...+-.+.+.   +|..+-...+.+
T Consensus       110 ~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D---~~~~VR~~a~~aLg~~~~~-~ai~~L~~~L~d---~~~~VR~~A~~a  182 (280)
T PRK09687        110 SAINATGHRCKKNPLYSPKIVEQSQITAFD---KSTNVRFAVAFALSVINDE-AAIPLLINLLKD---PNGDVRNWAAFA  182 (280)
T ss_pred             HHHHHHhcccccccccchHHHHHHHHHhhC---CCHHHHHHHHHHHhccCCH-HHHHHHHHHhcC---CCHHHHHHHHHH
Confidence            777777666432     2344444444333   4667777888888888874 455666666553   455666667777


Q ss_pred             HHhcC-ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 038109          183 YCFKG-NLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQ  261 (324)
Q Consensus       183 ~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  261 (324)
                      +++.+ +...+...+..+...   ++..+-...+.++.+.|+ ..+...+-...+.+.     .....+.++...|.. +
T Consensus       183 Lg~~~~~~~~~~~~L~~~L~D---~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~~-----~~~~a~~ALg~ig~~-~  252 (280)
T PRK09687        183 LNSNKYDNPDIREAFVAMLQD---KNEEIRIEAIIGLALRKD-KRVLSVLIKELKKGT-----VGDLIIEAAGELGDK-T  252 (280)
T ss_pred             HhcCCCCCHHHHHHHHHHhcC---CChHHHHHHHHHHHccCC-hhHHHHHHHHHcCCc-----hHHHHHHHHHhcCCH-h
Confidence            77653 244666666666643   588888888999999998 456666666655433     234678888999986 6


Q ss_pred             HHHHHHHhCCCCCCcCHhHHHHHHHHHh
Q 038109          262 AVKFVMVCGGRDIKLDTELFGSLGSKLI  289 (324)
Q Consensus       262 a~~~~~~~~~~~~~~~~~~~~~l~~~~~  289 (324)
                      |...+..+.+.  .||..+-...+.++.
T Consensus       253 a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        253 LLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             HHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            88888777764  247766666666554

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=84.12  E-value=9.4  Score=26.79  Aligned_cols=47  Identities=17%  Similarity=0.109  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          226 EAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       226 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      +..+-+..+....+.|++......+++|-+.+++..|.++++.++..
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            44555555556677788888888888888888888888888776553

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=84.03  E-value=30  Score=30.71  Aligned_cols=58  Identities=12%  Similarity=0.063  Sum_probs=31.5

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCC-CChhhHHHHHHHHHccCcHHHHHHHHHHHHh
Q 038109          109 LIGRLCKLKKIDEALRVVDIMAEGGFG-LSAITFHPILSVLTRGKRMEEAWGLMEVMKE  166 (324)
Q Consensus       109 li~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  166 (324)
                      +..++-+.|+.++|.+.+++|.+.... -...+...|+.++...+.+.++..++.+..+
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            444555556666666666666543211 1233455566666666666666666665543

The molecular function of this protein is uncertain.

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=83.50  E-value=38  Score=31.48  Aligned_cols=194  Identities=15%  Similarity=0.056  Sum_probs=108.5

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHh-CCCCCC--hhhHHHHHHHHH-ccCcHHHHHHHHHHHHhCCCCCCHH---
Q 038109          102 RKSAYDTLIGRLCKLKKIDEALRVVDIMAE-GGFGLS--AITFHPILSVLT-RGKRMEEAWGLMEVMKEIRVSPDLT---  174 (324)
Q Consensus       102 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~g~~~~--~~~~~~li~~~~-~~~~~~~a~~~~~~m~~~~~~~~~~---  174 (324)
                      +...|..||..         |++.++-+.+ ..++|.  ..++--+...+. ...+.+.|+..+++.....-.++..   
T Consensus        29 ~l~~Y~kLI~~---------ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k   99 (608)
T PF10345_consen   29 QLKQYYKLIAT---------AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLK   99 (608)
T ss_pred             hHHHHHHHHHH---------HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHH
Confidence            34467777744         5666666663 333333  334444555544 6678888888888654432222211   


Q ss_pred             --HHHHHHHHHHhcCChhhHHHHHHHHHHC----CCCCCHHHHHHH-HHHHHhcCCHHHHHHHHHHHHHCC---CCcCHH
Q 038109          175 --AYNYLLTAYCFKGNLTATSGVLKKMEEE----KLGADARTYDAL-VLGACRAGRVEEAFVLLRRMVDDG---QSVLYS  244 (324)
Q Consensus       175 --~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~  244 (324)
                        ....++..+.+.+... |....++..+.    +..+-...+..+ +..+...++...|.+.++.+....   ..|...
T Consensus       100 ~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~  178 (608)
T PF10345_consen  100 FRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVF  178 (608)
T ss_pred             HHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHH
Confidence              2234566666666655 88877765543    122223333333 333333478888998888776542   335555


Q ss_pred             HHHHHHHHHH--hcCCHHHHHHHHHHhCCC---------CCCcCHhHHHHHHHHHh--CcCCHHHHHHHHHHHH
Q 038109          245 TYAHVMGALL--RLGYYAQAVKFVMVCGGR---------DIKLDTELFGSLGSKLI--GLERFNEANFILKEMN  305 (324)
Q Consensus       245 ~~~~li~~~~--~~g~~~~a~~~~~~~~~~---------~~~~~~~~~~~l~~~~~--~~g~~~~a~~~~~~m~  305 (324)
                      ++..++.+..  +.+..+.+.+.++.+...         .-.|-..+|..+++.++  ..|+++.+...++++.
T Consensus       179 v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  179 VLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5556666544  344455565555544211         12345667777766554  5677777777766654

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 [].

>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=82.71  E-value=4.6  Score=20.30  Aligned_cols=26  Identities=23%  Similarity=0.202  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          210 TYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       210 ~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      +|..+...|...|++++|.+.|++..
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~   28 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34555555666666666666665544

...

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=82.13  E-value=30  Score=29.37  Aligned_cols=201  Identities=9%  Similarity=-0.022  Sum_probs=118.7

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHH----HHhCC-CCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC-CCCC---CHH
Q 038109          104 SAYDTLIGRLCKLKKIDEALRVVDI----MAEGG-FGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI-RVSP---DLT  174 (324)
Q Consensus       104 ~~~~~li~~~~~~~~~~~a~~~~~~----m~~~g-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~---~~~  174 (324)
                      .+|..+..+.++.|.+++++..--.    ..+.. -..--..|..+-.++-+.-++.+++.+-+.-... |..|   .-.
T Consensus        44 ~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq  123 (518)
T KOG1941|consen   44 RVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQ  123 (518)
T ss_pred             HHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccch
Confidence            3677888888888888887654321    11110 0001234555555555555566666555443322 2222   112


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCcCHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEE-----KLGADARTYDALVLGACRAGRVEEAFVLLRRMVD----DGQSVLYST  245 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~~~p~~~~  245 (324)
                      ...++-.++...+.++++++.|+...+.     +......+|..|-..|.+..++++|.-+..+..+    .++.--..-
T Consensus       124 ~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~k  203 (518)
T KOG1941|consen  124 VSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLK  203 (518)
T ss_pred             hhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHH
Confidence            3345667788888899999999876543     1222346788899999999999998877665432    233222222


Q ss_pred             HH-----HHHHHHHhcCCHHHHHHHHHHhC----CCCCC-cCHhHHHHHHHHHhCcCCHHHHHHHHHHH
Q 038109          246 YA-----HVMGALLRLGYYAQAVKFVMVCG----GRDIK-LDTELFGSLGSKLIGLERFNEANFILKEM  304 (324)
Q Consensus       246 ~~-----~li~~~~~~g~~~~a~~~~~~~~----~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  304 (324)
                      |.     .+.-++-..|+...|.+.-++..    ..|-. ........+.+.|...|+.+.|+.-+++.
T Consensus       204 yr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  204 YRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            33     23345566777766666655443    33322 12344556778888899999888777653

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=82.06  E-value=44  Score=31.13  Aligned_cols=45  Identities=11%  Similarity=0.056  Sum_probs=29.3

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhh
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSL   83 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~   83 (324)
                      .|. +|-.|.+.|+++.|.++....... +......+...+..+...
T Consensus       114 ~Wa-~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  114 IWA-LIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             HHH-HHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred             cHH-HHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence            354 555788999999999998555443 455556666667766554

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.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=81.81  E-value=15  Score=25.76  Aligned_cols=47  Identities=11%  Similarity=0.154  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          156 EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       156 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      +..+-+..+...++.|+......-+++|-+.+++..|.++|+..+.+
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            44555666666677777777777777777777777777777776654

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=81.41  E-value=24  Score=27.66  Aligned_cols=186  Identities=17%  Similarity=0.127  Sum_probs=104.1

Q ss_pred             hchhhhhhHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHH
Q 038109           78 NTENSLSVLSDLCRTLARLDKGFPRK-SAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEE  156 (324)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~  156 (324)
                      ..|-..|.+.-|.--|.+.....|+. .+||-+.--+...|+++.|.+.|+...+-...-+-...|.-|. +.-.|++.-
T Consensus        73 vlYDSlGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY~gR~~L  151 (297)
T COG4785          73 VLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYYGGRYKL  151 (297)
T ss_pred             chhhhhhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eeecCchHh
Confidence            34556677777777777777777864 4889988888999999999999998887543322222222222 334578888


Q ss_pred             HHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChhhHHHHH-HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038109          157 AWGLMEVMKEIR-VSPDLTAYNYLLTAYCFKGNLTATSGVL-KKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       157 a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~-~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  234 (324)
                      |.+-+...-+.+ -.|=...|-.++.   ..-++.+|..-+ ++...    .|..-|..-|-.|.- |++.+ ..++++.
T Consensus       152 Aq~d~~~fYQ~D~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~~~----~d~e~WG~~iV~~yL-gkiS~-e~l~~~~  222 (297)
T COG4785         152 AQDDLLAFYQDDPNDPFRSLWLYLNE---QKLDPKQAKTNLKQRAEK----SDKEQWGWNIVEFYL-GKISE-ETLMERL  222 (297)
T ss_pred             hHHHHHHHHhcCCCChHHHHHHHHHH---hhCCHHHHHHHHHHHHHh----ccHhhhhHHHHHHHH-hhccH-HHHHHHH
Confidence            877666554443 2232233333322   234555555433 33332    254555554443322 12111 1233333


Q ss_pred             HHCCC------CcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC
Q 038109          235 VDDGQ------SVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRD  273 (324)
Q Consensus       235 ~~~~~------~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (324)
                      ....-      ..-..||--+.+-+...|+.++|..+|+-....+
T Consensus       223 ~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         223 KADATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             HhhccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            22110      0113566677777888888888888887765543

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=80.99  E-value=28  Score=28.48  Aligned_cols=160  Identities=14%  Similarity=0.150  Sum_probs=85.9

Q ss_pred             HHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHH-------HHHHHHHHhcCChhhHHHHHHH----HHHCCCCCCHHHH
Q 038109          143 PILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY-------NYLLTAYCFKGNLTATSGVLKK----MEEEKLGADARTY  211 (324)
Q Consensus       143 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-------~~li~~~~~~~~~~~a~~~~~~----m~~~~~~~~~~~~  211 (324)
                      -+.+-..+.+++++|...+.++...|+..+..+.       ..+...|...|++..-.+....    |.+..-.......
T Consensus         8 e~a~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~~Kii   87 (421)
T COG5159           8 ELANNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTITSSREAMEDFTKPKITKII   87 (421)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchhHHHHH
Confidence            3455667788889999999988888887776554       3456667777777665555443    2222222233445


Q ss_pred             HHHHHHHHhc-CCHHHHHHHHHHHHHCCCCcC-----HHHHHHHHHHHHhcCCHHHHHHHH----HHhCCCCCCcCHhHH
Q 038109          212 DALVLGACRA-GRVEEAFVLLRRMVDDGQSVL-----YSTYAHVMGALLRLGYYAQAVKFV----MVCGGRDIKLDTELF  281 (324)
Q Consensus       212 ~~li~~~~~~-g~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~----~~~~~~~~~~~~~~~  281 (324)
                      .++|.-+... ..++..+++.....+...+-.     ...=.-++..+.+.|.+.+|..++    .++.+..-+|+..+.
T Consensus        88 rtLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn~ll~ElKk~DDK~~Li~v  167 (421)
T COG5159          88 RTLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALINPLLHELKKYDDKINLITV  167 (421)
T ss_pred             HHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHhhcCccceeeh
Confidence            5555554433 345555555555543322211     111234566667777777777655    333344444444333


Q ss_pred             HHH-HHHHhCcCCHHHHHHHHH
Q 038109          282 GSL-GSKLIGLERFNEANFILK  302 (324)
Q Consensus       282 ~~l-~~~~~~~g~~~~a~~~~~  302 (324)
                      ..+ -..|....++.++..-+.
T Consensus       168 hllESKvyh~irnv~KskaSLT  189 (421)
T COG5159         168 HLLESKVYHEIRNVSKSKASLT  189 (421)
T ss_pred             hhhhHHHHHHHHhhhhhhhHHH
Confidence            222 234444444444444443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=80.74  E-value=10  Score=31.78  Aligned_cols=53  Identities=8%  Similarity=-0.054  Sum_probs=31.9

Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          181 TAYCFKGNLTATSGVLKKMEEEKLGA-DARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      .-|.+.|.+++|...|..-...  .| +.+++..-..+|.+...+..|+.=.....
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Ai  158 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAI  158 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHH
Confidence            4566677777777776654443  23 56666666666776666665555444433

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=80.70  E-value=25  Score=27.52  Aligned_cols=218  Identities=10%  Similarity=0.002  Sum_probs=116.6

Q ss_pred             CccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHH--HHhcCCCHHHHHHHHHHHHhcCCCCC-chhhHhhhhchhhhhhH
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVN--AAGHERDLETVRYLLNKRARDCCFNT-ANTFNFITNTENSLSVL   86 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~--~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~~   86 (324)
                      .+++.+-+.+.+.-+-....+.+++...--..=+  .|-..|-+..|+-=|.+.+.  +.|+ +..||.+.--+...|++
T Consensus        38 qp~lqqEV~iarlsqlL~~~~l~~eeRA~l~fERGvlYDSlGL~~LAR~DftQaLa--i~P~m~~vfNyLG~Yl~~a~~f  115 (297)
T COG4785          38 QPTLQQEVILARMSQILASRALTDEERAQLLFERGVLYDSLGLRALARNDFSQALA--IRPDMPEVFNYLGIYLTQAGNF  115 (297)
T ss_pred             CccHHHHHHHHHHHHHHHhccCChHHHHHHHHHhcchhhhhhHHHHHhhhhhhhhh--cCCCcHHHHHHHHHHHHhcccc
Confidence            3445555555444444445556665432111111  13344556666666666555  3444 47888888888889999


Q ss_pred             HHHHHHHHHHhcCCCCHH--HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CChhhHHHHHHHHHccCcHHHHHHH-HH
Q 038109           87 SDLCRTLARLDKGFPRKS--AYDTLIGRLCKLKKIDEALRVVDIMAEGGFG-LSAITFHPILSVLTRGKRMEEAWGL-ME  162 (324)
Q Consensus        87 ~~a~~~~~~~~~~~p~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~~~~~~a~~~-~~  162 (324)
                      +.|.+.|+...+..|.-.  ..|.-| ++.-.|++..|.+=|...-+.... |-...|--+..   +.-++.+|..- .+
T Consensus       116 daa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~E---~k~dP~~A~tnL~q  191 (297)
T COG4785         116 DAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLNE---QKLDPKQAKTNLKQ  191 (297)
T ss_pred             hHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHHH---hhCCHHHHHHHHHH
Confidence            999999998887776422  233333 333467888888877777665332 22222222222   33345555443 33


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          163 VMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG------ADARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       163 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      +..+.    |..-|...|-.|. .|+.. ...+++++....-.      .=..||--+..-+...|+.++|..+|+-...
T Consensus       192 R~~~~----d~e~WG~~iV~~y-LgkiS-~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaia  265 (297)
T COG4785         192 RAEKS----DKEQWGWNIVEFY-LGKIS-EETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVA  265 (297)
T ss_pred             HHHhc----cHhhhhHHHHHHH-Hhhcc-HHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            33332    3333333222221 11111 11222333221110      1135788888888899999999999987776


Q ss_pred             CCC
Q 038109          237 DGQ  239 (324)
Q Consensus       237 ~~~  239 (324)
                      ..+
T Consensus       266 nnV  268 (297)
T COG4785         266 NNV  268 (297)
T ss_pred             HhH
Confidence            543

---

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	324
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	9e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 67.9 bits (164), Expect = 9e-13
 Identities = 23/159 (14%), Positives = 46/159 (28%), Gaps = 4/159 (2%)

Query: 101 PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGL 160
           P +     L+        +D         ++                     ++  A  L
Sbjct: 90  PWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHL 149

Query: 161 MEVMKEI---RVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLG 217
           + V       R    L  YN ++  +  +G       VL  +++  L  D  +Y A +  
Sbjct: 150 LVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209

Query: 218 ACRAGRVEEAFV-LLRRMVDDGQSVLYSTYAHVMGALLR 255
             R  +        L +M  +G  +     A ++    R
Sbjct: 210 MGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR 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 = 61.8 bits (148), Expect = 1e-10
 Identities = 18/131 (13%), Positives = 41/131 (31%), Gaps = 3/131 (2%)

Query: 140 TFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVL--- 196
               +L        ++          + ++S                  L     +L   
Sbjct: 94  QLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVH 153

Query: 197 KKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRL 256
               +++       Y+A++LG  R G  +E   +L  + D G +    +YA  +  + R 
Sbjct: 154 HGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQ 213

Query: 257 GYYAQAVKFVM 267
              A  ++  +
Sbjct: 214 DQDAGTIERCL 224

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.1 bits (97), Expect = 2e-04
 Identities = 28/235 (11%), Positives = 59/235 (25%), Gaps = 22/235 (9%)

Query: 3   LLRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRA 62
           L  KL   F   +   +TR          +  +   +D    A      E +  LL +  
Sbjct: 44  LKAKLQMPFQSGEFKALTRRLQVEPRLLSKQMAGCLEDCTRQAPESPWEEQLARLLQEAP 103

Query: 63  RDCCFNTANTFNFITN------TENSLSVLSDLCRTLARLDKGF---------------P 101
                +     +   +       +  L      C    +L                    
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL 163

Query: 102 RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR-GKRMEEAWGL 160
               Y+ ++    +     E + V+ ++ + G     +++   L  + R  +        
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223

Query: 161 MEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV 215
           +E M +  +         LL+       L A   V                  L+
Sbjct: 224 LEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLL 278

>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 = 50.6 bits (120), Expect = 4e-07
 Identities = 50/368 (13%), Positives = 107/368 (29%), Gaps = 107/368 (29%)

Query: 30  PDEP----TSAYYDDLVNAAGHERDLETVRYL----LNKRARDCCFNTANTF-------- 73
            D P    +    D ++ +   +  +     L    L+K+           F        
Sbjct: 39  QDMPKSILSKEEIDHIIMS---KDAVSGTLRLFWTLLSKQE-----EMVQKFVEEVLRIN 90

Query: 74  -NFIT------------NTENSLSVLSDLCRTLARLDKGF-PRKSAYDTLIGRLCKLKKI 119
             F+              T   +     L        K    R   Y  L   L +L+  
Sbjct: 91  YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELR-- 148

Query: 120 DEALRVVDIMAEGGFG-----LSAITFHPILSV-------LTRGKRMEEAWGLMEVMKEI 167
                ++D +   G G     L     + +          L           ++E+++++
Sbjct: 149 PAKNVLIDGV--LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPE-TVLEMLQKL 205

Query: 168 --RVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA----------DARTYDALV 215
             ++ P+ T+ +   +    K  + +    L+++ + K             +A+ ++A  
Sbjct: 206 LYQIDPNWTSRSDHSSNI--KLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263

Query: 216 LGACRAGRVEEAFVLL--R-RMVDDGQSVLYSTYAHVMGALLRLGYYAQAVK--FVMVCG 270
           L  C+        +LL  R + V D   +  +T  H+      +      VK   +    
Sbjct: 264 LS-CK--------ILLTTRFKQVTD--FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312

Query: 271 GRDIKLDTE-------LFGSLGSKLI-GLERFNEANFILKEMNKRDLKMGFK-------- 314
            R   L  E           +   +  GL  ++  N+  K +N   L    +        
Sbjct: 313 CRPQDLPREVLTTNPRRLSIIAESIRDGLATWD--NW--KHVNCDKLTTIIESSLNVLEP 368

Query: 315 --LRDYYE 320
              R  ++
Sbjct: 369 AEYRKMFD 376

>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 = 42.1 bits (98), Expect = 2e-04
 Identities = 56/395 (14%), Positives = 113/395 (28%), Gaps = 139/395 (35%)

Query: 4   LRKL-PTKFLIPQ-------SVL---VTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLE 52
           L +L P K ++         + +   V  S+        +    ++ +L N    E  LE
Sbjct: 144 LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK---IFWLNLKNCNSPETVLE 200

Query: 53  TVRYLLNKRARDCCFNTANTFNFITNTE----------------NSLSVLSDL------- 89
            ++ LL +   +    + ++ N                      N L VL ++       
Sbjct: 201 MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN 260

Query: 90  -----CRTLA--R----LDKGFPRKSAYDTLIGRLCKLKKIDEAL----RVVDIMAEGGF 134
                C+ L   R     D      + + +L      L   DE      + +D   +   
Sbjct: 261 AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP-DEVKSLLLKYLDCRPQ--- 316

Query: 135 GL--SAITFHP-ILSVLTRGKRMEEA---W------GLMEVMKEIRVS-----PDLTAYN 177
            L    +T +P  LS++   + + +    W         ++   I  S     P      
Sbjct: 317 DLPREVLTTNPRRLSII--AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374

Query: 178 YLLTAYCFKGNLTATSGVLK----KMEEE---------------KLGADARTY--DALVL 216
           +   +  F  +    + +L      + +                +      T    ++ L
Sbjct: 375 FDRLS-VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL 433

Query: 217 GACRAGRVEEAFVLLRRMVD------------------DGQSVLYSTYAHVMGALLRLGY 258
                 ++E  + L R +VD                  D     Y  Y+H       +G+
Sbjct: 434 ELKV--KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ----YF-YSH-------IGH 479

Query: 259 YA----QAVKFVMVCGGRDIKLDTELFGSLGSKLI 289
           +        +  +    R + LD   F  L  K+ 
Sbjct: 480 HLKNIEHPERMTLF---RMVFLD---FRFLEQKIR 508

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	324
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.97
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.93
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.88
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.87
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.86
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.84
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.84
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.84
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.81
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.8
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.78
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.78
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.77
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.74
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.74
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.72
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.72
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.71
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.69
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.69
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.68
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.68
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.68
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.67
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.67
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.66
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.66
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.65
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.65
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.65
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.64
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.62
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.6
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.6
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.58
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.57
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.56
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.56
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.56
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.56
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.54
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.54
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.54
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.54
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.53
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.51
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.51
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.49
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.48
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.47
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.46
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.46
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.44
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.43
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.43
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.42
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.42
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.41
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.38
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.37
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.36
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.35
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.34
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.33
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.32
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.31
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.28
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.27
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.26
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.25
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.25
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.23
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.22
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.17
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.14
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.13
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.12
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.12
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.11
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.09
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.08
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.07
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.06
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.03
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.02
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.01
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.0
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.0
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.0
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.0
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.99
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.98
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.98
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.98
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.97
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.95
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.94
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.93
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.93
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.9
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.88
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.87
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.82
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.81
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.79
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.79
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.77
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.76
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.74
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.74
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.74
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.72
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.72
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.72
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.71
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.71
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.71
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.7
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.69
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.68
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.67
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.66
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.65
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.64
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.63
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.63
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.62
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.61
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.58
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.57
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.56
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.56
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.55
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.5
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.5
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.49
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.48
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.47
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.46
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.46
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.46
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.45
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.44
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.43
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.43
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.42
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.4
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.4
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.4
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.36
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.34
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.34
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.34
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.34
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.34
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.32
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.31
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.29
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.28
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.27
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.27
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.25
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.24
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.24
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.22
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.19
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.17
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.16
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.11
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.09
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.06
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.02
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.99
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.97
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.97
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.94
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.93
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.92
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.91
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.91
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.88
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.86
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.83
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.8
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.73
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.72
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.63
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.61
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.61
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.59
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.47
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.46
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.29
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.19
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.03
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.01
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.98
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.97
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.9
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.87
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.86
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.77
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.61
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.5
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.47
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.43
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.35
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.35
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.16
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.09
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.89
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.8
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.56
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.5
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.46
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.32
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.87
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.63
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.6
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.29
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.14
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.96
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.67
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	93.64
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.28
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.27
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	92.18
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	91.75
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.63
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.28
2zu6_B	307	Programmed cell death protein 4; protein-protein c	91.12
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.12
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	90.91
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	90.39
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	89.95
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	89.73
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	88.12
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.26
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	86.5
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	86.1
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	85.61
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	85.28
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	84.3
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	83.81
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	83.59
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	82.51
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	81.45
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	81.23
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	80.55

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=5.7e-37  Score=267.46  Aligned_cols=188  Identities=15%  Similarity=0.191  Sum_probs=175.7

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCc---------HHHHHHHHHHHHhCCCCCCHH
Q 038109          104 SAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKR---------MEEAWGLMEVMKEIRVSPDLT  174 (324)
Q Consensus       104 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~---------~~~a~~~~~~m~~~~~~~~~~  174 (324)
                      ..++.+|++|++.|++++|+++|++|.+.|+.||..||++||.+|++.+.         .+.|.++|++|.+.|+.||..
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            36888899999999999999999999999999999999999999987654         688999999999999999999


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALL  254 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  254 (324)
                      |||++|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||++||.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCc
Q 038109          255 RLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGL  291 (324)
Q Consensus       255 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  291 (324)
                      +.|++++|.+++++|.+.|..|+..||+.++..|+..
T Consensus       187 ~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999998864

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=4.9e-36  Score=261.58  Aligned_cols=201  Identities=14%  Similarity=0.102  Sum_probs=175.9

Q ss_pred             HHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---------h
Q 038109          120 DEALRVVDIMAEGGFGLSA-ITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGN---------L  189 (324)
Q Consensus       120 ~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~---------~  189 (324)
                      ..+..+.+++.+.+..+.+ ..++.+|++|++.|++++|.++|++|.+.|+.||..|||++|.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            4566677788887776544 46889999999999999999999999999999999999999999998765         6


Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          190 TATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       190 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      +.|.++|++|...|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhHHHHHHHh
Q 038109          270 GGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRDYYE  320 (324)
Q Consensus       270 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~  320 (324)
                      .+.|+.||..+|++||.+|++.|++++|.++|++|++.|+.|+..+...+.
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~  217 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIE  217 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHH
Confidence            999999999999999999999999999999999999999999888766553

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

Probab=99.97  E-value=2.3e-28  Score=219.87  Aligned_cols=296  Identities=12%  Similarity=-0.030  Sum_probs=261.4

Q ss_pred             cccCCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhh
Q 038109            4 LRKLPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSL   83 (324)
Q Consensus         4 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~   83 (324)
                      ...+.+.|.+++|..+++.+...     .++..+|+.++..+.+.|++++|.++|+++.+.+ +.+..++..++.++.+.
T Consensus       279 ~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  352 (597)
T 2xpi_A          279 LNKTSHEDELRRAEDYLSSINGL-----EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHES  352 (597)
T ss_dssp             SCTTTTHHHHHHHHHHHHTSTTG-----GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHH
T ss_pred             HHHHcCcchHHHHHHHHHHhhcC-----CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHh
Confidence            34455666667777666554433     4889999999999999999999999999999764 55778999999999999


Q ss_pred             hhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHH
Q 038109           84 SVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLME  162 (324)
Q Consensus        84 ~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~  162 (324)
                      |++++|..+++.+.+..| +..+|+.++..|.+.|++++|.++|+++.+.. +.+..+|+.++..+.+.|++++|.++|+
T Consensus       353 g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  431 (597)
T 2xpi_A          353 GEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYT  431 (597)
T ss_dssp             TCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999999976666 67799999999999999999999999998753 2367899999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----C
Q 038109          163 VMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD----G  238 (324)
Q Consensus       163 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~  238 (324)
                      ++.+.+ +.+..+|+.++.+|.+.|++++|.++|+++.+.... +..+|+.++..|.+.|++++|.++|+++.+.    +
T Consensus       432 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  509 (597)
T 2xpi_A          432 TAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQY-DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQ  509 (597)
T ss_dssp             HHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccc
Confidence            999875 347899999999999999999999999999987554 8899999999999999999999999999876    6


Q ss_pred             CCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCC
Q 038109          239 QSVL--YSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDL  309 (324)
Q Consensus       239 ~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  309 (324)
                      ..|+  ..+|..+..+|.+.|++++|..+++.+.+.+ +.+..+|..+..+|.+.|++++|.++|+++.+.+-
T Consensus       510 ~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p  581 (597)
T 2xpi_A          510 SNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAISP  581 (597)
T ss_dssp             CCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             cchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            6787  7899999999999999999999999998765 34889999999999999999999999999987543

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

Probab=99.96  E-value=1.5e-27  Score=214.69  Aligned_cols=301  Identities=7%  Similarity=-0.053  Sum_probs=254.1

Q ss_pred             cCCCCccchhHHHHHHHHhhhc------------CCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchh-
Q 038109            6 KLPTKFLIPQSVLVTRSFTKSG------------AFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANT-   72 (324)
Q Consensus         6 ~~~~~~~~~~a~~~~~~~~~~~------------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-   72 (324)
                      .+.+.|++++|..+++......            ..+..++..+|+.++.++.+.|++++|.++|++|.+.+ +.+... 
T Consensus       159 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~  237 (597)
T 2xpi_A          159 CLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD-AKCYEAF  237 (597)
T ss_dssp             HHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-chhhHHH
Confidence            3445677777777766211100            11234568899999999999999999999999998753 222222 


Q ss_pred             -------------------------------------hHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHc
Q 038109           73 -------------------------------------FNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCK  115 (324)
Q Consensus        73 -------------------------------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~  115 (324)
                                                           |+.++..|.+.|++++|.++|+++.+..++..+|+.++.+|.+
T Consensus       238 ~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~  317 (597)
T 2xpi_A          238 DQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFV  317 (597)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHH
Confidence                                                 3444788899999999999999987665788999999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHH
Q 038109          116 LKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGV  195 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  195 (324)
                      .|++++|.++|+++.+.+. .+..++..++.++.+.|++++|..+++++.+.. +.+..+++.++.+|.+.|++++|.++
T Consensus       318 ~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  395 (597)
T 2xpi_A          318 RSRFIDVLAITTKILEIDP-YNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRY  395 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHH
Confidence            9999999999999998654 378899999999999999999999999998654 45789999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCC
Q 038109          196 LKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIK  275 (324)
Q Consensus       196 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (324)
                      |+++.+.... +..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|..+..+|.+.|++++|.++|+.+.+.. +
T Consensus       396 ~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~  472 (597)
T 2xpi_A          396 FSKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-Q  472 (597)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-C
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            9999886544 78899999999999999999999999998764 3577899999999999999999999999998764 3


Q ss_pred             cCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC----CCchh
Q 038109          276 LDTELFGSLGSKLIGLERFNEANFILKEMNKR----DLKMG  312 (324)
Q Consensus       276 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~~~~  312 (324)
                      .++.+|..++..|.+.|++++|.++|+++.+.    +..|+
T Consensus       473 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~  513 (597)
T 2xpi_A          473 YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEK  513 (597)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSG
T ss_pred             CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchh
Confidence            47899999999999999999999999999776    55665

>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=99.93  E-value=3.1e-22  Score=170.61  Aligned_cols=266  Identities=14%  Similarity=-0.004  Sum_probs=185.8

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHc
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCK  115 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~  115 (324)
                      .|..+...+.+.|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.|+++.+..| +..+|..+...+..
T Consensus       103 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  181 (388)
T 1w3b_A          103 GYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNA  181 (388)
T ss_dssp             HHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            45555555555555555555555554431 22223444455555555666666666666554444 34466666666666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHH
Q 038109          116 LKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGV  195 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  195 (324)
                      .|++++|.+.|+++.+... -+...|..+...+...|++++|...+++..+.. +.+..++..+..+|.+.|++++|...
T Consensus       182 ~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  259 (388)
T 1w3b_A          182 QGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDT  259 (388)
T ss_dssp             TTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            6666666666666665432 234556666666666666667766666665543 22567788888888899999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCC
Q 038109          196 LKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIK  275 (324)
Q Consensus       196 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (324)
                      |+++.+.++. +..+|..+...+.+.|++++|.+.|+++.+.. +.+..++..+...+.+.|++++|...++.+.+.. +
T Consensus       260 ~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p  336 (388)
T 1w3b_A          260 YRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-P  336 (388)
T ss_dssp             HHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-T
T ss_pred             HHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-C
Confidence            9988887554 67788888999999999999999999888653 4567888888889999999999999999988764 3


Q ss_pred             cCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          276 LDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       276 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      .+..++..+...|.+.|++++|.+.++++.+..
T Consensus       337 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          337 EFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            467788889999999999999999999887643

>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=99.92  E-value=9.5e-22  Score=167.57  Aligned_cols=268  Identities=13%  Similarity=0.008  Sum_probs=181.3

Q ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHH
Q 038109           34 TSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGR  112 (324)
Q Consensus        34 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~  112 (324)
                      +...|..+...+.+.|++++|.+.|+++.+.. +.+..+|..+..++.+.|++++|.+.++++.+..|+ ...+..+...
T Consensus        66 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  144 (388)
T 1w3b_A           66 LAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNL  144 (388)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            44455555566666666666666666655431 222344555566666666666666666655544443 3345555566


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhH
Q 038109          113 LCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTAT  192 (324)
Q Consensus       113 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  192 (324)
                      +...|++++|.+.|+++.+... -+..+|..+...+.+.|++++|...|+++.+.+. .+...+..+...+...|++++|
T Consensus       145 ~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A  222 (388)
T 1w3b_A          145 LKALGRLEEAKACYLKAIETQP-NFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRA  222 (388)
T ss_dssp             HHTTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHH
Confidence            6666666666666666665421 2455666666666666777777777766666432 2455666666777777777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          193 SGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       193 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      ...|++.....+. +..++..+..+|.+.|++++|.+.|+++.+... .+..++..+...+.+.|++++|...++.+.+.
T Consensus       223 ~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  300 (388)
T 1w3b_A          223 VAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALRL  300 (388)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            7777766665433 577888888889999999999999988887532 34667888888899999999999999888776


Q ss_pred             CCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          273 DIKLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       273 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      . +.+..++..+...+.+.|++++|.+.++++.+.
T Consensus       301 ~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  334 (388)
T 1w3b_A          301 C-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV  334 (388)
T ss_dssp             C-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS
T ss_pred             C-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            4 457888888999999999999999999988764

>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=99.91  E-value=6.2e-21  Score=165.59  Aligned_cols=290  Identities=9%  Similarity=-0.006  Sum_probs=239.8

Q ss_pred             CCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhH
Q 038109            7 LPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVL   86 (324)
Q Consensus         7 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~   86 (324)
                      +...|++++|...++......    +.+...|..+..++...|++++|.+.++++.+.+ +.+...+..+..++.+.|++
T Consensus        36 ~~~~g~~~~A~~~~~~~l~~~----p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  110 (450)
T 2y4t_A           36 LLAAGQLADALSQFHAAVDGD----PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKL  110 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC----TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC----CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCH
Confidence            345677888888888776654    2457789999999999999999999999998864 45567888999999999999


Q ss_pred             HHHHHHHHHHhcCCCCH----HHHHHH------------HHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 038109           87 SDLCRTLARLDKGFPRK----SAYDTL------------IGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR  150 (324)
Q Consensus        87 ~~a~~~~~~~~~~~p~~----~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  150 (324)
                      ++|...|+++.+..|+.    .++..+            ...+...|++++|+..|+++.+.. +.+..++..+...+.+
T Consensus       111 ~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  189 (450)
T 2y4t_A          111 DEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIK  189 (450)
T ss_dssp             HHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            99999999998877754    455555            444889999999999999998753 3377888999999999


Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHH------------HHHH
Q 038109          151 GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDAL------------VLGA  218 (324)
Q Consensus       151 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l------------i~~~  218 (324)
                      .|++++|...++++.+.. +.+..++..+..+|...|++++|...|+++...... +...+..+            ...+
T Consensus       190 ~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~  267 (450)
T 2y4t_A          190 EGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEEL  267 (450)
T ss_dssp             TTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999988764 346889999999999999999999999999876443 45555555            7889


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcC-----HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCC
Q 038109          219 CRAGRVEEAFVLLRRMVDDGQSVL-----YSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLER  293 (324)
Q Consensus       219 ~~~g~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  293 (324)
                      .+.|++++|.+.|+++.+..  |+     ...+..+...+.+.|++++|...++.+.+.. +.+...|..+..+|...|+
T Consensus       268 ~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~  344 (450)
T 2y4t_A          268 IRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEM  344 (450)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcC
Confidence            99999999999999998643  44     4477888899999999999999999887653 3368889999999999999


Q ss_pred             HHHHHHHHHHHHhC
Q 038109          294 FNEANFILKEMNKR  307 (324)
Q Consensus       294 ~~~a~~~~~~m~~~  307 (324)
                      +++|.+.+++..+.
T Consensus       345 ~~~A~~~~~~al~~  358 (450)
T 2y4t_A          345 YDEAIQDYETAQEH  358 (450)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999998864

>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=99.89  E-value=3e-20  Score=161.27  Aligned_cols=268  Identities=12%  Similarity=-0.021  Sum_probs=227.3

Q ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHH
Q 038109           33 PTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIG  111 (324)
Q Consensus        33 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~  111 (324)
                      .+...+..+...+.+.|++++|.++|+.+.+. .+.+..++..+..++...|++++|...++++.+..| +..+|..+..
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  102 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDG-DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHH
Confidence            45677899999999999999999999999875 356678999999999999999999999999977666 5679999999


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCh---hhHHHHH------------HHHHccCcHHHHHHHHHHHHhCCCCCCHHHH
Q 038109          112 RLCKLKKIDEALRVVDIMAEGGFGLSA---ITFHPIL------------SVLTRGKRMEEAWGLMEVMKEIRVSPDLTAY  176 (324)
Q Consensus       112 ~~~~~~~~~~a~~~~~~m~~~g~~~~~---~~~~~li------------~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  176 (324)
                      .|.+.|++++|.+.|+++.+.... +.   ..+..+.            ..+.+.|++++|...++++.+.. +.+..++
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  180 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELR  180 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHH
Confidence            999999999999999999985322 33   5555553            44889999999999999998864 3478889


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHH------
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL-YSTYAHV------  249 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~l------  249 (324)
                      ..+..+|.+.|++++|...|+++.+.... +..+|..+...|...|++++|...|+++....  |+ ...+..+      
T Consensus       181 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~~~~  257 (450)
T 2y4t_A          181 ELRAECFIKEGEPRKAISDLKAASKLKND-NTEAFYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVKKL  257 (450)
T ss_dssp             HHHHHHHHHTTCGGGGHHHHHHHHHHHCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CChHHHHHHHHHHHHH
Confidence            99999999999999999999999876544 78999999999999999999999999998653  43 3334333      


Q ss_pred             ------HHHHHhcCCHHHHHHHHHHhCCCCCCcC-----HhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          250 ------MGALLRLGYYAQAVKFVMVCGGRDIKLD-----TELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       250 ------i~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                            ...+...|++++|..+++.+.+..  |+     ...|..+...+.+.|++++|...++++.+..
T Consensus       258 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  325 (450)
T 2y4t_A          258 NKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME  325 (450)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence                  788999999999999999987753  33     4578889999999999999999999987653

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

Probab=99.88  E-value=2.9e-22  Score=180.98  Aligned_cols=151  Identities=16%  Similarity=0.093  Sum_probs=118.3

Q ss_pred             ChhhHHHHHHHHHccCcHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHH
Q 038109          137 SAITFHPILSVLTRGKRMEEAWGLMEVMKE---IRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDA  213 (324)
Q Consensus       137 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  213 (324)
                      -..||+++|++|++.|++++|.++|++|.+   .|+.||++|||+||.+||+.|++++|.++|++|.+.|+.||..|||+
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            346899999999999999999999887764   47889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCC-HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcC------HhHHHHHHH
Q 038109          214 LVLGACRAGR-VEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLD------TELFGSLGS  286 (324)
Q Consensus       214 li~~~~~~g~-~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~  286 (324)
                      +|.++++.|+ .++|.++|++|.+.|+.||..||++++.++.+.+    +++.++.+ .-++.|+      ..+...|.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~----vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT----VLKAVHKV-KPTFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH----HHHHHGGG-CCCCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH----HHHHHHHh-CcccCCCCCCcccccchHHHHH
Confidence            9999999887 4788899999998899999999998887766553    33334444 2334443      445555666


Q ss_pred             HHhCcC
Q 038109          287 KLIGLE  292 (324)
Q Consensus       287 ~~~~~g  292 (324)
                      .|.+.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            776654

>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=99.87  E-value=1.6e-19  Score=149.90  Aligned_cols=272  Identities=10%  Similarity=-0.027  Sum_probs=231.3

Q ss_pred             CCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHH
Q 038109           32 EPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLI  110 (324)
Q Consensus        32 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li  110 (324)
                      ..+...+..+...+...|++++|.++++++.+.. +.+...+..++.++...|++++|...++++.+..| +..+|..+.
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~   97 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVG   97 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            3444557888888999999999999999998763 45566777788999999999999999999977666 566899999


Q ss_pred             HHHHccC-CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 038109          111 GRLCKLK-KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNL  189 (324)
Q Consensus       111 ~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  189 (324)
                      ..+...| ++++|.+.|++..+... .+...|..+...+...|++++|...+++..+... .+...+..+...|...|++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEK-TYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCT-TCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhH
Confidence            9999999 99999999999988643 3577889999999999999999999999988653 3456777799999999999


Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--------CCcCHHHHHHHHHHHHhcCCHHH
Q 038109          190 TATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDG--------QSVLYSTYAHVMGALLRLGYYAQ  261 (324)
Q Consensus       190 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--------~~p~~~~~~~li~~~~~~g~~~~  261 (324)
                      ++|...+++..+.... +...+..+...+...|++++|...+++..+..        ...+..++..+...+...|++++
T Consensus       176 ~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          176 KLAERFFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            9999999999987654 78899999999999999999999999887631        12345788889999999999999


Q ss_pred             HHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          262 AVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       262 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      |...++...+... .+...+..+...|.+.|++++|.+.+++..+..
T Consensus       255 A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  300 (330)
T 3hym_B          255 ALDYHRQALVLIP-QNASTYSAIGYIHSLMGNFENAVDYFHTALGLR  300 (330)
T ss_dssp             HHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC
T ss_pred             HHHHHHHHHhhCc-cchHHHHHHHHHHHHhccHHHHHHHHHHHHccC
Confidence            9999999887643 367888999999999999999999999887554

>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=99.87  E-value=4.5e-20  Score=155.87  Aligned_cols=266  Identities=14%  Similarity=0.042  Sum_probs=221.5

Q ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Q 038109           34 TSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGR  112 (324)
Q Consensus        34 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~  112 (324)
                      +...+..+...+.+.|++++|...++++.+.. +.+..++..+..++...|++++|...++++.+..| +..++..+...
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~  141 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVS  141 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            34557888889999999999999999999863 55678899999999999999999999999977666 67799999999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCChhhHHH---------------HHHHHHccCcHHHHHHHHHHHHhCCCCC-CHHHH
Q 038109          113 LCKLKKIDEALRVVDIMAEGGFGLSAITFHP---------------ILSVLTRGKRMEEAWGLMEVMKEIRVSP-DLTAY  176 (324)
Q Consensus       113 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~---------------li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~  176 (324)
                      +...|++++|.+.++++.+.... +...+..               .+..+...|++++|...++++.+..... +..++
T Consensus       142 ~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~  220 (368)
T 1fch_A          142 FTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQ  220 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHH
Confidence            99999999999999999986433 2222221               2344448899999999999998864321 57889


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRL  256 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  256 (324)
                      ..+...|...|++++|...|++..+.... +..+|..+...+...|++++|...|++..+.. +.+..++..+...+.+.
T Consensus       221 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~  298 (368)
T 1fch_A          221 CGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINL  298 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHC
Confidence            99999999999999999999999887544 68899999999999999999999999988753 24567888899999999


Q ss_pred             CCHHHHHHHHHHhCCCCCCc----------CHhHHHHHHHHHhCcCCHHHHHHHHHH
Q 038109          257 GYYAQAVKFVMVCGGRDIKL----------DTELFGSLGSKLIGLERFNEANFILKE  303 (324)
Q Consensus       257 g~~~~a~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~g~~~~a~~~~~~  303 (324)
                      |++++|...++...+.....          ...+|..+..+|.+.|+.++|..++++
T Consensus       299 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          299 GAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             TCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence            99999999998886643221          268899999999999999999988763

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

Probab=99.86  E-value=5.3e-18  Score=142.28  Aligned_cols=292  Identities=10%  Similarity=0.007  Sum_probs=242.3

Q ss_pred             CCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhH
Q 038109            7 LPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVL   86 (324)
Q Consensus         7 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~   86 (324)
                      +...|++++|...++.......    .+...|..+...+...|++++|...++.+.+.. +.+...+..+..++...|++
T Consensus        13 ~~~~g~~~~A~~~~~~~l~~~p----~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~   87 (359)
T 3ieg_A           13 LLAAGQLADALSQFHAAVDGDP----DNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKL   87 (359)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHcCCHHHHHHHHHHHHhhCc----ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCCh
Confidence            3456788899998888776552    346789999999999999999999999998763 44668899999999999999


Q ss_pred             HHHHHHHHHHhcCCC---CHH-HHHHH------------HHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 038109           87 SDLCRTLARLDKGFP---RKS-AYDTL------------IGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR  150 (324)
Q Consensus        87 ~~a~~~~~~~~~~~p---~~~-~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  150 (324)
                      ++|...++++.+..|   +.. .+..+            ...+...|++++|.+.++++.+... .+..++..+...+..
T Consensus        88 ~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~  166 (359)
T 3ieg_A           88 DEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV-WDAELRELRAECFIK  166 (359)
T ss_dssp             HHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHH
Confidence            999999999988888   433 45444            5889999999999999999988643 467889999999999


Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHH------------HHHHHH
Q 038109          151 GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYD------------ALVLGA  218 (324)
Q Consensus       151 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~------------~li~~~  218 (324)
                      .|++++|...+++..+.. +.+..++..+...+...|++++|...|++..+.... +...+.            .+...+
T Consensus       167 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~  244 (359)
T 3ieg_A          167 EGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEEL  244 (359)
T ss_dssp             TTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998874 347889999999999999999999999999876544 444443            236678


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcCH----HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCH
Q 038109          219 CRAGRVEEAFVLLRRMVDDGQSVLY----STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERF  294 (324)
Q Consensus       219 ~~~g~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  294 (324)
                      .+.|++++|...+++..+.... +.    ..+..+...+...|++++|...++...+.. +.+...+..+...|.+.|++
T Consensus       245 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~  322 (359)
T 3ieg_A          245 IRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMY  322 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCH
Confidence            9999999999999998875322 22    234557788999999999999999988764 33788999999999999999


Q ss_pred             HHHHHHHHHHHhCC
Q 038109          295 NEANFILKEMNKRD  308 (324)
Q Consensus       295 ~~a~~~~~~m~~~~  308 (324)
                      ++|.+.|++..+.+
T Consensus       323 ~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          323 DEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhcC
Confidence            99999999998654

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

Probab=99.86  E-value=8.7e-22  Score=177.88  Aligned_cols=149  Identities=14%  Similarity=0.101  Sum_probs=123.9

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHh---CCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 038109          104 SAYDTLIGRLCKLKKIDEALRVVDIMAE---GGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLL  180 (324)
Q Consensus       104 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  180 (324)
                      .+||++|++|++.|++++|.++|++|.+   .|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||.+|||++|
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            3899999999999999999999988764   5899999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCh-hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC------HHHHHHHHHHH
Q 038109          181 TAYCFKGNL-TATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL------YSTYAHVMGAL  253 (324)
Q Consensus       181 ~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~------~~~~~~li~~~  253 (324)
                      .++++.|+. ++|.++|++|.+.|+.||..+|++++.++.+.    .+++..+++ ..+..|+      ..|...|.+.|
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl~  282 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDVY  282 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHHH
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHHH
Confidence            999999985 78999999999999999999999998766553    344444444 2344443      34444455555


Q ss_pred             HhcC
Q 038109          254 LRLG  257 (324)
Q Consensus       254 ~~~g  257 (324)
                      .+.+
T Consensus       283 s~d~  286 (1134)
T 3spa_A          283 AKDG  286 (1134)
T ss_dssp             CCCS
T ss_pred             ccCC
Confidence            5443

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

Probab=99.84  E-value=2.2e-19  Score=151.58  Aligned_cols=267  Identities=12%  Similarity=0.003  Sum_probs=216.7

Q ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Q 038109           34 TSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGR  112 (324)
Q Consensus        34 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~  112 (324)
                      +...|..+...+.+.|++++|.+.|+++.+.. +.+..++..+..++...|++++|...|+++.+..| +..+|..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            34458888889999999999999999998863 56678999999999999999999999999977666 57799999999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCC---------CChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCC-CCHHHHHHHHHH
Q 038109          113 LCKLKKIDEALRVVDIMAEGGFG---------LSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVS-PDLTAYNYLLTA  182 (324)
Q Consensus       113 ~~~~~~~~~a~~~~~~m~~~g~~---------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~  182 (324)
                      |...|++++|++.|+++.+....         .....+..+...+.+.|++++|...++++.+.... ++..++..+...
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            99999999999999999874311         01223344578889999999999999999886432 268899999999


Q ss_pred             HHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 038109          183 YCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQA  262 (324)
Q Consensus       183 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  262 (324)
                      |...|++++|...|++..+.... +..+|..+..+|.+.|++++|.+.|++..+.. +.+..++..+...|...|++++|
T Consensus       223 ~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999999887554 78899999999999999999999999988753 23477888899999999999999


Q ss_pred             HHHHHHhCCCCCC-----------cCHhHHHHHHHHHhCcCCHHHHHHHHHH
Q 038109          263 VKFVMVCGGRDIK-----------LDTELFGSLGSKLIGLERFNEANFILKE  303 (324)
Q Consensus       263 ~~~~~~~~~~~~~-----------~~~~~~~~l~~~~~~~g~~~~a~~~~~~  303 (324)
                      ...++.+.+....           .+...|..+..++...|+.+.+.++.++
T Consensus       301 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          301 VSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999888653211           1367889999999999999988877654

>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=99.84  E-value=1.2e-17  Score=138.51  Aligned_cols=278  Identities=12%  Similarity=-0.030  Sum_probs=231.4

Q ss_pred             CCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhh-hHH
Q 038109            9 TKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLS-VLS   87 (324)
Q Consensus         9 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-~~~   87 (324)
                      ..|++++|...++........    +...+..++..+...|++++|..+++++.+.. +.+...+..+...+...| +++
T Consensus        34 ~~g~~~~A~~~~~~~l~~~p~----~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  108 (330)
T 3hym_B           34 YNCDFKMCYKLTSVVMEKDPF----HASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNE  108 (330)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT----CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHH
T ss_pred             HcCCHHHHHHHHHHHHHcCCC----ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHH
Confidence            457889999988887766532    22346777788899999999999999998863 556788999999999999 999


Q ss_pred             HHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHh
Q 038109           88 DLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKE  166 (324)
Q Consensus        88 ~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  166 (324)
                      +|...+++..+..| +..+|..+...+...|++++|.+.++++.+.... +...+..+...+...|++++|...+++..+
T Consensus       109 ~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  187 (330)
T 3hym_B          109 HARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALS  187 (330)
T ss_dssp             HHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            99999999988777 4668999999999999999999999999886432 566777889999999999999999999988


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC--------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 038109          167 IRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK--------LGADARTYDALVLGACRAGRVEEAFVLLRRMVDDG  238 (324)
Q Consensus       167 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  238 (324)
                      .. +.+..++..+...+...|++++|...+++..+..        ...+..++..+...+...|++++|.+.+++..+..
T Consensus       188 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  266 (330)
T 3hym_B          188 IA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI  266 (330)
T ss_dssp             TC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC
Confidence            75 3467889999999999999999999999887642        13346789999999999999999999999988754


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHH-hCcCCHH
Q 038109          239 QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKL-IGLERFN  295 (324)
Q Consensus       239 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~  295 (324)
                      . .+...+..+...+...|++++|...++...+... .+...+..+..++ ...|+.+
T Consensus       267 ~-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          267 P-QNASTYSAIGYIHSLMGNFENAVDYFHTALGLRR-DDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             T-TCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCS-CCHHHHHHHHHHHHTTTTC--
T ss_pred             c-cchHHHHHHHHHHHHhccHHHHHHHHHHHHccCC-CchHHHHHHHHHHHHHhCchh
Confidence            2 3567888899999999999999999999988753 3677888888877 4566654

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

Probab=99.84  E-value=1.5e-18  Score=152.91  Aligned_cols=289  Identities=10%  Similarity=-0.070  Sum_probs=239.7

Q ss_pred             CCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHH
Q 038109            8 PTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLS   87 (324)
Q Consensus         8 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~   87 (324)
                      ...|.+++|...++......     |+...|..+..++.+.|++++|.+.++.+.+.+ +.+...+..+..++...|+++
T Consensus        17 ~~~g~~~~A~~~~~~al~~~-----p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~   90 (514)
T 2gw1_A           17 FRNKKYDDAIKYYNWALELK-----EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFA   90 (514)
T ss_dssp             HHTSCHHHHHHHHHHHHHHC-----CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHhccHHHHHHHHHHHHhcC-----ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHH
Confidence            34678888988888887766     788999999999999999999999999998864 455678999999999999999


Q ss_pred             HHHHHHHHHhcCCCC-----------------------------------------------------------------
Q 038109           88 DLCRTLARLDKGFPR-----------------------------------------------------------------  102 (324)
Q Consensus        88 ~a~~~~~~~~~~~p~-----------------------------------------------------------------  102 (324)
                      +|...|+++....|.                                                                 
T Consensus        91 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (514)
T 2gw1_A           91 DAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGI  170 (514)
T ss_dssp             HHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhh
Confidence            999999988544331                                                                 


Q ss_pred             ---------------HHHHHHHHHHHHc---cCCHHHHHHHHHHHHh-----CCCC--------CChhhHHHHHHHHHcc
Q 038109          103 ---------------KSAYDTLIGRLCK---LKKIDEALRVVDIMAE-----GGFG--------LSAITFHPILSVLTRG  151 (324)
Q Consensus       103 ---------------~~~~~~li~~~~~---~~~~~~a~~~~~~m~~-----~g~~--------~~~~~~~~li~~~~~~  151 (324)
                                     ...+......+..   .|++++|...|+++.+     ..-.        .+..++..+...+...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (514)
T 2gw1_A          171 FKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLK  250 (514)
T ss_dssp             SCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHS
T ss_pred             cCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHC
Confidence                           2233333333443   8999999999999987     3111        2356788888899999


Q ss_pred             CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 038109          152 KRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLL  231 (324)
Q Consensus       152 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  231 (324)
                      |++++|...+++..+...  +..++..+..++...|++++|...++++.+.... +...+..+...+...|++++|...+
T Consensus       251 ~~~~~A~~~~~~~l~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~  327 (514)
T 2gw1_A          251 NDPLGAHEDIKKAIELFP--RVNSYIYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFILQNYDQAGKDF  327 (514)
T ss_dssp             SCHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHHTTCTTHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhCc--cHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            999999999999988653  3888999999999999999999999999887554 6788999999999999999999999


Q ss_pred             HHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          232 RRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       232 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      ++..+... .+..++..+...+...|++++|..+++.+.+.. +.+...+..+...+.+.|++++|.+.++++.+.
T Consensus       328 ~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  401 (514)
T 2gw1_A          328 DKAKELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIEL  401 (514)
T ss_dssp             HHHHHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99987643 356778888999999999999999999987754 336778889999999999999999999988653

>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=99.84  E-value=2.2e-18  Score=142.88  Aligned_cols=263  Identities=11%  Similarity=0.005  Sum_probs=219.8

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHH
Q 038109           36 AYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLC  114 (324)
Q Consensus        36 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~  114 (324)
                      ..+-.+...+...|++++|.++++++.+.. +.+...+..+..++...|++++|...++++.+..| +..++..+...+.
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~  100 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHT  100 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHH
Confidence            346777788999999999999999998763 45678888999999999999999999999977666 5678999999999


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCChhhHHHH--------------HH-HHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 038109          115 KLKKIDEALRVVDIMAEGGFGLSAITFHPI--------------LS-VLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYL  179 (324)
Q Consensus       115 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l--------------i~-~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  179 (324)
                      ..|++++|.+.++++.+.... +...+..+              .. .+...|++++|...++++.+... .+..++..+
T Consensus       101 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l  178 (327)
T 3cv0_A          101 NEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNP-NDAQLHASL  178 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHST-TCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCC-CCHHHHHHH
Confidence            999999999999999986432 33334333              22 37788999999999999988653 378889999


Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 038109          180 LTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYY  259 (324)
Q Consensus       180 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  259 (324)
                      ...|...|++++|...++++.+.... +..++..+...+...|++++|.+.+++..+.. +.+..++..+...+...|++
T Consensus       179 a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~  256 (327)
T 3cv0_A          179 GVLYNLSNNYDSAAANLRRAVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQY  256 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccH
Confidence            99999999999999999999887544 68899999999999999999999999988753 24577888899999999999


Q ss_pred             HHHHHHHHHhCCCCCCc-----------CHhHHHHHHHHHhCcCCHHHHHHHHHH
Q 038109          260 AQAVKFVMVCGGRDIKL-----------DTELFGSLGSKLIGLERFNEANFILKE  303 (324)
Q Consensus       260 ~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~a~~~~~~  303 (324)
                      ++|...++.........           +...|..+..++.+.|+.++|..++++
T Consensus       257 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          257 DLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             HHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            99999998886653221           477889999999999999999999874

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

Probab=99.83  E-value=2.7e-17  Score=137.92  Aligned_cols=270  Identities=12%  Similarity=-0.031  Sum_probs=222.9

Q ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Q 038109           34 TSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGR  112 (324)
Q Consensus        34 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~  112 (324)
                      ++..+..+...+...|++++|.+.|+.+.+.. +.+..++..+..++...|++++|...++++.+..| +...|..+...
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~   80 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHL   80 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            34567888889999999999999999998863 55678899999999999999999999999977677 56789999999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCC--CChhhHHHH------------HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHH
Q 038109          113 LCKLKKIDEALRVVDIMAEGGFG--LSAITFHPI------------LSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNY  178 (324)
Q Consensus       113 ~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  178 (324)
                      +...|++++|...|++..+....  .+...+..+            ...+...|++++|...++++.+.. +.+...+..
T Consensus        81 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  159 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELREL  159 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHH
Confidence            99999999999999999875320  134444444            578889999999999999998864 347788999


Q ss_pred             HHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHH-----------
Q 038109          179 LLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYA-----------  247 (324)
Q Consensus       179 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~-----------  247 (324)
                      +..++...|++++|...+++..+..+. +..++..+...+...|++++|.+.|++..+... .+...+.           
T Consensus       160 ~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~  237 (359)
T 3ieg_A          160 RAECFIKEGEPRKAISDLKAASKLKSD-NTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKL  237 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCSC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHHHH
Confidence            999999999999999999999987554 789999999999999999999999999886532 2222222           


Q ss_pred             -HHHHHHHhcCCHHHHHHHHHHhCCCCCCcCH----hHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          248 -HVMGALLRLGYYAQAVKFVMVCGGRDIKLDT----ELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       248 -~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                       .+...+.+.|++++|...++...+.... +.    ..+..+...+.+.|++++|.+.+++..+.+
T Consensus       238 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  302 (359)
T 3ieg_A          238 IESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME  302 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence             2356688999999999999988775432 33    335567889999999999999999998754

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

Probab=99.81  E-value=1.2e-17  Score=147.12  Aligned_cols=267  Identities=12%  Similarity=-0.033  Sum_probs=222.6

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHH
Q 038109           36 AYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLC  114 (324)
Q Consensus        36 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~  114 (324)
                      ..|...-..+.+.|++++|.+.|+++.+.+  |+..++..+..++...|++++|...++++.+..| +..+|..+..++.
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHH
Confidence            456777788999999999999999999864  7899999999999999999999999999977777 4669999999999


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCC---------------------------------------------------------
Q 038109          115 KLKKIDEALRVVDIMAEGGFGLS---------------------------------------------------------  137 (324)
Q Consensus       115 ~~~~~~~a~~~~~~m~~~g~~~~---------------------------------------------------------  137 (324)
                      +.|++++|...|+++.+.+...+                                                         
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            99999999999999877542110                                                         


Q ss_pred             ---------------------hhhHHHHHHHHH---ccCcHHHHHHHHHHHHh-----CCC--------CCCHHHHHHHH
Q 038109          138 ---------------------AITFHPILSVLT---RGKRMEEAWGLMEVMKE-----IRV--------SPDLTAYNYLL  180 (324)
Q Consensus       138 ---------------------~~~~~~li~~~~---~~~~~~~a~~~~~~m~~-----~~~--------~~~~~~~~~li  180 (324)
                                           ...+......+.   +.|++++|...++++.+     ..-        +.+..++..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence                                 222222223233   38999999999999887     311        22356788899


Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHH
Q 038109          181 TAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYA  260 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  260 (324)
                      ..+...|++++|...|+++.+....  ...+..+...+...|++++|.+.+++..... +.+..++..+...+...|+++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHH
Confidence            9999999999999999999887544  8889999999999999999999999998653 245678888999999999999


Q ss_pred             HHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          261 QAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       261 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      +|...++...+.... +...+..+...+.+.|++++|.++++++.+..
T Consensus       322 ~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  368 (514)
T 2gw1_A          322 QAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF  368 (514)
T ss_dssp             HHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc
Confidence            999999998776533 67788899999999999999999999987653

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

Probab=99.81  E-value=1.4e-17  Score=135.97  Aligned_cols=251  Identities=13%  Similarity=0.057  Sum_probs=168.9

Q ss_pred             HHHhcCCCHHHHHHHHHHHHhcCCCCCc--hhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHH
Q 038109           43 NAAGHERDLETVRYLLNKRARDCCFNTA--NTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKID  120 (324)
Q Consensus        43 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~  120 (324)
                      +-....|++..|+...+.....  .|+.  .....+.++|...|+++.|...++..  ..|+..++..+...+...++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~--~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKPS--SAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT--SCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhccc--CChhHHHHHHHHHHHcCCCcHH
Confidence            3445677787777777665432  2332  23445667778888887777655431  2245557777777888888888


Q ss_pred             HHHHHHHHHHhCCCCC-ChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHH
Q 038109          121 EALRVVDIMAEGGFGL-SAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKM  199 (324)
Q Consensus       121 ~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  199 (324)
                      +|++.++++...+..| +...+..+...+...|++++|.+.+++      +.+...+..+...+.+.|++++|.+.|+++
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  156 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKM  156 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            8888888877766444 344555556777788888888887776      356677777778888888888888888887


Q ss_pred             HHCCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc
Q 038109          200 EEEKLGADARTY---DALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL  276 (324)
Q Consensus       200 ~~~~~~~~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (324)
                      .+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|...+++.....+ -
T Consensus       157 ~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p-~  232 (291)
T 3mkr_A          157 QDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDS-G  232 (291)
T ss_dssp             HHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-T
T ss_pred             HhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-C
Confidence            7664  332211   22233344557788888888887765 335667777777788888888888888877766543 3


Q ss_pred             CHhHHHHHHHHHhCcCCHHH-HHHHHHHHHhC
Q 038109          277 DTELFGSLGSKLIGLERFNE-ANFILKEMNKR  307 (324)
Q Consensus       277 ~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~~  307 (324)
                      ++.++..++..+...|+.++ +.++++++.+.
T Consensus       233 ~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          233 HPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            66777777777777777765 46777776643

>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=99.80  E-value=1.6e-17  Score=140.11  Aligned_cols=258  Identities=10%  Similarity=-0.091  Sum_probs=204.3

Q ss_pred             hcCCCHHHHHH-HHHHHHhcCC-CC--CchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHH
Q 038109           46 GHERDLETVRY-LLNKRARDCC-FN--TANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKID  120 (324)
Q Consensus        46 ~~~~~~~~a~~-~~~~m~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~  120 (324)
                      .-.|++++|.+ .+++.....- .|  +...+..+...+...|++++|...++++.+..| +..+|..+...+...|+++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~  115 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQEL  115 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHH
Confidence            34578888888 7776554311 11  356678889999999999999999999987776 5668999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHH---------------HHHHHHh
Q 038109          121 EALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNY---------------LLTAYCF  185 (324)
Q Consensus       121 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~---------------li~~~~~  185 (324)
                      +|.+.|+++.+... .+..++..+...+...|++++|...++++.+.... +...+..               .+..+..
T Consensus       116 ~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (368)
T 1fch_A          116 LAISALRRCLELKP-DNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLS  193 (368)
T ss_dssp             HHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHH
T ss_pred             HHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhh
Confidence            99999999988643 37888999999999999999999999999886532 2222221               2344448


Q ss_pred             cCChhhHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          186 KGNLTATSGVLKKMEEEKLGA-DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVK  264 (324)
Q Consensus       186 ~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  264 (324)
                      .|++++|...|+++.+..... +..++..+...|.+.|++++|...|++..... +.+..++..+...+...|++++|..
T Consensus       194 ~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  272 (368)
T 1fch_A          194 DSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVA  272 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999998864432 58899999999999999999999999988753 2456788999999999999999999


Q ss_pred             HHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          265 FVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       265 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      .++.+.+.. +.+...+..+...|.+.|++++|...|++..+.
T Consensus       273 ~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          273 AYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999987764 346788999999999999999999999988653

>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=99.78  E-value=2.1e-17  Score=146.48  Aligned_cols=288  Identities=12%  Similarity=-0.000  Sum_probs=219.5

Q ss_pred             CCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHH
Q 038109            8 PTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLS   87 (324)
Q Consensus         8 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~   87 (324)
                      ...|++++|...++.......    .++..|..+..++.+.|++++|.+.++++.+.+ +.+...+..+..++...|+++
T Consensus        36 ~~~g~~~~A~~~~~~al~~~p----~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~  110 (537)
T 3fp2_A           36 FTAKNFNEAIKYYQYAIELDP----NEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFT  110 (537)
T ss_dssp             HHTTCCC-CHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHhccHHHHHHHHHHHHhhCC----CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHH
Confidence            345777888888877776652    356778888888888999999999998888753 455677888888888899999


Q ss_pred             HHHHHHHHHhcCCCCHH---------------------------------------------------------------
Q 038109           88 DLCRTLARLDKGFPRKS---------------------------------------------------------------  104 (324)
Q Consensus        88 ~a~~~~~~~~~~~p~~~---------------------------------------------------------------  104 (324)
                      +|...|+.+. ..|+..                                                               
T Consensus       111 ~A~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (537)
T 3fp2_A          111 DAMFDLSVLS-LNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNY  189 (537)
T ss_dssp             HHHHHHHHHC------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSS
T ss_pred             HHHHHHHHHh-cCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhcccc
Confidence            9998886442 222211                                                               


Q ss_pred             ------HHHHHHHHHHc--------cCCHHHHHHHHHHHHhCCCCCC-------hhhHHHHHHHHHccCcHHHHHHHHHH
Q 038109          105 ------AYDTLIGRLCK--------LKKIDEALRVVDIMAEGGFGLS-------AITFHPILSVLTRGKRMEEAWGLMEV  163 (324)
Q Consensus       105 ------~~~~li~~~~~--------~~~~~~a~~~~~~m~~~g~~~~-------~~~~~~li~~~~~~~~~~~a~~~~~~  163 (324)
                            ....+...+..        .|++++|..+++++.+.... +       ..++..+...+...|++++|...++.
T Consensus       190 ~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~  268 (537)
T 3fp2_A          190 DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHFLKNNLLDAQVLLQE  268 (537)
T ss_dssp             CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence                  01111111111        13678888888888765322 2       23466666778889999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH
Q 038109          164 MKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLY  243 (324)
Q Consensus       164 m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  243 (324)
                      ..+..  |+..++..+...+...|++++|...|++..+.... +..+|..+...+...|++++|.+.|++..+... .+.
T Consensus       269 ~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~  344 (537)
T 3fp2_A          269 SINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-ENV  344 (537)
T ss_dssp             HHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCS
T ss_pred             HHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCH
Confidence            98864  56888889999999999999999999999887554 788899999999999999999999999887542 345


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          244 STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      ..+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|.+.+++..+.
T Consensus       345 ~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          345 YPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            778888999999999999999999888764 336778889999999999999999999987653

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

Probab=99.78  E-value=2e-17  Score=139.61  Aligned_cols=236  Identities=10%  Similarity=-0.089  Sum_probs=194.3

Q ss_pred             CchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 038109           69 TANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSV  147 (324)
Q Consensus        69 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  147 (324)
                      +...+..+...+.+.|++++|...|+++.+..| +..+|..+...|...|++++|+..|+++.+.. +.+..++..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            445688889999999999999999999977666 57799999999999999999999999998864 2367889999999


Q ss_pred             HHccCcHHHHHHHHHHHHhCCCC---------CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-CCHHHHHHHHHH
Q 038109          148 LTRGKRMEEAWGLMEVMKEIRVS---------PDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG-ADARTYDALVLG  217 (324)
Q Consensus       148 ~~~~~~~~~a~~~~~~m~~~~~~---------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~  217 (324)
                      +...|++++|...++++.+....         .....+..+...+...|++++|...|+++.+.... ++..++..+...
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            99999999999999998875311         01233445688899999999999999999887543 268899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHH
Q 038109          218 ACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEA  297 (324)
Q Consensus       218 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  297 (324)
                      |...|++++|.+.|++..+.. +.+..++..+..+|...|++++|...++.+.+.. +.+...+..+...|.+.|++++|
T Consensus       223 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            999999999999999998753 3457889999999999999999999999988764 33588899999999999999999


Q ss_pred             HHHHHHHHhC
Q 038109          298 NFILKEMNKR  307 (324)
Q Consensus       298 ~~~~~~m~~~  307 (324)
                      ...|++..+.
T Consensus       301 ~~~~~~al~~  310 (365)
T 4eqf_A          301 VSNFLTALSL  310 (365)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998653

>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=99.78  E-value=3.1e-16  Score=138.95  Aligned_cols=228  Identities=11%  Similarity=-0.015  Sum_probs=118.9

Q ss_pred             hchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHH
Q 038109           78 NTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEA  157 (324)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a  157 (324)
                      ..+...|++++|...++.+.+..|+..+|..+...+...|++++|.+.++++.+... .+..++..+...+...|++++|
T Consensus       251 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A  329 (537)
T 3fp2_A          251 IFHFLKNNLLDAQVLLQESINLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQDYKNA  329 (537)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcCCHHHH
Confidence            333444444555555554444444444445555555555555555555555544321 1344455555555555555555


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          158 WGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       158 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      ...+++..+... .+...+..+..++...|++++|...++++.+.... +...+..+...+...|++++|.+.|++..+.
T Consensus       330 ~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          330 KEDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPT-LPEVPTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             HHHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            555555554321 13344555555555555555555555555544322 3445555555555556666665555554432


Q ss_pred             C-----CCcCHHHHHHHHHHHHhc----------CCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHH
Q 038109          238 G-----QSVLYSTYAHVMGALLRL----------GYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILK  302 (324)
Q Consensus       238 ~-----~~p~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  302 (324)
                      .     .......+......+...          |++++|...++...+.. +.+...+..+...|.+.|++++|.+.|+
T Consensus       408 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~  486 (537)
T 3fp2_A          408 EEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFE  486 (537)
T ss_dssp             HHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            1     001111122233444455          66666666666655543 2356677777777888888888888888


Q ss_pred             HHHhCCC
Q 038109          303 EMNKRDL  309 (324)
Q Consensus       303 ~m~~~~~  309 (324)
                      +..+..-
T Consensus       487 ~al~~~~  493 (537)
T 3fp2_A          487 DSAILAR  493 (537)
T ss_dssp             HHHHHC-
T ss_pred             HHHHhCC
Confidence            7765543

>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=99.77  E-value=4.4e-18  Score=142.88  Aligned_cols=250  Identities=12%  Similarity=0.123  Sum_probs=109.4

Q ss_pred             CccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHH
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDL   89 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a   89 (324)
                      .|++++|.+.++..         +++.+|..+..++.+.|++++|.+.|.+      .+|..+|..++..+...|++++|
T Consensus        16 ~~~ld~A~~fae~~---------~~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeA   80 (449)
T 1b89_A           16 IGNLDRAYEFAERC---------NEPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEEL   80 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccCHHHHHHHHHhC---------CChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHH
Confidence            34466666655544         2234799999999999999999999964      25777899999999999999999


Q ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCC
Q 038109           90 CRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRV  169 (324)
Q Consensus        90 ~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  169 (324)
                      .+.++...+..++..+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+     
T Consensus        81 i~yl~~ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           81 VKYLQMARKKARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHHHhCccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            99888777666677788899999999999999888874       267779999999999999999999999966     


Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHH
Q 038109          170 SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHV  249 (324)
Q Consensus       170 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  249 (324)
                          ..|..+..++.+.|++++|.+.++++      .++.+|..++.+|+..|+++.|......+.   ..|+  -...+
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~~ad--~l~~l  213 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHAD--ELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---TCHH--HHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---hCHh--hHHHH
Confidence                37899999999999999999999988      278999999999999999999966554322   2343  34568


Q ss_pred             HHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCc--CCHHHHHHHHH
Q 038109          250 MGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGL--ERFNEANFILK  302 (324)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~a~~~~~  302 (324)
                      +..|.+.|++++|..+++...... .-....|+-+...|++-  ++..+.++.|.
T Consensus       214 v~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~  267 (449)
T 1b89_A          214 INYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW  267 (449)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS
T ss_pred             HHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            888999999999999999888765 44667777777777653  45555555443

>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=99.77  E-value=1.4e-16  Score=131.93  Aligned_cols=254  Identities=9%  Similarity=-0.051  Sum_probs=209.1

Q ss_pred             CCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHH
Q 038109            8 PTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLS   87 (324)
Q Consensus         8 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~   87 (324)
                      ...|++++|...++.......    .+...|..+...+...|++++|.+.++++.+.. +.+..++..+...+...|+++
T Consensus        32 ~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~  106 (327)
T 3cv0_A           32 LKLANLAEAALAFEAVCQAAP----EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNAN  106 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHhccHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHH
Confidence            345777888888877766542    366778899999999999999999999998863 456788899999999999999


Q ss_pred             HHHHHHHHHhcCCCCHH-HHHHH--------------HH-HHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 038109           88 DLCRTLARLDKGFPRKS-AYDTL--------------IG-RLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRG  151 (324)
Q Consensus        88 ~a~~~~~~~~~~~p~~~-~~~~l--------------i~-~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  151 (324)
                      +|.+.++++.+..|+.. .+..+              .. .+...|++++|.+.++++.+... .+..++..+...+...
T Consensus       107 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~  185 (327)
T 3cv0_A          107 AALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNP-NDAQLHASLGVLYNLS  185 (327)
T ss_dssp             HHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHh
Confidence            99999999977666433 33332              22 37888999999999999988643 3678899999999999


Q ss_pred             CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 038109          152 KRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLL  231 (324)
Q Consensus       152 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  231 (324)
                      |++++|...+++..+.. +.+..++..+...+...|++++|...|++..+.... +...+..+...+.+.|++++|.+.+
T Consensus       186 ~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  263 (327)
T 3cv0_A          186 NNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPG-YVRVMYNMAVSYSNMSQYDLAAKQL  263 (327)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhccHHHHHHHH
Confidence            99999999999988764 346788999999999999999999999999887544 7889999999999999999999999


Q ss_pred             HHHHHCCCCc-----------CHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          232 RRMVDDGQSV-----------LYSTYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       232 ~~m~~~~~~p-----------~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      ++..+.....           +..++..+..++...|++++|..+++..
T Consensus       264 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          264 VRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            9987653221           4678888999999999999999987643

>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=99.77  E-value=3.3e-18  Score=143.64  Aligned_cols=222  Identities=11%  Similarity=0.088  Sum_probs=95.4

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 038109           47 HERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVV  126 (324)
Q Consensus        47 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  126 (324)
                      +.|++++|.++++++      +++.+|..++.++.+.|++++|.+.|.+.    +|..+|..++.++...|++++|++.+
T Consensus        15 ~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfika----~D~~~y~~V~~~ae~~g~~EeAi~yl   84 (449)
T 1b89_A           15 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA----DDPSSYMEVVQAANTSGNWEELVKYL   84 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHcC----CCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            667899999999887      23458999999999999999999999764    67779999999999999999999988


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCC
Q 038109          127 DIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA  206 (324)
Q Consensus       127 ~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~  206 (324)
                      +..++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|+.+...|...|++++|...|..+       
T Consensus        85 ~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-------  148 (449)
T 1b89_A           85 QMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-------  148 (449)
T ss_dssp             --------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-------
T ss_pred             HHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-------
Confidence            777764  3467889999999999999999998885       377789999999999999999999999977       


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHH
Q 038109          207 DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGS  286 (324)
Q Consensus       207 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  286 (324)
                        ..|..++.++.+.|++++|.+.++++      .+..+|..++.+|...|+++.|......     +...+.....++.
T Consensus       149 --~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~  215 (449)
T 1b89_A          149 --SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELIN  215 (449)
T ss_dssp             --TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHH
T ss_pred             --hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHH
Confidence              36999999999999999999999988      2678999999999999999999665433     3334555667999


Q ss_pred             HHhCcCCHHHHHHHHHHHHhC
Q 038109          287 KLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       287 ~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      .|.+.|++++|..+++.....
T Consensus       216 ~Yek~G~~eEai~lLe~aL~l  236 (449)
T 1b89_A          216 YYQDRGYFEELITMLEAALGL  236 (449)
T ss_dssp             HHHHTTCHHHHHHHHHHHTTS
T ss_pred             HHHHCCCHHHHHHHHHHHhCC
Confidence            999999999999999987543

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

Probab=99.74  E-value=3.1e-16  Score=127.97  Aligned_cols=267  Identities=13%  Similarity=0.027  Sum_probs=203.4

Q ss_pred             CccchhHHHHHHHHhhhcCCCCCCCH--HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHH
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPDEPTS--AYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLS   87 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~   87 (324)
                      .|+..+|+...+.+..     ..|+.  ...-.+..++...|+++.|...++.    .-+|+..++..+...+...++.+
T Consensus        12 ~g~y~~ai~~~~~~~~-----~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A           12 IGSYQQCINEAQRVKP-----SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             TTCHHHHHHHHHHSCC-----CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHhccc-----CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHH
Confidence            4555666655443322     33443  3456678899999999999986644    23567788888999999999999


Q ss_pred             HHHHHHHHHhcC--CC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHH
Q 038109           88 DLCRTLARLDKG--FP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVM  164 (324)
Q Consensus        88 ~a~~~~~~~~~~--~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  164 (324)
                      +|.+.++++...  .| +...+..+...+...|++++|++.+++      +.+...+..+...+.+.|++++|...++++
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  156 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKM  156 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999999997543  47 455778888999999999999999987      457889999999999999999999999999


Q ss_pred             HhCCCCCCHHHH---HHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 038109          165 KEIRVSPDLTAY---NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSV  241 (324)
Q Consensus       165 ~~~~~~~~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  241 (324)
                      .+..  |+....   ...+..+...|++++|..+|+++.+..+ .+...++.+..++.+.|++++|.+.|++..... +-
T Consensus       157 ~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~  232 (291)
T 3mkr_A          157 QDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCS-PTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SG  232 (291)
T ss_dssp             HHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CC
Confidence            8864  443211   2233444556899999999999998744 489999999999999999999999999988653 23


Q ss_pred             CHHHHHHHHHHHHhcCCHHH-HHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHH
Q 038109          242 LYSTYAHVMGALLRLGYYAQ-AVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFI  300 (324)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  300 (324)
                      +..++..++..+...|+.++ +.++++.+.+..  |+...   +.+...+.+.++++..-
T Consensus       233 ~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~--P~~~~---~~d~~~~~~~fd~~~~~  287 (291)
T 3mkr_A          233 HPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH--RSHPF---IKEYRAKENDFDRLVLQ  287 (291)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--TTCHH---HHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC--CCChH---HHHHHHHHHHHHHHHHH
Confidence            57788889999999999875 678888887753  33332   23445555666665543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.74  E-value=7.2e-16  Score=123.16  Aligned_cols=222  Identities=13%  Similarity=0.065  Sum_probs=154.5

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC----C----HHHHH
Q 038109           36 AYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP----R----KSAYD  107 (324)
Q Consensus        36 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p----~----~~~~~  107 (324)
                      ..|..+...+...|++++|.+.+++..+..  .+...+..+..++...|++++|...+++..+..|    +    ..+|.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            457777778888888888888888888765  6777888888888888888888888887754333    2    35777


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 038109          108 TLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKG  187 (324)
Q Consensus       108 ~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  187 (324)
                      .+...+...|++++|...|++..+..  |+.       ..+.+.|++++|...++...... +.+...+..+...+...|
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhc
Confidence            78888888888888888888877632  332       33455567777777777776653 224556666777777777


Q ss_pred             ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038109          188 NLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVM  267 (324)
Q Consensus       188 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  267 (324)
                      ++++|...|++..+.... +...|..+...|.+.|++++|.+.+++..+.. +.+..++..+...+...|++++|...++
T Consensus       154 ~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          154 DWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            777777777777665443 56667777777777777777777777766543 2235556666666666677666666666


Q ss_pred             HhCC
Q 038109          268 VCGG  271 (324)
Q Consensus       268 ~~~~  271 (324)
                      ...+
T Consensus       232 ~a~~  235 (258)
T 3uq3_A          232 AART  235 (258)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

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

Probab=99.72  E-value=1.2e-15  Score=119.05  Aligned_cols=194  Identities=16%  Similarity=0.003  Sum_probs=101.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .+..+...+.+.|++++|...|++..+... .+...+..+...+.+.|++++|...+++..+... .+...+..+..++.
T Consensus         7 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~   84 (217)
T 2pl2_A            7 NPLRLGVQLYALGRYDAALTLFERALKENP-QDPEALYWLARTQLKLGLVNPALENGKTLVARTP-RYLGGYMVLSEAYV   84 (217)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTSS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHH
Confidence            444444444455555555555554444321 1344444444445555555555555554444321 13344444444555


Q ss_pred             hc-----------CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 038109          185 FK-----------GNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGAL  253 (324)
Q Consensus       185 ~~-----------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  253 (324)
                      ..           |++++|...|++..+..+. +...+..+..++...|++++|...|++..+..  .+...+..+..++
T Consensus        85 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~  161 (217)
T 2pl2_A           85 ALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELY  161 (217)
T ss_dssp             HHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHH
T ss_pred             HhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHH
Confidence            54           6666777666666665443 55666666666667777777777776666555  4556666666666


Q ss_pred             HhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHH
Q 038109          254 LRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEM  304 (324)
Q Consensus       254 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  304 (324)
                      ...|++++|...++...+..+ .+...+..+...+.+.|++++|...+++.
T Consensus       162 ~~~g~~~~A~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          162 LSMGRLDEALAQYAKALEQAP-KDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTC--------------
T ss_pred             HHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            777777777777766665432 25566666667777777777777666654

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

Probab=99.72  E-value=9e-16  Score=119.79  Aligned_cols=198  Identities=14%  Similarity=0.031  Sum_probs=99.9

Q ss_pred             CCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 038109           68 NTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILS  146 (324)
Q Consensus        68 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  146 (324)
                      +++..+..+...+.+.|++++|...|++..+..| +...|..+...+.+.|++++|+..|++..+... -+...+..+..
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~   81 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVARTP-RYLGGYMVLSE   81 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHH
Confidence            3444444555555555555555555555544444 334555555555555555555555555554321 13444555555


Q ss_pred             HHHcc-----------CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 038109          147 VLTRG-----------KRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV  215 (324)
Q Consensus       147 ~~~~~-----------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  215 (324)
                      .+...           |++++|...+++..+... -+...+..+..++...|++++|...|++..+..  .+...+..+.
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la  158 (217)
T 2pl2_A           82 AYVALYRQAEDRERGKGYLEQALSVLKDAERVNP-RYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHH
T ss_pred             HHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHH
Confidence            55555           666666666666555432 244555566666666666666666666666555  3566666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhC
Q 038109          216 LGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (324)
                      .+|...|++++|...|++..+.. +.+...+..+...+...|++++|...++...
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            66666666666666666665432 1234455555566666666666666655443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.71  E-value=1.9e-15  Score=120.75  Aligned_cols=227  Identities=9%  Similarity=-0.025  Sum_probs=192.0

Q ss_pred             chhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC--CC----hhhHHH
Q 038109           70 ANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFG--LS----AITFHP  143 (324)
Q Consensus        70 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--~~----~~~~~~  143 (324)
                      ...+..+...+...|++++|...+++..+..++..+|..+...+...|++++|++.+++..+....  ++    ..++..
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            356778888999999999999999988543377789999999999999999999999998874321  12    578889


Q ss_pred             HHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 038109          144 ILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGR  223 (324)
Q Consensus       144 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  223 (324)
                      +...+...|++++|...+++..+..  |+.       ..+...|++++|...++.+...... +...+..+...+...|+
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVNPE-KAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCCHH-HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcCcc-hHHHHHHHHHHHHHhcC
Confidence            9999999999999999999998853  443       4566778899999999999887544 67788899999999999


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHH
Q 038109          224 VEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKE  303 (324)
Q Consensus       224 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  303 (324)
                      +++|...+++..+.. +.+..++..+...+...|++++|...++...+.. +.+...|..+...+.+.|++++|.+.+++
T Consensus       155 ~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  232 (258)
T 3uq3_A          155 WPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDA  232 (258)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            999999999998754 2457888889999999999999999999988764 33688899999999999999999999999


Q ss_pred             HHhCC
Q 038109          304 MNKRD  308 (324)
Q Consensus       304 m~~~~  308 (324)
                      ..+.+
T Consensus       233 a~~~~  237 (258)
T 3uq3_A          233 ARTKD  237 (258)
T ss_dssp             HHHHH
T ss_pred             HHHhC
Confidence            87544

>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=1.1e-13  Score=111.84  Aligned_cols=224  Identities=8%  Similarity=-0.051  Sum_probs=158.2

Q ss_pred             chhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCChhhHHHHH
Q 038109           70 ANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCK----LKKIDEALRVVDIMAEGGFGLSAITFHPIL  145 (324)
Q Consensus        70 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  145 (324)
                      +.++..+...+...|++++|...|++..+ ..+..++..+...|..    .+++++|.+.|++..+.+   +...+..+.
T Consensus         6 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~-~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg   81 (273)
T 1ouv_A            6 PKELVGLGAKSYKEKDFTQAKKYFEKACD-LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   81 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHH-CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            34455556666666667777666666654 1234566667777777    777777777777777764   556667777


Q ss_pred             HHHHc----cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 038109          146 SVLTR----GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF----KGNLTATSGVLKKMEEEKLGADARTYDALVLG  217 (324)
Q Consensus       146 ~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  217 (324)
                      ..+..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+...
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~  155 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSL  155 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHH
Confidence            77777    778888888887777764   56677777777777    788888888888777764   55666677777


Q ss_pred             HHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHh
Q 038109          218 ACR----AGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLR----LGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLI  289 (324)
Q Consensus       218 ~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  289 (324)
                      |..    .+++++|.+.|++..+.+   +...+..+...|..    .+++++|..+++...+.+   +...+..+...|.
T Consensus       156 ~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~  229 (273)
T 1ouv_A          156 YDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQY  229 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHH
Confidence            776    778888888888777654   33556667777777    788888888887776654   2556667777777


Q ss_pred             C----cCCHHHHHHHHHHHHhCCC
Q 038109          290 G----LERFNEANFILKEMNKRDL  309 (324)
Q Consensus       290 ~----~g~~~~a~~~~~~m~~~~~  309 (324)
                      +    .+++++|.+.|++..+.|.
T Consensus       230 ~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          230 NGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             TTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             cCCCcccCHHHHHHHHHHHHHcCC
Confidence            7    7888888888887776653

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.69  E-value=8.6e-16  Score=124.05  Aligned_cols=247  Identities=15%  Similarity=-0.008  Sum_probs=162.0

Q ss_pred             hcCCCHHHHHHHHHHHHhcCC---CCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHH
Q 038109           46 GHERDLETVRYLLNKRARDCC---FNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDE  121 (324)
Q Consensus        46 ~~~~~~~~a~~~~~~m~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~  121 (324)
                      ...|++++|.+.++++.+...   +.+..++..+...+...|++++|...|+++.+..| +..+|..+...|...|++++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHH
Confidence            345677888888887776521   12345677777777888888888888877766555 46677778888888888888


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 038109          122 ALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEE  201 (324)
Q Consensus       122 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  201 (324)
                      |.+.|++..+... .+..++..+...+.+.|++++|...++++.+..  |+.......+..+...|++++|...+++...
T Consensus        96 A~~~~~~al~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           96 AYEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCc-cccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            8888888777432 256677777778888888888888888877643  4444444444555666788888888876665


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--c-CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCH
Q 038109          202 EKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQS--V-LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDT  278 (324)
Q Consensus       202 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (324)
                      ... ++...+. ++..+...++.++|.+.++........  | +..++..+...+...|++++|...++......  |+.
T Consensus       173 ~~~-~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~  248 (275)
T 1xnf_A          173 KSD-KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHN  248 (275)
T ss_dssp             HSC-CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTT
T ss_pred             cCC-cchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chh
Confidence            432 2333333 566667777777888877776543211  1 14666777777888888888888888777653  321


Q ss_pred             hHHHHHHHHHhCcCCHHHHHHHH
Q 038109          279 ELFGSLGSKLIGLERFNEANFIL  301 (324)
Q Consensus       279 ~~~~~l~~~~~~~g~~~~a~~~~  301 (324)
                        +.....++...|++++|.+.+
T Consensus       249 --~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 --FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             --CHHHHHHHHHHHHHHHC----
T ss_pred             --HHHHHHHHHHHHHHHhhHHHH
Confidence              223345566677777776655

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

Probab=99.68  E-value=2.7e-14  Score=111.47  Aligned_cols=23  Identities=9%  Similarity=0.042  Sum_probs=8.9

Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHH
Q 038109           39 DDLVNAAGHERDLETVRYLLNKR   61 (324)
Q Consensus        39 ~~ll~~~~~~~~~~~a~~~~~~m   61 (324)
                      ..+...+...|++++|.+.++.+
T Consensus        12 ~~~~~~~~~~~~~~~A~~~~~~~   34 (225)
T 2vq2_A           12 TQLAMEYMRGQDYRQATASIEDA   34 (225)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHH
Confidence            33333333334444444443333

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.68  E-value=1.1e-14  Score=117.39  Aligned_cols=232  Identities=10%  Similarity=-0.050  Sum_probs=149.4

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC----HHHHHHHHHHH
Q 038109           38 YDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPR----KSAYDTLIGRL  113 (324)
Q Consensus        38 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~li~~~  113 (324)
                      +......+...|++++|.+.+++..+.. +.+...+..+..++...|++++|...+++..+..++    ..+|..+...+
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            4455566777888888888888777652 334456777777777777777777777777552221    22467777777


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHH
Q 038109          114 CKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATS  193 (324)
Q Consensus       114 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  193 (324)
                      ...|++++|++.|++..+... .+..++..+...+...|++++|...+++..+.. +.+...+..+...+...+++++|.
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~  162 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKAD  162 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777776432 245667777777777777777777777766652 234555555552333445777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHC-CCCcC------HHHHHHHHHHHHhcCCHHHHH
Q 038109          194 GVLKKMEEEKLGADARTYDALVLGACRAGR---VEEAFVLLRRMVDD-GQSVL------YSTYAHVMGALLRLGYYAQAV  263 (324)
Q Consensus       194 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~-~~~p~------~~~~~~li~~~~~~g~~~~a~  263 (324)
                      ..|++..+.... +...+..+..++...|+   .++|...+++..+. .-.|+      ..+|..+...|...|++++|.
T Consensus       163 ~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  241 (272)
T 3u4t_A          163 SSFVKVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKAD  241 (272)
T ss_dssp             HHHHHHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            777777765433 45666666666666666   66677766665543 11122      145555666667777777777


Q ss_pred             HHHHHhCCCC
Q 038109          264 KFVMVCGGRD  273 (324)
Q Consensus       264 ~~~~~~~~~~  273 (324)
                      ..++...+..
T Consensus       242 ~~~~~al~~~  251 (272)
T 3u4t_A          242 AAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHhcC
Confidence            7776666543

>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=99.68  E-value=3.5e-14  Score=113.16  Aligned_cols=196  Identities=9%  Similarity=-0.096  Sum_probs=96.0

Q ss_pred             hHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 038109           73 FNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRG  151 (324)
Q Consensus        73 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  151 (324)
                      +..+...+...|++++|...++++.+..| +..+|..+...+...|++++|.+.++++.+... .+..++..+...+...
T Consensus        40 ~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~  118 (252)
T 2ho1_A           40 YIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGFLYEQ  118 (252)
T ss_dssp             HHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHH
Confidence            33344444444444444444444433333 333445555555555555555555555544321 1344445555555555


Q ss_pred             CcHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 038109          152 KRMEEAWGLMEVMKEIRVSP-DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVL  230 (324)
Q Consensus       152 ~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  230 (324)
                      |++++|...++++.+.+..| +...+..+..++...|++++|...|++..+.... +...+..+...+...|++++|...
T Consensus       119 g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~  197 (252)
T 2ho1_A          119 KRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVPARQY  197 (252)
T ss_dssp             TCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHHHHHH
Confidence            55555555555554422222 3344455555555555555555555555544322 445555555555555555555555


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          231 LRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       231 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      +++..+.. +.+...+..+...+...|+.++|.++++.+.+
T Consensus       198 ~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~  237 (252)
T 2ho1_A          198 YDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKR  237 (252)
T ss_dssp             HHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            55554322 12344444555555555555555555555544

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

Probab=99.67  E-value=4.6e-14  Score=110.17  Aligned_cols=203  Identities=12%  Similarity=-0.033  Sum_probs=173.9

Q ss_pred             CCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 038109           68 NTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILS  146 (324)
Q Consensus        68 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  146 (324)
                      .++..+..+...+...|++++|.+.++++.+..| +..+|..+...+...|++++|.+.++++.+... .+..++..+..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~   84 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKP-DSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CChHHHHHHHH
Confidence            3456788889999999999999999999877666 567899999999999999999999999988633 36788899999


Q ss_pred             HHHcc-CcHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 038109          147 VLTRG-KRMEEAWGLMEVMKEIRVSP-DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRV  224 (324)
Q Consensus       147 ~~~~~-~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  224 (324)
                      .+... |++++|...++++.+.+..| +...+..+..++...|++++|...|+++.+.... +...+..+...+.+.|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCCH
Confidence            99999 99999999999998843333 3678889999999999999999999999887544 688999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          225 EEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       225 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      ++|.+.+++..+.....+...+..+...+...|+.+.|..+++.+.+.
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            999999999887542245667777888889999999999999988754

>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=99.67  E-value=4.9e-14  Score=112.32  Aligned_cols=202  Identities=11%  Similarity=-0.050  Sum_probs=174.7

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 038109          103 KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTA  182 (324)
Q Consensus       103 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  182 (324)
                      ...|..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++|...+++..+... .+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHH
Confidence            3478889999999999999999999998763 33678889999999999999999999999887643 367889999999


Q ss_pred             HHhcCChhhHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 038109          183 YCFKGNLTATSGVLKKMEEEKLGA-DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQ  261 (324)
Q Consensus       183 ~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  261 (324)
                      |...|++++|.+.|+++.+.+..| +...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998833344 56788889999999999999999999988754 2357788889999999999999


Q ss_pred             HHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          262 AVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       262 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      |..+++.+.+.. +.+...+..+...+.+.|+.++|.++++++.+.+
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999999998764 3477788889999999999999999999998754

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.66  E-value=5e-14  Score=113.62  Aligned_cols=229  Identities=10%  Similarity=-0.042  Sum_probs=185.7

Q ss_pred             hhhhchhhhhhHHHHHHHHHHHhcCC----C-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 038109           75 FITNTENSLSVLSDLCRTLARLDKGF----P-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLT  149 (324)
Q Consensus        75 ~l~~~~~~~~~~~~a~~~~~~~~~~~----p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  149 (324)
                      .+.......|++++|...++++.+..    | +..+|..+...+...|++++|...|+++.+... .+..++..+...+.
T Consensus        10 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~   88 (275)
T 1xnf_A           10 VLAVPLQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLT   88 (275)
T ss_dssp             GSCCCCCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHH
T ss_pred             ceeeccCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHH
Confidence            34445677899999999999997653    2 345889999999999999999999999998643 36888999999999


Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          150 RGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFV  229 (324)
Q Consensus       150 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  229 (324)
                      ..|++++|...+++..+.. +.+..++..+..+|...|++++|...|+++.+..  |+.......+..+...|++++|..
T Consensus        89 ~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~  165 (275)
T 1xnf_A           89 QAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKE  165 (275)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHH
T ss_pred             HccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHH
Confidence            9999999999999998864 2367889999999999999999999999998864  444444445556677899999999


Q ss_pred             HHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc---CHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          230 LLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL---DTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       230 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .+++..... +++...+ .+...+...++.++|...+..........   +...+..+...|.+.|++++|...|++..+
T Consensus       166 ~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  243 (275)
T 1xnf_A          166 VLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  243 (275)
T ss_dssp             HHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            998877653 2333343 47777888899999999999988764321   257888899999999999999999999987


Q ss_pred             CCC
Q 038109          307 RDL  309 (324)
Q Consensus       307 ~~~  309 (324)
                      .+.
T Consensus       244 ~~p  246 (275)
T 1xnf_A          244 NNV  246 (275)
T ss_dssp             TCC
T ss_pred             CCc
Confidence            653

>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=4.1e-14  Score=119.44  Aligned_cols=247  Identities=11%  Similarity=0.041  Sum_probs=185.6

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhh-HHHHHHHHHHHhcCCC-CHHHHHHHHHHH
Q 038109           36 AYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSV-LSDLCRTLARLDKGFP-RKSAYDTLIGRL  113 (324)
Q Consensus        36 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~p-~~~~~~~li~~~  113 (324)
                      ..|..+-..+...|++++|++.+++.++.. +-+...|..+..++...|+ +++|...++++.+..| +..+|..+...+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            457777777888889999999999888753 4455778888888888886 9999999988877777 566888888888


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCChhhH
Q 038109          114 CKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF-KGNLTAT  192 (324)
Q Consensus       114 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-~~~~~~a  192 (324)
                      ...|++++|+..|+++.+.... +...|..+..++.+.|++++|+..++++.+... -+...|+.+..++.. .|..++|
T Consensus       177 ~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchHH
Confidence            8889999999999888875433 677888888888888889999999988888653 367788888888888 5555777


Q ss_pred             -----HHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC--------
Q 038109          193 -----SGVLKKMEEEKLGADARTYDALVLGACRAG--RVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLG--------  257 (324)
Q Consensus       193 -----~~~~~~m~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g--------  257 (324)
                           ...|++.....+. +...|+.+...+...|  ++++|++.++++ + ....+...+..+...|.+.|        
T Consensus       255 ~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~-~~p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          255 VLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q-PSHSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T-TTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-c-cCCCCHHHHHHHHHHHHHHhcccccchH
Confidence                 4778777776554 6778888888888877  578888888877 2 23345667777777887764        


Q ss_pred             -CHHHHHHHHHHh-CCCCCCcCHhHHHHHHHHHh
Q 038109          258 -YYAQAVKFVMVC-GGRDIKLDTELFGSLGSKLI  289 (324)
Q Consensus       258 -~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~  289 (324)
                       .+++|..+++.+ .+... .....|..+...+.
T Consensus       332 ~~~~~A~~~~~~l~~~~DP-~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          332 DILNKALELCEILAKEKDT-IRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHHHHHHHHHHTTCG-GGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHH
Confidence             257888888888 55432 23445555554443

>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=2.6e-14  Score=115.24  Aligned_cols=236  Identities=11%  Similarity=-0.029  Sum_probs=187.7

Q ss_pred             chhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--hhhHHHHHH
Q 038109           70 ANTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLS--AITFHPILS  146 (324)
Q Consensus        70 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~  146 (324)
                      +..+......+...|++++|...+++..+..|+ ..++..+...|...|++++|++.+++..+.+..|+  ..+|..+..
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            344556677889999999999999999887774 44888999999999999999999999998432222  234888999


Q ss_pred             HHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 038109          147 VLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEE  226 (324)
Q Consensus       147 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  226 (324)
                      .+...|++++|...+++..+... .+..++..+...|...|++++|...|++..+.... +...|..+...+...+++++
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTT-DPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCC-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCC-cHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988643 36688999999999999999999999998887443 67778877734445569999


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC---HHHHHHHHHHhCCCC-CCcC------HhHHHHHHHHHhCcCCHHH
Q 038109          227 AFVLLRRMVDDGQSVLYSTYAHVMGALLRLGY---YAQAVKFVMVCGGRD-IKLD------TELFGSLGSKLIGLERFNE  296 (324)
Q Consensus       227 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~g~~~~  296 (324)
                      |.+.|++..+... .+...+..+...+...|+   +++|...++...+.. -.|+      ...|..+...|.+.|++++
T Consensus       161 A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  239 (272)
T 3u4t_A          161 ADSSFVKVLELKP-NIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVK  239 (272)
T ss_dssp             HHHHHHHHHHHST-TCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHhCc-cchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHH
Confidence            9999999987532 335677777888888888   777888776665431 1123      2578888999999999999


Q ss_pred             HHHHHHHHHhCC
Q 038109          297 ANFILKEMNKRD  308 (324)
Q Consensus       297 a~~~~~~m~~~~  308 (324)
                      |.+.+++..+.+
T Consensus       240 A~~~~~~al~~~  251 (272)
T 3u4t_A          240 ADAAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcC
Confidence            999999998655

>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=99.65  E-value=3.3e-13  Score=109.01  Aligned_cols=224  Identities=10%  Similarity=-0.046  Sum_probs=194.0

Q ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhh----hhhHHHHHHHHHHHhcCCCCHHHHHHH
Q 038109           34 TSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENS----LSVLSDLCRTLARLDKGFPRKSAYDTL  109 (324)
Q Consensus        34 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~l  109 (324)
                      ++..+..+-..+...|++++|.+.|++..+.   .+...+..+...+..    .+++++|...|++..+.. +..++..+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-~~~a~~~l   80 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN-YSNGCHLL   80 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-CHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC-CHHHHHHH
Confidence            4556777888889999999999999999883   345678888888998    999999999999986653 67788999


Q ss_pred             HHHHHc----cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038109          110 IGRLCK----LKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR----GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLT  181 (324)
Q Consensus       110 i~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  181 (324)
                      ...|..    .+++++|++.|++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+..
T Consensus        81 g~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  154 (273)
T 1ouv_A           81 GNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHH
Confidence            999999    999999999999999875   67788888899988    999999999999999876   5677888888


Q ss_pred             HHHh----cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 038109          182 AYCF----KGNLTATSGVLKKMEEEKLGADARTYDALVLGACR----AGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGAL  253 (324)
Q Consensus       182 ~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  253 (324)
                      .|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|.+.|++..+.+.   ...+..+...|
T Consensus       155 ~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~---~~a~~~l~~~~  228 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN---GGGCFNLGAMQ  228 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC---HHHHHHHHHHH
Confidence            8888    999999999999998874   56788889999999    9999999999999988753   45667788888


Q ss_pred             Hh----cCCHHHHHHHHHHhCCCC
Q 038109          254 LR----LGYYAQAVKFVMVCGGRD  273 (324)
Q Consensus       254 ~~----~g~~~~a~~~~~~~~~~~  273 (324)
                      ..    .+++++|..+++...+.|
T Consensus       229 ~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          229 YNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HcCCCcccCHHHHHHHHHHHHHcC
Confidence            88    899999999999988775

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

Probab=99.65  E-value=1.4e-14  Score=114.68  Aligned_cols=156  Identities=12%  Similarity=0.060  Sum_probs=55.2

Q ss_pred             hhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHH
Q 038109           77 TNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRME  155 (324)
Q Consensus        77 ~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~  155 (324)
                      ...+...|++++|...++++.+..| +..++..+...+...|++++|++.++++.+... .+..++..+...+...|+++
T Consensus        30 a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~  108 (243)
T 2q7f_A           30 MGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGNVYVVKEMYK  108 (243)
T ss_dssp             ------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHhccHH
Confidence            3333333444444444433333322 233333444444444444444444444433211 12333333334444444444


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          156 EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       156 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      +|...+++..+.. +.+...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|.+.+++..
T Consensus       109 ~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  186 (243)
T 2q7f_A          109 EAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLANEGMLDEALSQFAAVT  186 (243)
T ss_dssp             HHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4444444433322 112333333444444444444444444443333221 33333444444444444444444444333

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

Probab=99.64  E-value=1.8e-14  Score=114.10  Aligned_cols=203  Identities=14%  Similarity=0.057  Sum_probs=159.3

Q ss_pred             CCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHH
Q 038109           32 EPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLI  110 (324)
Q Consensus        32 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li  110 (324)
                      ..+...|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+..| +..++..+.
T Consensus        20 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la   98 (243)
T 2q7f_A           20 HMASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAG   98 (243)
T ss_dssp             ----------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHH
Confidence            3455668888888999999999999999998853 55678888999999999999999999999877666 567899999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChh
Q 038109          111 GRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLT  190 (324)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  190 (324)
                      ..+...|++++|.+.++++.+... .+...+..+...+.+.|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            999999999999999999988643 367788899999999999999999999988764 346788999999999999999


Q ss_pred             hHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 038109          191 ATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDG  238 (324)
Q Consensus       191 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  238 (324)
                      +|...|++..+.... +..++..+...|...|++++|.+.+++..+..
T Consensus       177 ~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          177 EALSQFAAVTEQDPG-HADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            999999999887544 68899999999999999999999999988653

>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=99.62  E-value=1.7e-13  Score=115.64  Aligned_cols=232  Identities=9%  Similarity=0.030  Sum_probs=194.9

Q ss_pred             hhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCC-HHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 038109           71 NTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKK-IDEALRVVDIMAEGGFGLSAITFHPILSVL  148 (324)
Q Consensus        71 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  148 (324)
                      ..|..+..++...|++++|...++++.+..| +..+|+.+...+...|+ +++|+..|++..+.... +...|..+...+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHH
Confidence            4677778888899999999999999988777 46799999999999997 99999999999986443 678899999999


Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHHH
Q 038109          149 TRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACR-AGRVEEA  227 (324)
Q Consensus       149 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-~g~~~~a  227 (324)
                      ...|++++|...|++..+... -+...|..+..++.+.|++++|+..|+++.+..+. +...|+.+..++.+ .|..++|
T Consensus       177 ~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchHH
Confidence            999999999999999998753 37889999999999999999999999999998776 88999999999999 6665777


Q ss_pred             -----HHHHHHHHHCCCCcCHHHHHHHHHHHHhcC--CHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcC--------
Q 038109          228 -----FVLLRRMVDDGQSVLYSTYAHVMGALLRLG--YYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLE--------  292 (324)
Q Consensus       228 -----~~~~~~m~~~~~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--------  292 (324)
                           ++.|++...... -+...|..+...+...|  ++++|...+..+ +.. +.+...+..+...|.+.|        
T Consensus       255 ~~~~el~~~~~Al~l~P-~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          255 VLEREVQYTLEMIKLVP-HNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccchH
Confidence                 478888776431 24567777788888888  689999999888 443 346788888999998874        


Q ss_pred             -CHHHHHHHHHHH-HhCC
Q 038109          293 -RFNEANFILKEM-NKRD  308 (324)
Q Consensus       293 -~~~~a~~~~~~m-~~~~  308 (324)
                       ..++|.++++++ .+.+
T Consensus       332 ~~~~~A~~~~~~l~~~~D  349 (382)
T 2h6f_A          332 DILNKALELCEILAKEKD  349 (382)
T ss_dssp             HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhC
Confidence             358999999998 5443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.60  E-value=3.5e-14  Score=121.07  Aligned_cols=275  Identities=12%  Similarity=0.001  Sum_probs=209.6

Q ss_pred             CCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCC----chhhHhhhhchhhhhhHHHHHHHHHHHhcC---C---
Q 038109           31 DEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNT----ANTFNFITNTENSLSVLSDLCRTLARLDKG---F---  100 (324)
Q Consensus        31 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~---  100 (324)
                      ..+....+...-..+...|++++|...+++..+.+ +.+    ...+..+...+...|++++|...+++....   .   
T Consensus         5 ~~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~   83 (406)
T 3sf4_A            5 MEASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQ   83 (406)
T ss_dssp             CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcccc
Confidence            34566667778888999999999999999998763 223    256788889999999999999999886322   1   


Q ss_pred             C-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CC----hhhHHHHHHHHHccCc--------------------H
Q 038109          101 P-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFG-LS----AITFHPILSVLTRGKR--------------------M  154 (324)
Q Consensus       101 p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~----~~~~~~li~~~~~~~~--------------------~  154 (324)
                      | ...++..+...|...|++++|...+++..+.... ++    ..++..+...+...|+                    +
T Consensus        84 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~  163 (406)
T 3sf4_A           84 LGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDAL  163 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHH
Confidence            2 2337888999999999999999999988753110 11    4478888888999999                    9


Q ss_pred             HHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCH
Q 038109          155 EEAWGLMEVMKEI----RVS-PDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG-AD----ARTYDALVLGACRAGRV  224 (324)
Q Consensus       155 ~~a~~~~~~m~~~----~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~g~~  224 (324)
                      ++|...+++..+.    +.. ....++..+...|...|++++|...+++..+.... ++    ..++..+...|...|++
T Consensus       164 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  243 (406)
T 3sf4_A          164 QAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEF  243 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCh
Confidence            9999998876542    211 12457888899999999999999999987643111 12    34788889999999999


Q ss_pred             HHHHHHHHHHHHC----CCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCC-----CcCHhHHHHHHHHHhCcCCH
Q 038109          225 EEAFVLLRRMVDD----GQSVL-YSTYAHVMGALLRLGYYAQAVKFVMVCGGRDI-----KLDTELFGSLGSKLIGLERF  294 (324)
Q Consensus       225 ~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~  294 (324)
                      ++|...+++....    +..+. ..++..+...+...|++++|...++...+...     .....++..+...|.+.|++
T Consensus       244 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  323 (406)
T 3sf4_A          244 ETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNH  323 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            9999999987643    21111 56778888899999999999999987754311     11256788889999999999


Q ss_pred             HHHHHHHHHHHh
Q 038109          295 NEANFILKEMNK  306 (324)
Q Consensus       295 ~~a~~~~~~m~~  306 (324)
                      ++|.+.+++..+
T Consensus       324 ~~A~~~~~~al~  335 (406)
T 3sf4_A          324 DQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998653

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.60  E-value=1.9e-14  Score=123.21  Aligned_cols=271  Identities=11%  Similarity=-0.020  Sum_probs=207.4

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCc----hhhHhhhhchhhhhhHHHHHHHHHHHhcC------CC-CHHH
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRARDCCFNTA----NTFNFITNTENSLSVLSDLCRTLARLDKG------FP-RKSA  105 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~p-~~~~  105 (324)
                      .+..+-..+...|++++|.+.|++..+.+ +.+.    ..+..+...+...|++++|...+++..+.      .| ...+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            34556667889999999999999998863 2232    46888899999999999999999887432      12 2347


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhC----C-CCCChhhHHHHHHHHHccCc-----------------HHHHHHHHHH
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIMAEG----G-FGLSAITFHPILSVLTRGKR-----------------MEEAWGLMEV  163 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m~~~----g-~~~~~~~~~~li~~~~~~~~-----------------~~~a~~~~~~  163 (324)
                      +..+...|...|++++|...+++..+.    + .+....++..+...+...|+                 +++|...+++
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~  208 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE  208 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            889999999999999999999987753    1 11234578888889999999                 9999999887


Q ss_pred             HHhC----CC-CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038109          164 MKEI----RV-SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG-AD----ARTYDALVLGACRAGRVEEAFVLLRR  233 (324)
Q Consensus       164 m~~~----~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~g~~~~a~~~~~~  233 (324)
                      ..+.    +. .....++..+...|...|++++|...+++..+.... ++    ...+..+...|...|++++|.+.+++
T Consensus       209 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  288 (411)
T 4a1s_A          209 NLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKR  288 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            6542    11 122457888899999999999999999987653111 12    33788899999999999999999998


Q ss_pred             HHHC----CCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCC-----CcCHhHHHHHHHHHhCcCCHHHHHHHHHH
Q 038109          234 MVDD----GQS-VLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDI-----KLDTELFGSLGSKLIGLERFNEANFILKE  303 (324)
Q Consensus       234 m~~~----~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  303 (324)
                      ....    +.. ....++..+...+...|++++|...++.......     .....++..+...|.+.|++++|.+.+++
T Consensus       289 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  368 (411)
T 4a1s_A          289 TLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQ  368 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            7653    111 1256778888899999999999999987755311     11245788889999999999999999998


Q ss_pred             HHhCC
Q 038109          304 MNKRD  308 (324)
Q Consensus       304 m~~~~  308 (324)
                      ..+..
T Consensus       369 al~~~  373 (411)
T 4a1s_A          369 HLQLA  373 (411)
T ss_dssp             HHHHC
T ss_pred             HHHHH
Confidence            76543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.58  E-value=3.1e-11  Score=105.81  Aligned_cols=50  Identities=12%  Similarity=-0.019  Sum_probs=21.8

Q ss_pred             cCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhC----cCCHHHHHHHHHHHHhCC
Q 038109          256 LGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIG----LERFNEANFILKEMNKRD  308 (324)
Q Consensus       256 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~  308 (324)
                      .+++++|..+++...+.+   ++..+..+...|.+    .++.++|...|++..+.+
T Consensus       380 ~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          380 KKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            344444444444444332   23333444444443    444444444444444443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.57  E-value=5.5e-12  Score=103.74  Aligned_cols=216  Identities=7%  Similarity=-0.044  Sum_probs=163.3

Q ss_pred             HHHHHHHHHHHhcCCCCCchhhHhhhhchhh-------hhhH-------HHHHHHHHHHhc-CCC-CHHHHHHHHHHHHc
Q 038109           52 ETVRYLLNKRARDCCFNTANTFNFITNTENS-------LSVL-------SDLCRTLARLDK-GFP-RKSAYDTLIGRLCK  115 (324)
Q Consensus        52 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~-~~p-~~~~~~~li~~~~~  115 (324)
                      ++|..+|++.... .+.++..|..++..+..       .|++       ++|...|++..+ ..| +...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~-~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-cCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            6788888888775 35566777777776653       3554       889999998887 467 45588888889999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCC-hh-hHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-hcCChhhH
Q 038109          116 LKKIDEALRVVDIMAEGGFGLS-AI-TFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC-FKGNLTAT  192 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~~g~~~~-~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~-~~~~~~~a  192 (324)
                      .|++++|.++|++..+.  .|+ .. +|..+...+.+.|++++|..+|++..+... ++...|........ ..|++++|
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999998874  343 33 788888888888999999999998887643 34445544433322 36889999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          193 SGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDG-QSV--LYSTYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       193 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      ..+|++..+..+. +...|..++..+.+.|++++|..+|++..... ..|  ....|..++....+.|+.+.|..+++.+
T Consensus       189 ~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999888776443 67888888888888999999999999888753 344  3567777788888889999998888887


Q ss_pred             CCC
Q 038109          270 GGR  272 (324)
Q Consensus       270 ~~~  272 (324)
                      .+.
T Consensus       268 ~~~  270 (308)
T 2ond_A          268 FTA  270 (308)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            664

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.56  E-value=5.3e-11  Score=104.35  Aligned_cols=256  Identities=10%  Similarity=-0.059  Sum_probs=154.7

Q ss_pred             CHHHHHHHHHHHhc----CCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhh----hhhHHHHHHHHHHHhcCCCCHHH
Q 038109           34 TSAYYDDLVNAAGH----ERDLETVRYLLNKRARDCCFNTANTFNFITNTENS----LSVLSDLCRTLARLDKGFPRKSA  105 (324)
Q Consensus        34 ~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~  105 (324)
                      ++..+..+-..+..    .+++++|.+.|++..+.|   ++..+..|...|..    .++.++|.+.|++..+. .+...
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~-~~~~a  113 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK-GLPQA  113 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-CCHHH
Confidence            34445555555555    677777777777766653   34555566666666    67777777777766443 24455


Q ss_pred             HHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----cCcHHHHHHHHHHHHhCCCCCCHHHHH
Q 038109          106 YDTLIGRLCK----LKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR----GKRMEEAWGLMEVMKEIRVSPDLTAYN  177 (324)
Q Consensus       106 ~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~  177 (324)
                      +..|...|..    .+++++|.+.|++..+.|   +...+..+...|..    .++.++|...|++..+.|   +...+.
T Consensus       114 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~  187 (490)
T 2xm6_A          114 QQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCN  187 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            5566666666    667777777777776654   34555555555554    566777777777766654   455666


Q ss_pred             HHHHHHHh----cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHHH
Q 038109          178 YLLTAYCF----KGNLTATSGVLKKMEEEKLGADARTYDALVLGACR----AGRVEEAFVLLRRMVDDGQSVLYSTYAHV  249 (324)
Q Consensus       178 ~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  249 (324)
                      .+...|..    .+++++|.+.|++..+.|   +...+..+...|..    .+++++|.++|++..+.|.   ...+..+
T Consensus       188 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~---~~a~~~l  261 (490)
T 2xm6_A          188 QLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGN---SIAQFRL  261 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTC---HHHHHHH
T ss_pred             HHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC---HHHHHHH
Confidence            66666666    667777777777666553   44555556666654    5666677776666655432   2333444


Q ss_pred             HHHHHh----cCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCc-----CCHHHHHHHHHHHHhCC
Q 038109          250 MGALLR----LGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGL-----ERFNEANFILKEMNKRD  308 (324)
Q Consensus       250 i~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~~a~~~~~~m~~~~  308 (324)
                      -..+..    .++.++|..+++...+.|   ++..+..+...|...     ++.++|...+++..+.|
T Consensus       262 g~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~  326 (490)
T 2xm6_A          262 GYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG  326 (490)
T ss_dssp             HHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC
Confidence            444555    566666666666665544   334444555555554     66666666666655544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.56  E-value=3.9e-14  Score=117.34  Aligned_cols=270  Identities=13%  Similarity=-0.010  Sum_probs=204.1

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCC----chhhHhhhhchhhhhhHHHHHHHHHHHhcCC------C-CHHH
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRARDCCFNT----ANTFNFITNTENSLSVLSDLCRTLARLDKGF------P-RKSA  105 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------p-~~~~  105 (324)
                      .+...-..+...|++++|...++++.+.. +.+    ...+..+...+...|++++|...+++.....      | ...+
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            34455667788999999999999998863 223    3567788899999999999999998864321      2 2347


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CC----hhhHHHHHHHHHccCc--------------------HHHHHHH
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIMAEGGFG-LS----AITFHPILSVLTRGKR--------------------MEEAWGL  160 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~----~~~~~~li~~~~~~~~--------------------~~~a~~~  160 (324)
                      +..+...+...|++++|...+++..+.... ++    ..++..+...+...|+                    +++|...
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            888999999999999999999987652111 12    3477888888999999                    9999998


Q ss_pred             HHHHHhC----CC-CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHH
Q 038109          161 MEVMKEI----RV-SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG-AD----ARTYDALVLGACRAGRVEEAFVL  230 (324)
Q Consensus       161 ~~~m~~~----~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~g~~~~a~~~  230 (324)
                      +++....    +. .....++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|.+.
T Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  245 (338)
T 3ro2_A          166 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEY  245 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            8876542    11 112457888889999999999999999987643110 12    34788889999999999999999


Q ss_pred             HHHHHHC----CCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC-----CCcCHhHHHHHHHHHhCcCCHHHHHHH
Q 038109          231 LRRMVDD----GQSV-LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRD-----IKLDTELFGSLGSKLIGLERFNEANFI  300 (324)
Q Consensus       231 ~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~  300 (324)
                      +++....    +..+ ...++..+...+...|++++|...++......     ......++..+...|.+.|++++|.+.
T Consensus       246 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  325 (338)
T 3ro2_A          246 YKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHF  325 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            9987643    2111 15567778889999999999999998775431     111245777889999999999999999


Q ss_pred             HHHHHhC
Q 038109          301 LKEMNKR  307 (324)
Q Consensus       301 ~~~m~~~  307 (324)
                      +++..+.
T Consensus       326 ~~~a~~~  332 (338)
T 3ro2_A          326 AEKHLEI  332 (338)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHH
Confidence            9988754

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.56  E-value=2.1e-13  Score=118.99  Aligned_cols=217  Identities=9%  Similarity=-0.115  Sum_probs=181.9

Q ss_pred             hhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCH-HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHH
Q 038109           83 LSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKI-DEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGL  160 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~  160 (324)
                      ...++++...++......| +...|..+...+...|++ ++|++.|++..+... -+...|..+...|.+.|++++|...
T Consensus        81 ~~~~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           81 QEEMEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            3456777777777766666 677899999999999999 999999999987543 2578899999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhc---------CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--------CC
Q 038109          161 MEVMKEIRVSPDLTAYNYLLTAYCFK---------GNLTATSGVLKKMEEEKLGADARTYDALVLGACRA--------GR  223 (324)
Q Consensus       161 ~~~m~~~~~~~~~~~~~~li~~~~~~---------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~--------g~  223 (324)
                      |++..+..  |+...+..+..++...         |++++|...|++..+.... +...|..+..+|...        |+
T Consensus       160 ~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          160 FSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccch
Confidence            99998864  6678889999999999         9999999999999887655 788999999999988        99


Q ss_pred             HHHHHHHHHHHHHCCCC--cCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHH
Q 038109          224 VEEAFVLLRRMVDDGQS--VLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFIL  301 (324)
Q Consensus       224 ~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  301 (324)
                      +++|.+.|++..+....  -+...|..+..+|...|++++|...++...+.... +...+..+...+...|++++|.+.+
T Consensus       237 ~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          237 SQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999998875311  36788888999999999999999999998776433 6677888889999999999998766


Q ss_pred             HHH
Q 038109          302 KEM  304 (324)
Q Consensus       302 ~~m  304 (324)
                      .++
T Consensus       316 ~~~  318 (474)
T 4abn_A          316 GKT  318 (474)
T ss_dssp             TTC
T ss_pred             ccc
Confidence            543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.56  E-value=1.2e-11  Score=109.56  Aligned_cols=155  Identities=12%  Similarity=0.014  Sum_probs=111.7

Q ss_pred             cCcHH-------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcC
Q 038109          151 GKRME-------EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGAD-ARTYDALVLGACRAG  222 (324)
Q Consensus       151 ~~~~~-------~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g  222 (324)
                      .|+++       +|..++++..+.-.+.+...|..++..+.+.|++++|..+|++..+.... + ...|...+..+.+.|
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~  370 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAE  370 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhc
Confidence            56665       77788887775222335777888888888888888888888888875332 3 357888888888888


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHHHHH-HHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHH
Q 038109          223 RVEEAFVLLRRMVDDGQSVLYSTYAHVMGA-LLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFIL  301 (324)
Q Consensus       223 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  301 (324)
                      ++++|.++|++..+... .+...|...... +...|+.++|..+|+...+.. +-++..|..++..+.+.|+.++|..+|
T Consensus       371 ~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~  448 (530)
T 2ooe_A          371 GIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLF  448 (530)
T ss_dssp             HHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHH
Confidence            88888888888876421 122333222222 335889999999998877653 236788888999999999999999999


Q ss_pred             HHHHhCC
Q 038109          302 KEMNKRD  308 (324)
Q Consensus       302 ~~m~~~~  308 (324)
                      ++....+
T Consensus       449 ~~al~~~  455 (530)
T 2ooe_A          449 ERVLTSG  455 (530)
T ss_dssp             HHHHHSC
T ss_pred             HHHHhcc
Confidence            9988764

>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=1.1e-12  Score=111.38  Aligned_cols=297  Identities=10%  Similarity=-0.001  Sum_probs=208.5

Q ss_pred             CCCccchhHHHHHHHHhhhcCC-CCCCCHHHHHHHHHHHh--cCCCHHHHH-----------HHHHHHHhcCCCCCc---
Q 038109            8 PTKFLIPQSVLVTRSFTKSGAF-PDEPTSAYYDDLVNAAG--HERDLETVR-----------YLLNKRARDCCFNTA---   70 (324)
Q Consensus         8 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~ll~~~~--~~~~~~~a~-----------~~~~~m~~~~~~~~~---   70 (324)
                      ...+++++|..+++.+...... ...++...|-.++..-.  ..++++.+.           +.++.+.....+.+.   
T Consensus        23 i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~~~~~~~l~  102 (383)
T 3ulq_A           23 IRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQARLTGLLE  102 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHTHHHHHHHH
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcCCCchhHHH
Confidence            3467788999988888775522 12344444455443321  122333333           555555432111111   


Q ss_pred             -hhhHhhhhchhhhhhHHHHHHHHHHHhcC---CCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCC--C---C-C
Q 038109           71 -NTFNFITNTENSLSVLSDLCRTLARLDKG---FPR----KSAYDTLIGRLCKLKKIDEALRVVDIMAEGG--F---G-L  136 (324)
Q Consensus        71 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~---~-~  136 (324)
                       ..+......+...|++++|...+++..+.   .++    ..+|..+...|...|++++|+..+++..+.-  .   . .
T Consensus       103 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  182 (383)
T 3ulq_A          103 YYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIR  182 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHH
Confidence             11222566778899999999999998654   243    2378899999999999999999999887521  1   1 1


Q ss_pred             ChhhHHHHHHHHHccCcHHHHHHHHHHHHhCC----CC-CCHHHHHHHHHHHHhcCChhhHHHHHHHHHH-----CCCCC
Q 038109          137 SAITFHPILSVLTRGKRMEEAWGLMEVMKEIR----VS-PDLTAYNYLLTAYCFKGNLTATSGVLKKMEE-----EKLGA  206 (324)
Q Consensus       137 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~~  206 (324)
                      ...+++.+...|...|++++|...+++..+..    -. ....++..+..+|...|++++|...|++..+     .....
T Consensus       183 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~  262 (383)
T 3ulq_A          183 LLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPS  262 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGG
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchh
Confidence            24578888899999999999999999876531    11 1135788899999999999999999998876     33133


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcCHHHHHHHHHHHHhcCC---HHHHHHHHHHhCCCCCCcCHh
Q 038109          207 DARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQSVLYSTYAHVMGALLRLGY---YAQAVKFVMVCGGRDIKLDTE  279 (324)
Q Consensus       207 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~  279 (324)
                      ...++..+...|.+.|++++|.+.+++..+.    +.+.....+..+...+...|+   +++|..+++....  ......
T Consensus       263 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~--~~~~~~  340 (383)
T 3ulq_A          263 LPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKML--YADLED  340 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTC--HHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcC--HHHHHH
Confidence            4678899999999999999999999987643    222223345667777888888   8888888877632  223455


Q ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          280 LFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       280 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .+..+...|.+.|++++|.+.+++..+
T Consensus       341 ~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          341 FAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            777889999999999999999998754

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.54  E-value=1.5e-12  Score=98.47  Aligned_cols=162  Identities=15%  Similarity=0.080  Sum_probs=75.8

Q ss_pred             hhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 038109           71 NTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLT  149 (324)
Q Consensus        71 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  149 (324)
                      .+|..+...+...|++++|.+.|++..+..| +..+|..+...|.+.|++++|...+.+....... +...+..+...+.
T Consensus         6 ~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~   84 (184)
T 3vtx_A            6 TIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGSANF   84 (184)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHHHHH
Confidence            3444444444444555555554444443333 2334444555555555555555555544443221 3334444444444


Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          150 RGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFV  229 (324)
Q Consensus       150 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  229 (324)
                      ..++++.+...+.+..+.. +.+...+..+..+|.+.|++++|.+.|++..+..+. +..+|..+..+|.+.|++++|.+
T Consensus        85 ~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~~A~~  162 (184)
T 3vtx_A           85 MIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRDEAVK  162 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHHHHHH
Confidence            4455555555554444432 123444444445555555555555555554444332 44445555555555555555555


Q ss_pred             HHHHHH
Q 038109          230 LLRRMV  235 (324)
Q Consensus       230 ~~~~m~  235 (324)
                      .|++..
T Consensus       163 ~~~~al  168 (184)
T 3vtx_A          163 YFKKAL  168 (184)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555444

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.54  E-value=4.9e-12  Score=104.03  Aligned_cols=218  Identities=9%  Similarity=-0.018  Sum_probs=174.2

Q ss_pred             HHHHHHHHHHhcCCC-CHHHHHHHHHHHHc-------cCCH-------HHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 038109           87 SDLCRTLARLDKGFP-RKSAYDTLIGRLCK-------LKKI-------DEALRVVDIMAEGGFGLSAITFHPILSVLTRG  151 (324)
Q Consensus        87 ~~a~~~~~~~~~~~p-~~~~~~~li~~~~~-------~~~~-------~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  151 (324)
                      ++|...|++.....| +...|..++..+..       .|++       ++|..+|++..+.-.+-+...|..+...+.+.
T Consensus        33 ~~a~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~  112 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  112 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            678888888876666 56688888877763       5886       99999999999841222566899999999999


Q ss_pred             CcHHHHHHHHHHHHhCCCCCC-HH-HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCCHHHHH
Q 038109          152 KRMEEAWGLMEVMKEIRVSPD-LT-AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGAC-RAGRVEEAF  228 (324)
Q Consensus       152 ~~~~~a~~~~~~m~~~~~~~~-~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~-~~g~~~~a~  228 (324)
                      |++++|..+|++..+.  .|+ .. .|..+...+.+.|++++|..+|++..+.+.. +...|........ ..|+.++|.
T Consensus       113 ~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          113 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             CCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999985  343 33 8999999999999999999999999987543 4555554443322 379999999


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC-CCc--CHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          229 VLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRD-IKL--DTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       229 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      ++|++..+.. +-+...+..++..+.+.|++++|..+|+...... +.|  ....|..++..+.+.|+.++|..+++++.
T Consensus       190 ~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          190 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999987652 2356778888999999999999999999998753 344  46788888999999999999999999987


Q ss_pred             hCC
Q 038109          306 KRD  308 (324)
Q Consensus       306 ~~~  308 (324)
                      +..
T Consensus       269 ~~~  271 (308)
T 2ond_A          269 TAF  271 (308)
T ss_dssp             HHT
T ss_pred             HHc
Confidence            643

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.54  E-value=1.6e-11  Score=106.92  Aligned_cols=276  Identities=11%  Similarity=-0.044  Sum_probs=179.8

Q ss_pred             CCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhc-----C---CCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcC---
Q 038109           31 DEPTSAYYDDLVNAAGHERDLETVRYLLNKRARD-----C---CFNTANTFNFITNTENSLSVLSDLCRTLARLDKG---   99 (324)
Q Consensus        31 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---   99 (324)
                      .......||.+-..+...|++++|++.|++.++-     +   .+....+|+.+..+|...|++++|...+++..+.   
T Consensus        47 ~~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~  126 (472)
T 4g1t_A           47 REFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEK  126 (472)
T ss_dssp             ---CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHh
Confidence            4455677999999999999999999999887541     1   1223467889999999999999999998876321   


Q ss_pred             -----CC-CHHHHHHHHHHHHcc--CCHHHHHHHHHHHHhCCCCCChhhHHHHHHH---HHccCcHHHHHHHHHHHHhCC
Q 038109          100 -----FP-RKSAYDTLIGRLCKL--KKIDEALRVVDIMAEGGFGLSAITFHPILSV---LTRGKRMEEAWGLMEVMKEIR  168 (324)
Q Consensus       100 -----~p-~~~~~~~li~~~~~~--~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~---~~~~~~~~~a~~~~~~m~~~~  168 (324)
                           .+ ...++.....++...  +++++|++.|++..+.... +...+..+...   +...++.++|.+.+++..+..
T Consensus       127 ~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~  205 (472)
T 4g1t_A          127 FSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN  205 (472)
T ss_dssp             SCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC
T ss_pred             cccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC
Confidence                 12 345676666555544  5799999999999875322 34444444433   345577778888888777654


Q ss_pred             CCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 038109          169 VSPDLTAYNYLLTAYCF----KGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYS  244 (324)
Q Consensus       169 ~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  244 (324)
                      . .+..++..+...+..    .|++++|.+.+++....... +...+..+...|...|++++|...+++..+... -+..
T Consensus       206 p-~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~  282 (472)
T 4g1t_A          206 P-DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYIP-NNAY  282 (472)
T ss_dssp             S-SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHH
T ss_pred             C-cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCC-ChHH
Confidence            2 245555555544444    45678888888888776554 677888888889999999999998888775431 2234


Q ss_pred             HHHHHHHHHHh-------------------cCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          245 TYAHVMGALLR-------------------LGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       245 ~~~~li~~~~~-------------------~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      ++..+...|..                   .+..+.|...++...+... .+...+..+...|...|++++|.+.|++..
T Consensus       283 ~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL  361 (472)
T 4g1t_A          283 LHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAND-NLFRVCSILASLHALADQYEEAEYYFQKEF  361 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCT-TTCCCHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCC-chhhhhhhHHHHHHHhccHHHHHHHHHHHH
Confidence            44444333321                   1224455555555544332 244556667777777777777777777766


Q ss_pred             hCCCch
Q 038109          306 KRDLKM  311 (324)
Q Consensus       306 ~~~~~~  311 (324)
                      +....+
T Consensus       362 ~~~~~~  367 (472)
T 4g1t_A          362 SKELTP  367 (472)
T ss_dssp             HSCCCH
T ss_pred             hcCCCC
Confidence            655544

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.53  E-value=5e-14  Score=115.64  Aligned_cols=201  Identities=13%  Similarity=0.060  Sum_probs=102.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC------CC-CCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC------CC-C
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEG------GF-GLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI------RV-S  170 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~-~  170 (324)
                      ++..+...|...|++++|...+++..+.      +- +....++..+...+...|++++|...+++..+.      +. +
T Consensus        71 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  150 (311)
T 3nf1_A           71 MLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHP  150 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCCh
Confidence            4444555555555555555555554432      11 112344555555555666666666655555432      11 1


Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------
Q 038109          171 PDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE------KLGA-DARTYDALVLGACRAGRVEEAFVLLRRMVDD------  237 (324)
Q Consensus       171 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------  237 (324)
                      .....+..+...+...|++++|...|++..+.      +..| ...++..+...|...|++++|.+.+++..+.      
T Consensus       151 ~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  230 (311)
T 3nf1_A          151 DVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREF  230 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcC
Confidence            22345566666677777777777777666543      1111 2345666777777777777777777766542      


Q ss_pred             -CCCcCH-------HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          238 -GQSVLY-------STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       238 -~~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                       ...+..       ..+..+...+...+.+.++...+....... +.+..++..+...|.+.|++++|.+++++..+
T Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          231 GSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             C------CCHHHHHHHHHHC-------CCSCCCC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             111111       112222222333344444444555444432 33567778888888888999999988887653

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.52  E-value=4.7e-12  Score=95.76  Aligned_cols=166  Identities=14%  Similarity=0.062  Sum_probs=86.7

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038109          102 RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLT  181 (324)
Q Consensus       102 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  181 (324)
                      +..+|..+...|...|++++|++.|++..+.... +..++..+...+.+.|++++|...+........ .+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHH
Confidence            3445555666666666666666666665553221 445555555555555666666555555544432 23444445555


Q ss_pred             HHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 038109          182 AYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQ  261 (324)
Q Consensus       182 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  261 (324)
                      .+...++++.|...+.+....... +...+..+...|.+.|++++|++.|++..+.. +.+..++..+..++.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            555555555555555555544333 44555555555555555555555555554432 1233444445555555555555


Q ss_pred             HHHHHHHhCC
Q 038109          262 AVKFVMVCGG  271 (324)
Q Consensus       262 a~~~~~~~~~  271 (324)
                      |...+++..+
T Consensus       160 A~~~~~~al~  169 (184)
T 3vtx_A          160 AVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            5555555443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.51  E-value=1.3e-12  Score=114.07  Aligned_cols=213  Identities=10%  Similarity=-0.038  Sum_probs=179.1

Q ss_pred             HHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhH-HHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHH
Q 038109           51 LETVRYLLNKRARDCCFNTANTFNFITNTENSLSVL-SDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDI  128 (324)
Q Consensus        51 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~  128 (324)
                      ++++.+.++..... .+.+...+..+...+...|++ ++|.+.|++..+..| +..+|..+...|...|++++|.+.|++
T Consensus        84 ~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            55666667665543 244678888999999999999 999999999977777 477999999999999999999999999


Q ss_pred             HHhCCCCCChhhHHHHHHHHHcc---------CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc--------CChhh
Q 038109          129 MAEGGFGLSAITFHPILSVLTRG---------KRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFK--------GNLTA  191 (324)
Q Consensus       129 m~~~g~~~~~~~~~~li~~~~~~---------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~--------~~~~~  191 (324)
                      ..+..  |+...+..+...+...         |++++|...+++..+... .+...|..+..+|...        |++++
T Consensus       163 al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          163 ALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-LDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            99864  6678889999999999         999999999999988653 3678899999999998        99999


Q ss_pred             HHHHHHHHHHCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038109          192 TSGVLKKMEEEKLG--ADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMV  268 (324)
Q Consensus       192 a~~~~~~m~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  268 (324)
                      |...|++..+....  -+...|..+..+|...|++++|.+.|++..+... -+...+..+...+...|++++|...+..
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDP-AWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            99999999886541  2889999999999999999999999999886532 3456778888889999999998875533

>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=99.51  E-value=2.5e-11  Score=114.12  Aligned_cols=220  Identities=11%  Similarity=0.094  Sum_probs=159.0

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 038109           47 HERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVV  126 (324)
Q Consensus        47 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  126 (324)
                      ..+++++|.++.++.      .++.+|..+..++...|++++|.+.|.+.    .+...|..++..+.+.|++++|.+.|
T Consensus      1088 ~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA----dD~say~eVa~~~~~lGkyEEAIeyL 1157 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA----DDPSSYMEVVQAANTSGNWEELVKYL 1157 (1630)
T ss_pred             HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc----CChHHHHHHHHHHHHcCCHHHHHHHH
Confidence            556677777766533      34667778888888888888888887664    45667777888888888888888888


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCC
Q 038109          127 DIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA  206 (324)
Q Consensus       127 ~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~  206 (324)
                      ...++..  ++....+.+..+|++.+++++...+.    +   .++...|..+...|...|++++|..+|...       
T Consensus      1158 ~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA------- 1221 (1630)
T 1xi4_A         1158 QMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------- 1221 (1630)
T ss_pred             HHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh-------
Confidence            7766643  23333345777788887777544332    2   245566667888888888888888888774       


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHH
Q 038109          207 DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGS  286 (324)
Q Consensus       207 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  286 (324)
                        ..|..+..+|++.|++++|.+.+++.      -+..+|..+-.+|...|++..|......     +..++..+..++.
T Consensus      1222 --~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~ 1288 (1630)
T 1xi4_A         1222 --SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELIN 1288 (1630)
T ss_pred             --hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHH
Confidence              36888888888888888888888765      2346777777778888888777765432     3346677778888


Q ss_pred             HHhCcCCHHHHHHHHHHHH
Q 038109          287 KLIGLERFNEANFILKEMN  305 (324)
Q Consensus       287 ~~~~~g~~~~a~~~~~~m~  305 (324)
                      .|.+.|.+++|+.+++.-.
T Consensus      1289 yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1289 YYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             HHHHcCCHHHHHHHHHHHh
Confidence            8999999999999987654

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.49  E-value=1.2e-13  Score=117.75  Aligned_cols=285  Identities=16%  Similarity=-0.040  Sum_probs=210.7

Q ss_pred             CCCccchhHHHHHHHHhhhcCCCCCCC--HHHHHHHHHHHhcCCCHHHHHHHHHHHHhc----CCCC-CchhhHhhhhch
Q 038109            8 PTKFLIPQSVLVTRSFTKSGAFPDEPT--SAYYDDLVNAAGHERDLETVRYLLNKRARD----CCFN-TANTFNFITNTE   80 (324)
Q Consensus         8 ~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~   80 (324)
                      ...|.+++|...++........  .|.  ...|..+...+...|++++|...+++....    +..| ...++..+...+
T Consensus        20 ~~~g~~~~A~~~~~~al~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~   97 (406)
T 3sf4_A           20 CKSGDCRAGVSFFEAAVQVGTE--DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL   97 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCS--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHhcCcc--cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            3457788888888877776421  121  357888889999999999999999987542    2122 245778888999


Q ss_pred             hhhhhHHHHHHHHHHHhcCC---CC----HHHHHHHHHHHHccCC--------------------HHHHHHHHHHHHhC-
Q 038109           81 NSLSVLSDLCRTLARLDKGF---PR----KSAYDTLIGRLCKLKK--------------------IDEALRVVDIMAEG-  132 (324)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~~---p~----~~~~~~li~~~~~~~~--------------------~~~a~~~~~~m~~~-  132 (324)
                      ...|++++|...+++..+..   ++    ..++..+...|...|+                    +++|.+.+++..+. 
T Consensus        98 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~  177 (406)
T 3sf4_A           98 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLV  177 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            99999999999998875432   22    3378889999999999                    99999999887542 


Q ss_pred             ---CCCC-ChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCChhhHHHHHHHHHHCC
Q 038109          133 ---GFGL-SAITFHPILSVLTRGKRMEEAWGLMEVMKEIRV-SPD----LTAYNYLLTAYCFKGNLTATSGVLKKMEEEK  203 (324)
Q Consensus       133 ---g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  203 (324)
                         +..| ...++..+...+...|++++|...+++..+... .++    ..++..+...|...|++++|...+++..+..
T Consensus       178 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  257 (406)
T 3sf4_A          178 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLA  257 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence               2111 245678888899999999999999998765321 112    3478889999999999999999999876431


Q ss_pred             CC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC-
Q 038109          204 LG-AD----ARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQSV-LYSTYAHVMGALLRLGYYAQAVKFVMVCGGR-  272 (324)
Q Consensus       204 ~~-~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-  272 (324)
                      .. ++    ..++..+...|...|++++|.+.+++..+.    +..+ ...++..+...+...|++++|...++...+. 
T Consensus       258 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  337 (406)
T 3sf4_A          258 RQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  337 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            11 11    567888999999999999999999987653    2111 1557778888999999999999998776542 


Q ss_pred             ---CC-CcCHhHHHHHHHHHhCcCCH
Q 038109          273 ---DI-KLDTELFGSLGSKLIGLERF  294 (324)
Q Consensus       273 ---~~-~~~~~~~~~l~~~~~~~g~~  294 (324)
                         +. .....++..+...+...|+.
T Consensus       338 ~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          338 REVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHhcCCcchhHHHHHHHHHHHHhhHh
Confidence               21 12355667777778777765

>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=99.48  E-value=6.1e-11  Score=111.50  Aligned_cols=236  Identities=13%  Similarity=0.135  Sum_probs=174.9

Q ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHH
Q 038109           33 PTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGR  112 (324)
Q Consensus        33 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~  112 (324)
                      -++.+|..+-.++...|++++|.+.|.+.      .|...|..++.++.+.|++++|.+.+....+..++....+.++.+
T Consensus      1103 n~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~Lafa 1176 (1630)
T 1xi4_A         1103 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFA 1176 (1630)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHH
Confidence            33567999999999999999999999653      567778889999999999999999999887655555445568899


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhH
Q 038109          113 LCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTAT  192 (324)
Q Consensus       113 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  192 (324)
                      |++.+++++.....    +   .++...|..+...|...|++++|..+|...         ..|..+..++.+.|++++|
T Consensus      1177 YAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~A 1240 (1630)
T 1xi4_A         1177 LAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAA 1240 (1630)
T ss_pred             HHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHH
Confidence            99998888644332    2   245667777889999999999999999974         4788999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          193 SGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       193 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      .+.+++..      +..+|..+-.+|...|++..|......     +..+...+..++..|.+.|.+++|..+++.....
T Consensus      1241 IEaarKA~------n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~L 1309 (1630)
T 1xi4_A         1241 VDGARKAN------STRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGL 1309 (1630)
T ss_pred             HHHHHHhC------CHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            99888662      667787777778888887777766543     2344556667777788888888888887776654


Q ss_pred             CCCcCHhHHHHHHHHHhC--cCCHHHHHHHHH
Q 038109          273 DIKLDTELFGSLGSKLIG--LERFNEANFILK  302 (324)
Q Consensus       273 ~~~~~~~~~~~l~~~~~~--~g~~~~a~~~~~  302 (324)
                      . .-....|+-+...|++  -++..++.++|.
T Consensus      1310 e-raH~gmftELaiLyaKy~peklmEhlk~f~ 1340 (1630)
T 1xi4_A         1310 E-RAHMGMFTELAILYSKFKPQKMREHLELFW 1340 (1630)
T ss_pred             C-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3 2234455555555543  344555555544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.47  E-value=6.7e-11  Score=103.00  Aligned_cols=295  Identities=12%  Similarity=-0.035  Sum_probs=201.9

Q ss_pred             CccchhHHHHHHHH----hhhcCCC-CCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhc-----C-CC-CCchhhHhhh
Q 038109           10 KFLIPQSVLVTRSF----TKSGAFP-DEPTSAYYDDLVNAAGHERDLETVRYLLNKRARD-----C-CF-NTANTFNFIT   77 (324)
Q Consensus        10 ~~~~~~a~~~~~~~----~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~-~~-~~~~~~~~l~   77 (324)
                      .|+.++|+..+..-    ....... ......+|+.+..++...|++++|...+++..+-     + .. ..+.++....
T Consensus        64 ~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g  143 (472)
T 4g1t_A           64 KGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEG  143 (472)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHH
Confidence            46677777655433    2222211 2334568999999999999999999999887642     1 11 1234555554


Q ss_pred             hchhh--hhhHHHHHHHHHHHhcCCCC-HHHHHHHHHH---HHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc-
Q 038109           78 NTENS--LSVLSDLCRTLARLDKGFPR-KSAYDTLIGR---LCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR-  150 (324)
Q Consensus        78 ~~~~~--~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~---~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~-  150 (324)
                      .++..  .+++++|...|++..+..|+ ...+..+...   +...++.++|++.+++..+... .+..++..+...+.. 
T Consensus       144 ~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p-~~~~~~~~l~~~~~~~  222 (472)
T 4g1t_A          144 WTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNP-DNQYLKVLLALKLHKM  222 (472)
T ss_dssp             HHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCS-SCHHHHHHHHHHHHHC
T ss_pred             HHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCC-cchHHHHHHHHHHHHH
Confidence            44444  45799999999999877775 4455544444   4556788899999998887532 245556555544443 


Q ss_pred             ---cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc------
Q 038109          151 ---GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRA------  221 (324)
Q Consensus       151 ---~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~------  221 (324)
                         .++.++|.+.+++..... +.+..++..+...|...|++++|...+++..+..+. +..++..+..+|...      
T Consensus       223 ~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~y~~~~~~~~~  300 (472)
T 4g1t_A          223 REEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLHCQIGCCYRAKVFQVMN  300 (472)
T ss_dssp             C------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHHHHHHHHHHHHHHHhhh
Confidence               467889999999887764 346778899999999999999999999999887554 677777776665432      


Q ss_pred             -------------CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHh--HHHHHHH
Q 038109          222 -------------GRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTE--LFGSLGS  286 (324)
Q Consensus       222 -------------g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~  286 (324)
                                   +..++|...++...+... .+..++..+...+...|++++|...|+...+....+...  .+..+..
T Consensus       301 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~  379 (472)
T 4g1t_A          301 LRENGMYGKRKLLELIGHAVAHLKKADEAND-NLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGN  379 (472)
T ss_dssp             C------CHHHHHHHHHHHHHHHHHHHHHCT-TTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHhhcCC-chhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence                         235677777877765432 344567778889999999999999999887654433221  2233332


Q ss_pred             -HHhCcCCHHHHHHHHHHHHhCC
Q 038109          287 -KLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       287 -~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                       .+...|+.++|+..+++..+.+
T Consensus       380 ~~~~~~~~~~~Ai~~y~kal~i~  402 (472)
T 4g1t_A          380 FQLYQMKCEDKAIHHFIEGVKIN  402 (472)
T ss_dssp             HHHHTSSCHHHHHHHHHHHHHSC
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC
Confidence             3457899999999999877544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.46  E-value=4.9e-13  Score=114.40  Aligned_cols=263  Identities=13%  Similarity=-0.034  Sum_probs=198.6

Q ss_pred             CCCccchhHHHHHHHHhhhcCCCCCCC--HHHHHHHHHHHhcCCCHHHHHHHHHHHHhc----C-CCCCchhhHhhhhch
Q 038109            8 PTKFLIPQSVLVTRSFTKSGAFPDEPT--SAYYDDLVNAAGHERDLETVRYLLNKRARD----C-CFNTANTFNFITNTE   80 (324)
Q Consensus         8 ~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~-~~~~~~~~~~l~~~~   80 (324)
                      ...|++++|...++........  .|.  ...|..+...+...|++++|.+.+++..+.    + .+.....+..+...+
T Consensus        59 ~~~g~~~~A~~~~~~al~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~  136 (411)
T 4a1s_A           59 CNAGDCRAGVAFFQAAIQAGTE--DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTL  136 (411)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCS--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHhccc--ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHH
Confidence            3457788888888877776421  111  246888888999999999999999988653    1 123346788889999


Q ss_pred             hhhhhHHHHHHHHHHHhcCC------C-CHHHHHHHHHHHHccCC-----------------HHHHHHHHHHHHhC----
Q 038109           81 NSLSVLSDLCRTLARLDKGF------P-RKSAYDTLIGRLCKLKK-----------------IDEALRVVDIMAEG----  132 (324)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~~------p-~~~~~~~li~~~~~~~~-----------------~~~a~~~~~~m~~~----  132 (324)
                      ...|++++|...+++..+..      | ...++..+...|...|+                 +++|++.+++..+.    
T Consensus       137 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~  216 (411)
T 4a1s_A          137 KVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDL  216 (411)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHc
Confidence            99999999999998874431      2 23378889999999999                 99999999887542    


Q ss_pred             CCC-CChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-
Q 038109          133 GFG-LSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVS-PD----LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG-  205 (324)
Q Consensus       133 g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-  205 (324)
                      +.. ....++..+...+...|++++|...+++..+.... ++    ..++..+..+|...|++++|...+++....... 
T Consensus       217 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  296 (411)
T 4a1s_A          217 GDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVEL  296 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHc
Confidence            111 12357788888999999999999999987653211 11    337888999999999999999999987653211 


Q ss_pred             ----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          206 ----ADARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQS-VLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       206 ----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                          ....++..+...|...|++++|.+.+++....    +.. ....++..+...|...|++++|...++...+.
T Consensus       297 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          297 GEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence                12567888999999999999999999987653    111 12457778888999999999999998877553

>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=1.6e-12  Score=106.55  Aligned_cols=238  Identities=14%  Similarity=0.042  Sum_probs=170.1

Q ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhc-------CCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcC------
Q 038109           33 PTSAYYDDLVNAAGHERDLETVRYLLNKRARD-------CCFNTANTFNFITNTENSLSVLSDLCRTLARLDKG------   99 (324)
Q Consensus        33 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------   99 (324)
                      .+...+..+...+...|++++|..+++++.+.       ..+.....+..+...+...|++++|...+++....      
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            34567888999999999999999999998863       23344567888999999999999999999887533      


Q ss_pred             --CC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC------CCCC-ChhhHHHHHHHHHccCcHHHHHHHHHHHHhC--
Q 038109          100 --FP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEG------GFGL-SAITFHPILSVLTRGKRMEEAWGLMEVMKEI--  167 (324)
Q Consensus       100 --~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--  167 (324)
                        .| ...++..+...|...|++++|.+.+++..+.      +..| ...++..+...+...|++++|...+++..+.  
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  184 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQ  184 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence              12 2447889999999999999999999998764      2222 3567888889999999999999999998764  


Q ss_pred             ----CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHC-------CCCCC-------HHHHHHHHHHHHhcCCHHHHH
Q 038109          168 ----RVSP-DLTAYNYLLTAYCFKGNLTATSGVLKKMEEE-------KLGAD-------ARTYDALVLGACRAGRVEEAF  228 (324)
Q Consensus       168 ----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~~~-------~~~~~~li~~~~~~g~~~~a~  228 (324)
                          +..| ...++..+..+|...|++++|...+++..+.       ...+.       ...+..+...+...+.+.++.
T Consensus       185 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  264 (311)
T 3nf1_A          185 TKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYG  264 (311)
T ss_dssp             HTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC
T ss_pred             HHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence                2122 3567888999999999999999999988753       11111       122223333344455566666


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          229 VLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       229 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      ..++..... ...+..++..+...|.+.|++++|..+++...+
T Consensus       265 ~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          265 GWYKACKVD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhcCCC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            666666543 234567788899999999999999999987654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.44  E-value=2.2e-12  Score=106.75  Aligned_cols=265  Identities=17%  Similarity=-0.034  Sum_probs=197.4

Q ss_pred             CCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhc----CCCC-CchhhHhhhhchhh
Q 038109            8 PTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARD----CCFN-TANTFNFITNTENS   82 (324)
Q Consensus         8 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~   82 (324)
                      ...|.+++|...++................|..+...+...|++++|.+.+++..+.    +..| ...++..+...+..
T Consensus        16 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~   95 (338)
T 3ro2_A           16 CKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKV   95 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHH
Confidence            346788889888888777642111001467888899999999999999999987642    2122 24577888899999


Q ss_pred             hhhHHHHHHHHHHHhcCC---CC----HHHHHHHHHHHHccCC--------------------HHHHHHHHHHHHhC---
Q 038109           83 LSVLSDLCRTLARLDKGF---PR----KSAYDTLIGRLCKLKK--------------------IDEALRVVDIMAEG---  132 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~---p~----~~~~~~li~~~~~~~~--------------------~~~a~~~~~~m~~~---  132 (324)
                      .|++++|...+++..+..   ++    ..++..+...+...|+                    +++|.+.+++..+.   
T Consensus        96 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~  175 (338)
T 3ro2_A           96 LGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTA  175 (338)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999998874322   23    2378889999999999                    99999999887542   


Q ss_pred             -CCC-CChhhHHHHHHHHHccCcHHHHHHHHHHHHhCC----C-CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC
Q 038109          133 -GFG-LSAITFHPILSVLTRGKRMEEAWGLMEVMKEIR----V-SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG  205 (324)
Q Consensus       133 -g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  205 (324)
                       +.. ....++..+...+...|++++|...+++..+..    . .....++..+...+...|++++|...+++..+....
T Consensus       176 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~  255 (338)
T 3ro2_A          176 LGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQ  255 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh
Confidence             111 124567788888999999999999999876531    1 112347888899999999999999999987643111


Q ss_pred             -CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          206 -AD----ARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQS-VLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       206 -~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                       ++    ..++..+...+...|++++|...+++....    +.. ....++..+...+...|++++|...++...+.
T Consensus       256 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          256 LKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             hcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence             12    567888899999999999999999987643    211 12456778889999999999999999887653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.43  E-value=1.2e-10  Score=98.38  Aligned_cols=264  Identities=12%  Similarity=0.015  Sum_probs=184.5

Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHhcCCCCCc-h----hhHhhhhchhhhhhHHHHHHHHHHHhcCC---CCH----HHHHH
Q 038109           41 LVNAAGHERDLETVRYLLNKRARDCCFNTA-N----TFNFITNTENSLSVLSDLCRTLARLDKGF---PRK----SAYDT  108 (324)
Q Consensus        41 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---p~~----~~~~~  108 (324)
                      ....+...|+++.|...+++..... +++. .    .+..+...+...|++++|...+++.....   ++.    .++..
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   98 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQ   98 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcC-CCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            3345567899999999999887653 2222 1    45666777888999999999988874322   222    24667


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhC----CCC--C-ChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCC----CCHHHHH
Q 038109          109 LIGRLCKLKKIDEALRVVDIMAEG----GFG--L-SAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVS----PDLTAYN  177 (324)
Q Consensus       109 li~~~~~~~~~~~a~~~~~~m~~~----g~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~----~~~~~~~  177 (324)
                      +...+...|++++|...+++..+.    +..  | ...++..+...+...|++++|...+++.......    ....++.
T Consensus        99 la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  178 (373)
T 1hz4_A           99 QSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLA  178 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHH
Confidence            788899999999999999887652    222  2 2345666778888999999999999987654321    1245677


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCCCCCC-HHHHH-----HHHHHHHhcCCHHHHHHHHHHHHHCCCCc---CHHHHHH
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEEKLGAD-ARTYD-----ALVLGACRAGRVEEAFVLLRRMVDDGQSV---LYSTYAH  248 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~-----~li~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~  248 (324)
                      .+...+...|++++|...+++.......++ ...+.     ..+..+...|++++|...+++.......+   ....+..
T Consensus       179 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  258 (373)
T 1hz4_A          179 MLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRN  258 (373)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHH
Confidence            888889999999999999998765321111 11121     23344778999999999998876543211   1234566


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhCCC----CCCcCH-hHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          249 VMGALLRLGYYAQAVKFVMVCGGR----DIKLDT-ELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      +...+...|++++|...++.....    |..++. ..+..+..++...|+.++|...+++..
T Consensus       259 la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al  320 (373)
T 1hz4_A          259 IARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDAL  320 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            778889999999999988776432    222222 366667788889999999999988764

>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=3.1e-11  Score=102.21  Aligned_cols=295  Identities=11%  Similarity=0.047  Sum_probs=203.2

Q ss_pred             CCccchhHHHHHHHHhhhcC-CCCCCCHHHHHHHHHHHh--cCCCH---------HHHHHHHHHHHhcCCCCCc----hh
Q 038109            9 TKFLIPQSVLVTRSFTKSGA-FPDEPTSAYYDDLVNAAG--HERDL---------ETVRYLLNKRARDCCFNTA----NT   72 (324)
Q Consensus         9 ~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~ll~~~~--~~~~~---------~~a~~~~~~m~~~~~~~~~----~~   72 (324)
                      ...++++|..+++.+..... ....++...|-.++..-.  ..+.+         +...+.++.+.....+.+.    ..
T Consensus        24 ~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~~  103 (378)
T 3q15_A           24 RQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLETIETPQKKLTGLLKYYS  103 (378)
T ss_dssp             HTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHHHHGGGHHHHHHHHHHH
T ss_pred             HHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHHHhccCCCCccHHHHHH
Confidence            45667888888887665442 112344444555554311  01111         1222555555432111111    12


Q ss_pred             hHhhhhchhhhhhHHHHHHHHHHHhcCC---CC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CC-CC-Chh
Q 038109           73 FNFITNTENSLSVLSDLCRTLARLDKGF---PR----KSAYDTLIGRLCKLKKIDEALRVVDIMAEG----GF-GL-SAI  139 (324)
Q Consensus        73 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~---p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~-~~-~~~  139 (324)
                      +......+...|++++|...+++..+..   ++    ..++..+...|...|+++.|...+++..+.    +- .+ ...
T Consensus       104 ~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  183 (378)
T 3q15_A          104 LFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQ  183 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHH
T ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHH
Confidence            2334556678999999999999986542   33    237888999999999999999999988752    11 11 245


Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCChhhHHHHHHHHHH-----CCCCCCHH
Q 038109          140 TFHPILSVLTRGKRMEEAWGLMEVMKEI----RVS-PDLTAYNYLLTAYCFKGNLTATSGVLKKMEE-----EKLGADAR  209 (324)
Q Consensus       140 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~~~~~  209 (324)
                      +++.+...|...|++++|...+++..+.    +.. ....++..+..+|...|++++|...|++..+     .... ...
T Consensus       184 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~-~~~  262 (378)
T 3q15_A          184 SLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDL-LPK  262 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGG-HHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChh-HHH
Confidence            7788889999999999999999887653    211 1245788899999999999999999998876     4333 377


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCcCHHHHHHHHHHHHhcCC---HHHHHHHHHHhCCCCCCcCHhHHH
Q 038109          210 TYDALVLGACRAGRVEEAFVLLRRMVDDG----QSVLYSTYAHVMGALLRLGY---YAQAVKFVMVCGGRDIKLDTELFG  282 (324)
Q Consensus       210 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~  282 (324)
                      ++..+...|.+.|++++|...+++..+..    .+.....+..+-..+...++   +.+|...++....  .......+.
T Consensus       263 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~--~~~~~~~~~  340 (378)
T 3q15_A          263 VLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNL--HAYIEACAR  340 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTC--HHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCC--hhHHHHHHH
Confidence            88899999999999999999999987642    22223445555566777788   8888888877432  222345667


Q ss_pred             HHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          283 SLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       283 ~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .+...|.+.|++++|.+.|++..+
T Consensus       341 ~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          341 SAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            889999999999999999998754

>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=99.42  E-value=2.6e-11  Score=91.29  Aligned_cols=158  Identities=10%  Similarity=0.000  Sum_probs=64.3

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 038109          108 TLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKG  187 (324)
Q Consensus       108 ~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  187 (324)
                      .+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...+++..+.. +.+...+..+...+...|
T Consensus        13 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~   90 (186)
T 3as5_A           13 DKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQ   90 (186)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhc
Confidence            33334444444444444444333321 1123333344444444444444444444433321 123333444444444444


Q ss_pred             ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038109          188 NLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVM  267 (324)
Q Consensus       188 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  267 (324)
                      ++++|.+.+++..+.... +...+..+...+...|++++|.+.+++..+.. +.+..++..+...+...|++++|...++
T Consensus        91 ~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~  168 (186)
T 3as5_A           91 KYDLAVPLLIKVAEANPI-NFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFK  168 (186)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcH-hHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            444444444444433221 33444444444444444444444444443322 1223344444444444444444444444


Q ss_pred             Hh
Q 038109          268 VC  269 (324)
Q Consensus       268 ~~  269 (324)
                      ..
T Consensus       169 ~~  170 (186)
T 3as5_A          169 KA  170 (186)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.42  E-value=3.5e-10  Score=100.17  Aligned_cols=217  Identities=8%  Similarity=-0.030  Sum_probs=169.6

Q ss_pred             HHHHHHHHHHhcCCC-CHHHHHHHHHHHHc-------cCCHH-------HHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 038109           87 SDLCRTLARLDKGFP-RKSAYDTLIGRLCK-------LKKID-------EALRVVDIMAEGGFGLSAITFHPILSVLTRG  151 (324)
Q Consensus        87 ~~a~~~~~~~~~~~p-~~~~~~~li~~~~~-------~~~~~-------~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  151 (324)
                      ..+..+|++.....| +...|..++..+.+       .|+++       +|..+|++..+.-.+-+...|..++..+.+.
T Consensus       255 ~~a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          255 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            466778888766666 56688888888775       78987       8999999998732334678889999999999


Q ss_pred             CcHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCHHHHH
Q 038109          152 KRMEEAWGLMEVMKEIRVSPD--LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLG-ACRAGRVEEAF  228 (324)
Q Consensus       152 ~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~g~~~~a~  228 (324)
                      |++++|..+|++..+.  .|+  ...|..++..+.+.|++++|..+|++..+.... +...|...... +...|+.++|.
T Consensus       335 g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             TCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             CCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHH
Confidence            9999999999999985  343  358999999999999999999999999876332 33333332222 34689999999


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCC-Cc--CHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          229 VLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDI-KL--DTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       229 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      .+|+...+.. +-+...+..++..+.+.|+.++|..+|+.....+. .|  ....|...+....+.|+.+.+.++++++.
T Consensus       412 ~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~  490 (530)
T 2ooe_A          412 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  490 (530)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999887652 23467888899999999999999999999877532 22  24478888888888999999999999886


Q ss_pred             hC
Q 038109          306 KR  307 (324)
Q Consensus       306 ~~  307 (324)
                      +.
T Consensus       491 ~~  492 (530)
T 2ooe_A          491 TA  492 (530)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=99.41  E-value=3e-11  Score=90.88  Aligned_cols=166  Identities=16%  Similarity=0.157  Sum_probs=143.0

Q ss_pred             hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 038109          138 AITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLG  217 (324)
Q Consensus       138 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  217 (324)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...+++..+.... +...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPD-NVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Confidence            3456777888899999999999999987754 346788999999999999999999999999887543 78889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHH
Q 038109          218 ACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEA  297 (324)
Q Consensus       218 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  297 (324)
                      +...|++++|.+.+++..+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999988753 3466788888899999999999999999987764 34678899999999999999999


Q ss_pred             HHHHHHHHhC
Q 038109          298 NFILKEMNKR  307 (324)
Q Consensus       298 ~~~~~~m~~~  307 (324)
                      .+.+++..+.
T Consensus       164 ~~~~~~~~~~  173 (186)
T 3as5_A          164 LPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            9999988654

>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=99.38  E-value=1.6e-11  Score=111.71  Aligned_cols=162  Identities=15%  Similarity=0.064  Sum_probs=95.9

Q ss_pred             hhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 038109           71 NTFNFITNTENSLSVLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLT  149 (324)
Q Consensus        71 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  149 (324)
                      ..++.+..++.+.|++++|.+.|++..+..|+ ..+|..+...|.+.|++++|++.|++..+.... +...|..+...+.
T Consensus        10 ~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~~l~   88 (723)
T 4gyw_A           10 DSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGNTLK   88 (723)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            45555555566666666666666555554443 445666666666666666666666666553221 3455666666666


Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          150 RGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFV  229 (324)
Q Consensus       150 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  229 (324)
                      +.|++++|.+.|++..+... -+...|+.+..+|...|++++|.+.|++..+.... +...|..+..++...|++++|.+
T Consensus        89 ~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~~A~~  166 (723)
T 4gyw_A           89 EMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWTDYDE  166 (723)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCTTHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHHHHHH
Confidence            66666666666666555431 24556666666666666666666666666655433 45666666666666666666666


Q ss_pred             HHHHHH
Q 038109          230 LLRRMV  235 (324)
Q Consensus       230 ~~~~m~  235 (324)
                      .+++..
T Consensus       167 ~~~kal  172 (723)
T 4gyw_A          167 RMKKLV  172 (723)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            665543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.37  E-value=1.1e-10  Score=95.04  Aligned_cols=214  Identities=11%  Similarity=-0.041  Sum_probs=132.8

Q ss_pred             hHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCC-hhhHHHHHHHHHccCcHHHHHH
Q 038109           85 VLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEG----GFGLS-AITFHPILSVLTRGKRMEEAWG  159 (324)
Q Consensus        85 ~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~~~-~~~~~~li~~~~~~~~~~~a~~  159 (324)
                      ++++|...+.+.             ...|...|++++|...|++..+.    |-+++ ..+|+.+...|.+.|++++|..
T Consensus        32 ~~~~A~~~~~~a-------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~   98 (292)
T 1qqe_A           32 KFEEAADLCVQA-------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVD   98 (292)
T ss_dssp             HHHHHHHHHHHH-------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cHHHHHHHHHHH-------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence            467766665554             34566677777777777766542    22111 4567777777777778877777


Q ss_pred             HHHHHHhCCC---CC--CHHHHHHHHHHHHhc-CChhhHHHHHHHHHHCCCCC-C----HHHHHHHHHHHHhcCCHHHHH
Q 038109          160 LMEVMKEIRV---SP--DLTAYNYLLTAYCFK-GNLTATSGVLKKMEEEKLGA-D----ARTYDALVLGACRAGRVEEAF  228 (324)
Q Consensus       160 ~~~~m~~~~~---~~--~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~~-~----~~~~~~li~~~~~~g~~~~a~  228 (324)
                      .+++..+...   .+  -..+++.+...|... |++++|...|++..+..... +    ..+++.+...+.+.|++++|.
T Consensus        99 ~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~  178 (292)
T 1qqe_A           99 SLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEAS  178 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHH
Confidence            7776554211   11  134677777888885 88888888888766532110 1    346777788888888888888


Q ss_pred             HHHHHHHHCCCCcCH------HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc-C---HhHHHHHHHHHh--CcCCHHH
Q 038109          229 VLLRRMVDDGQSVLY------STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL-D---TELFGSLGSKLI--GLERFNE  296 (324)
Q Consensus       229 ~~~~~m~~~~~~p~~------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~---~~~~~~l~~~~~--~~g~~~~  296 (324)
                      ..|++..+.......      .+|..+..++...|++++|...++...+..+.. +   ...+..++..+.  ..+++++
T Consensus       179 ~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~  258 (292)
T 1qqe_A          179 DIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSE  258 (292)
T ss_dssp             HHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHH
T ss_pred             HHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHH
Confidence            888887765322211      145666677788888888888888877642211 1   112344555554  4567777


Q ss_pred             HHHHHHHHHhCCCchhH
Q 038109          297 ANFILKEMNKRDLKMGF  313 (324)
Q Consensus       297 a~~~~~~m~~~~~~~~~  313 (324)
                      |.+.|+++.  .+.|+.
T Consensus       259 A~~~~~~~~--~l~~~~  273 (292)
T 1qqe_A          259 HCKEFDNFM--RLDKWK  273 (292)
T ss_dssp             HHHHHTTSS--CCCHHH
T ss_pred             HHHHhccCC--ccHHHH
Confidence            777776554  344443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.36  E-value=1.1e-10  Score=98.89  Aligned_cols=228  Identities=9%  Similarity=-0.076  Sum_probs=173.3

Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHhc----CCCC-CchhhHhhhhchhhhhhHHHHHHHHHHHhcC---CCC-----HHHHH
Q 038109           41 LVNAAGHERDLETVRYLLNKRARD----CCFN-TANTFNFITNTENSLSVLSDLCRTLARLDKG---FPR-----KSAYD  107 (324)
Q Consensus        41 ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~p~-----~~~~~  107 (324)
                      .-..+...|++++|.+.+++..+.    +-.+ ...++..+...+...|+++.|...+.+..+.   .++     ..+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            344567899999999999998763    1111 2367888999999999999999999887432   222     23788


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHccCcHHHHHHHHHHHHhC----CC-CCCHHHHH
Q 038109          108 TLIGRLCKLKKIDEALRVVDIMAEG----GFGL-SAITFHPILSVLTRGKRMEEAWGLMEVMKEI----RV-SPDLTAYN  177 (324)
Q Consensus       108 ~li~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~~~~  177 (324)
                      .+...|...|++++|++.+++..+.    +-.+ ...++..+...|...|++++|...+++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            8999999999999999999988753    1111 1247888899999999999999999987762    22 34567889


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHC----CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCcC-HHHHHHH
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEE----KLGADARTYDALVLGACRAGR---VEEAFVLLRRMVDDGQSVL-YSTYAHV  249 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~p~-~~~~~~l  249 (324)
                      .+...|.+.|++++|...+++..+.    +-......+..+...+...|+   +++|..++++.   +..|+ ...+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            9999999999999999999987643    111123346778888889999   77777777665   33333 4567778


Q ss_pred             HHHHHhcCCHHHHHHHHHHhCC
Q 038109          250 MGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      ...|...|++++|...++...+
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8899999999999999977643

>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=1.5e-11  Score=99.18  Aligned_cols=224  Identities=13%  Similarity=0.067  Sum_probs=156.2

Q ss_pred             hhhhHHHHHHHHHHHhcCC-C-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC------CCC-CChhhHHHHHHHHHccC
Q 038109           82 SLSVLSDLCRTLARLDKGF-P-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEG------GFG-LSAITFHPILSVLTRGK  152 (324)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~~-p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~-~~~~~~~~li~~~~~~~  152 (324)
                      ....+++|.+++....... | ...++..+...|...|++++|+..+++..+.      +-. ....++..+...+...|
T Consensus        20 A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   99 (283)
T 3edt_B           20 AVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRG   99 (283)
T ss_dssp             HHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhc
Confidence            3445666666666665433 3 3448899999999999999999999998864      222 24567888999999999


Q ss_pred             cHHHHHHHHHHHHhC------C-CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC------CCCC-CHHHHHHHHHHH
Q 038109          153 RMEEAWGLMEVMKEI------R-VSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE------KLGA-DARTYDALVLGA  218 (324)
Q Consensus       153 ~~~~a~~~~~~m~~~------~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~~~~~li~~~  218 (324)
                      ++++|...+++..+.      . .+....++..+...|...|++++|...+++..+.      +..| ...++..+...|
T Consensus       100 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~  179 (283)
T 3edt_B          100 KYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCY  179 (283)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence            999999999988764      1 1234677889999999999999999999988764      1122 356788899999


Q ss_pred             HhcCCHHHHHHHHHHHHHC-------CCCcCH-HHHHHHHHHHHhcCC------HHHHHHHHHHhCCCCCCcCHhHHHHH
Q 038109          219 CRAGRVEEAFVLLRRMVDD-------GQSVLY-STYAHVMGALLRLGY------YAQAVKFVMVCGGRDIKLDTELFGSL  284 (324)
Q Consensus       219 ~~~g~~~~a~~~~~~m~~~-------~~~p~~-~~~~~li~~~~~~g~------~~~a~~~~~~~~~~~~~~~~~~~~~l  284 (324)
                      ...|++++|.+.+++..+.       ...+.. ..+..+.......+.      +..+...+...... .+....++..+
T Consensus       180 ~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l  258 (283)
T 3edt_B          180 LKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD-SPTVNTTLRSL  258 (283)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC-CHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Confidence            9999999999999988753       112222 223333333332222      33333333332222 22345678889


Q ss_pred             HHHHhCcCCHHHHHHHHHHHHh
Q 038109          285 GSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       285 ~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      ...|.+.|++++|.+++++..+
T Consensus       259 a~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          259 GALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999999999999998764

>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=99.34  E-value=6.5e-11  Score=107.71  Aligned_cols=167  Identities=14%  Similarity=0.052  Sum_probs=118.5

Q ss_pred             CC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 038109          101 PR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYL  179 (324)
Q Consensus       101 p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  179 (324)
                      |+ ..+|+.+...|.+.|++++|++.|++..+.... +..+|..+...+.+.|++++|...|++..+... -+...|..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P-~~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHH
Confidence            53 447788888888888888888888887764322 466777777777888888888888877776532 246677777


Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 038109          180 LTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYY  259 (324)
Q Consensus       180 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  259 (324)
                      ..+|...|++++|.+.|++..+.... +...|+.+..+|.+.|++++|++.|++..+... -+...+..+...+...|++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P-~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLKP-DFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHhhhhhHHHhcccH
Confidence            77777788888888887777766544 567777777777777777777777777765421 2355666677777777777


Q ss_pred             HHHHHHHHHhCC
Q 038109          260 AQAVKFVMVCGG  271 (324)
Q Consensus       260 ~~a~~~~~~~~~  271 (324)
                      ++|.+.+++..+
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777777666544

>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=99.33  E-value=4.9e-10  Score=87.66  Aligned_cols=195  Identities=14%  Similarity=-0.032  Sum_probs=124.7

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038109          102 RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLT  181 (324)
Q Consensus       102 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  181 (324)
                      +...|......+...|++++|+..|++..+...+++...+..+..++...|++++|...+++..+... .+...+..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHHHHHH
Confidence            44566667777777777777777777777654435666666677777777777777777777776542 24566777777


Q ss_pred             HHHhcCChhhHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC---HHHHHHHHH
Q 038109          182 AYCFKGNLTATSGVLKKMEEEKLGADA-------RTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL---YSTYAHVMG  251 (324)
Q Consensus       182 ~~~~~~~~~~a~~~~~~m~~~~~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~  251 (324)
                      +|...|++++|...|++..+..+. +.       ..|..+...+...|++++|.+.|++..+.  .|+   ...+..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            777788888888887777765433 34       44666677777788888888888877654  343   345555555


Q ss_pred             HHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          252 ALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       252 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      .+...|+     ..++.+...+ ..+...|.....  ...+.+++|...+++..+.+
T Consensus       162 ~~~~~~~-----~~~~~a~~~~-~~~~~~~~~~~~--~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          162 LFYNNGA-----DVLRKATPLA-SSNKEKYASEKA--KADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHH-----HHHHHHGGGT-TTCHHHHHHHHH--HHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHH-----HHHHHHHhcc-cCCHHHHHHHHH--HHHHHHHHHHHHHHHHhhcC
Confidence            5544433     3344444432 223444443332  23466788888888776543

>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=99.32  E-value=4.6e-11  Score=96.26  Aligned_cols=226  Identities=13%  Similarity=0.017  Sum_probs=157.8

Q ss_pred             HhcCCCHHHHHHHHHHHHhc-------CCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcC--------CC-CHHHHHH
Q 038109           45 AGHERDLETVRYLLNKRARD-------CCFNTANTFNFITNTENSLSVLSDLCRTLARLDKG--------FP-RKSAYDT  108 (324)
Q Consensus        45 ~~~~~~~~~a~~~~~~m~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~p-~~~~~~~  108 (324)
                      ....|++++|...+++..+.       ..+....++..+...+...|++++|...+++..+.        .| ...+|..
T Consensus        11 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           11 SSGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             --CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            45677888888887776652       22334567888999999999999999999987533        23 2348899


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhC------C-CCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC------CCCC-CHH
Q 038109          109 LIGRLCKLKKIDEALRVVDIMAEG------G-FGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI------RVSP-DLT  174 (324)
Q Consensus       109 li~~~~~~~~~~~a~~~~~~m~~~------g-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~  174 (324)
                      +...|...|++++|.+.+++..+.      . .+....++..+...+...|++++|...+++..+.      +..| ...
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            999999999999999999998764      1 1224677888999999999999999999998765      1122 356


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHC-------CCCCC-HHHHHHHHHHHHhcCCHH------HHHHHHHHHHHCCCC
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEE-------KLGAD-ARTYDALVLGACRAGRVE------EAFVLLRRMVDDGQS  240 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~~~-~~~~~~li~~~~~~g~~~------~a~~~~~~m~~~~~~  240 (324)
                      ++..+..+|...|++++|...+++..+.       ...+. ...|..+...+...+...      ++...++.... ...
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  249 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSP  249 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCH
Confidence            7889999999999999999999988753       11122 223333333333333322      22222221111 112


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          241 VLYSTYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       241 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      ....++..+...|...|++++|..+++...+
T Consensus       250 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          250 TVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2356678888999999999999999988755

>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=99.31  E-value=8.2e-10  Score=86.38  Aligned_cols=155  Identities=9%  Similarity=-0.088  Sum_probs=129.4

Q ss_pred             CChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 038109          136 LSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV  215 (324)
Q Consensus       136 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  215 (324)
                      .|+..+......+...|++++|...|++..+...+++...+..+..++...|++++|...|++..+..+. +...|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            3567788888899999999999999999998765467788888999999999999999999999987655 678899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcCH-------HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcC---HhHHHHHH
Q 038109          216 LGACRAGRVEEAFVLLRRMVDDGQSVLY-------STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLD---TELFGSLG  285 (324)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  285 (324)
                      .+|...|++++|.+.+++..+... .+.       ..|..+-..+...|++++|...++...+..  |+   ...+..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT--SKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS--CHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC--CCcccHHHHHHHH
Confidence            999999999999999999886532 223       457777788899999999999999998863  43   56777788


Q ss_pred             HHHhCcCCH
Q 038109          286 SKLIGLERF  294 (324)
Q Consensus       286 ~~~~~~g~~  294 (324)
                      ..|...|+.
T Consensus       161 ~~~~~~~~~  169 (228)
T 4i17_A          161 VLFYNNGAD  169 (228)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888766554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.28  E-value=8.4e-09  Score=89.33  Aligned_cols=212  Identities=14%  Similarity=0.031  Sum_probs=148.3

Q ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHccC---CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc----CcHHHHH
Q 038109           86 LSDLCRTLARLDKGFPRKSAYDTLIGRLCKLK---KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRG----KRMEEAW  158 (324)
Q Consensus        86 ~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~----~~~~~a~  158 (324)
                      .+.+..++.......|+  ++..+...|...|   +.++|++.|++..+.|.. +...+..+...|...    ++.++|.
T Consensus       161 ~~~a~~~~~~a~~~~~~--a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          161 LDDVERICKAALNTTDI--CYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             HHHHHHHHHHHTTTCTT--HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHH--HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            34444455555555555  7777888888888   889999999988887653 555445666666554    6889999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHH-H--HhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-----CHHHHHHH
Q 038109          159 GLMEVMKEIRVSPDLTAYNYLLTA-Y--CFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAG-----RVEEAFVL  230 (324)
Q Consensus       159 ~~~~~m~~~~~~~~~~~~~~li~~-~--~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-----~~~~a~~~  230 (324)
                      ..|+... .|   +...+..+... +  ...+++++|...|++..+.|   +...+..|...|. .|     ++++|.+.
T Consensus       238 ~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~  309 (452)
T 3e4b_A          238 ALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAH  309 (452)
T ss_dssp             HHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHH
Confidence            9998877 33   44556666665 3  45788999999999888775   6677777777776 45     88999999


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhC----cCCHHHHHHHHH
Q 038109          231 LRRMVDDGQSVLYSTYAHVMGALLR----LGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIG----LERFNEANFILK  302 (324)
Q Consensus       231 ~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~  302 (324)
                      |++.. .|   +...+..|-..|..    ..++++|..+++...+.|.   +.....|...|..    ..+.++|...|+
T Consensus       310 ~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~  382 (452)
T 3e4b_A          310 FEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQ  382 (452)
T ss_dssp             HHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHH
T ss_pred             HHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHH
Confidence            98776 33   34455555555554    3388999999988888763   3445566666664    458888998888


Q ss_pred             HHHhCCCchhHHH
Q 038109          303 EMNKRDLKMGFKL  315 (324)
Q Consensus       303 ~m~~~~~~~~~~~  315 (324)
                      ...+.|.......
T Consensus       383 ~A~~~g~~~a~~~  395 (452)
T 3e4b_A          383 LAKAQDTPEANDL  395 (452)
T ss_dssp             HHHTTCCHHHHHH
T ss_pred             HHHHCCCHHHHHH
Confidence            8877776554433

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.27  E-value=8.7e-10  Score=93.27  Aligned_cols=224  Identities=9%  Similarity=-0.022  Sum_probs=170.2

Q ss_pred             HHhcCCCHHHHHHHHHHHHhcCC-CCC----chhhHhhhhchhhhhhHHHHHHHHHHHhcC---CCC-----HHHHHHHH
Q 038109           44 AAGHERDLETVRYLLNKRARDCC-FNT----ANTFNFITNTENSLSVLSDLCRTLARLDKG---FPR-----KSAYDTLI  110 (324)
Q Consensus        44 ~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~p~-----~~~~~~li  110 (324)
                      .+...|++++|...+++..+.-. .++    ..++..+..+|...|+++.|...+++..+.   .++     ..+++.+.
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  189 (378)
T 3q15_A          110 YEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIA  189 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHH
Confidence            45688999999999999876311 122    357788899999999999999999887432   222     33788999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhC----CCC-CChhhHHHHHHHHHccCcHHHHHHHHHHHHh-----CCCCCCHHHHHHHH
Q 038109          111 GRLCKLKKIDEALRVVDIMAEG----GFG-LSAITFHPILSVLTRGKRMEEAWGLMEVMKE-----IRVSPDLTAYNYLL  180 (324)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~~~~~~~~~li  180 (324)
                      ..|...|++++|.+.|++..+.    +.. ....++..+...+...|++++|...+++..+     .. +....++..+.
T Consensus       190 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la  268 (378)
T 3q15_A          190 GNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLS  268 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHH
Confidence            9999999999999999988752    211 1235778888899999999999999998876     33 23477888999


Q ss_pred             HHHHhcCChhhHHHHHHHHHHCC----CCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCcC-HHHHHHHHHH
Q 038109          181 TAYCFKGNLTATSGVLKKMEEEK----LGADARTYDALVLGACRAGR---VEEAFVLLRRMVDDGQSVL-YSTYAHVMGA  252 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~p~-~~~~~~li~~  252 (324)
                      ..|.+.|++++|...+++..+..    -......+..+...+...++   +++|+..+++   .+..|+ ...+..+...
T Consensus       269 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~  345 (378)
T 3q15_A          269 WTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAV  345 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHH
Confidence            99999999999999999887642    22224456667777778888   7777777765   333333 3456678889


Q ss_pred             HHhcCCHHHHHHHHHHhCC
Q 038109          253 LLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       253 ~~~~g~~~~a~~~~~~~~~  271 (324)
                      |...|++++|...++...+
T Consensus       346 y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          346 FESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            9999999999999877643

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.26  E-value=2.5e-10  Score=98.98  Aligned_cols=248  Identities=15%  Similarity=0.032  Sum_probs=122.6

Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhH---HHHHHHHHHHhcCCCCHHHHHHHHHHHHccC
Q 038109           41 LVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVL---SDLCRTLARLDKGFPRKSAYDTLIGRLCKLK  117 (324)
Q Consensus        41 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~  117 (324)
                      +...+.+.|++++|.++|++..+.|   ++..+..+...|...|+.   ++|...|++..+.  +...+..+...+...+
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~--~~~A~~~Lg~~~~~~~   83 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT--SPRAQARLGRLLAAKP   83 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC------------------------------CHHHHHHHHHTC-
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC--CHHHHHHHHHHHHhCC
Confidence            4455566777777777777776654   344455566666666666   6777777766544  4444555555344443


Q ss_pred             -----CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHH---HHHHHHHHHHhCC---------------------
Q 038109          118 -----KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRME---EAWGLMEVMKEIR---------------------  168 (324)
Q Consensus       118 -----~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~---~a~~~~~~m~~~~---------------------  168 (324)
                           +.++|++.|++..+.|..   ..+..+...|...+..+   ++.+.+......|                     
T Consensus        84 ~~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~  160 (452)
T 3e4b_A           84 GATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQH  160 (452)
T ss_dssp             -CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGG
T ss_pred             CCCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccC
Confidence                 667777777777765532   23444444444333211   1122222221111                     


Q ss_pred             -----------CCCCHHHHHHHHHHHHhcC---ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc----CCHHHHHHH
Q 038109          169 -----------VSPDLTAYNYLLTAYCFKG---NLTATSGVLKKMEEEKLGADARTYDALVLGACRA----GRVEEAFVL  230 (324)
Q Consensus       169 -----------~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~----g~~~~a~~~  230 (324)
                                 ...+...+..+...|...|   +.++|.+.|++..+.|.. +...+..+...|...    +++++|.+.
T Consensus       161 ~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~  239 (452)
T 3e4b_A          161 LDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQAL  239 (452)
T ss_dssp             HHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHH
Confidence                       1112225566666666666   667777777777666554 455445555555443    567777777


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHH-H--HhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcC-----CHHHHHHHHH
Q 038109          231 LRRMVDDGQSVLYSTYAHVMGA-L--LRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLE-----RFNEANFILK  302 (324)
Q Consensus       231 ~~~m~~~~~~p~~~~~~~li~~-~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~a~~~~~  302 (324)
                      |++.. .|   +...+..+-.. +  ...+++++|..+++...+.|   ++..+..|...|. .|     ++++|.+.|+
T Consensus       240 ~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~  311 (452)
T 3e4b_A          240 LEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFE  311 (452)
T ss_dssp             HHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHH
T ss_pred             HHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHH
Confidence            77665 32   22333334333 2  34667777777777766655   4455555666665 34     7777777776


Q ss_pred             HHH
Q 038109          303 EMN  305 (324)
Q Consensus       303 ~m~  305 (324)
                      +..
T Consensus       312 ~Aa  314 (452)
T 3e4b_A          312 KAV  314 (452)
T ss_dssp             TTT
T ss_pred             HHh
Confidence            655

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.25  E-value=1.1e-09  Score=88.27  Aligned_cols=180  Identities=7%  Similarity=0.005  Sum_probs=114.9

Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 038109          122 ALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRV-SPDLTAYNYLLTAYCFKGNLTATSGVLKKME  200 (324)
Q Consensus       122 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  200 (324)
                      |+..|++..+.+ .++..++..+..++...|++++|++++.+....|. .-+...+..++..+.+.|+.+.|.+.+++|.
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            667777776654 34555555677777778888888888887766543 1256667777788888888888888888887


Q ss_pred             HCCCCC-----CHHHHHHHHHHHH--hcC--CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          201 EEKLGA-----DARTYDALVLGAC--RAG--RVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       201 ~~~~~~-----~~~~~~~li~~~~--~~g--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      +.  .|     +..+...++.++.  ..|  +.++|..+|+++.+.  .|+..+-..++.++.+.|++++|++.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            65  34     2455555555522  223  788888888887543  34433334444577788888888888776554


Q ss_pred             CC---------CCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          272 RD---------IKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       272 ~~---------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      .-         -+-++.+...+|......|+  +|.++++++.+..
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            31         02255666455554444565  6777777777544

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.25  E-value=1.7e-09  Score=91.13  Aligned_cols=232  Identities=12%  Similarity=0.023  Sum_probs=167.5

Q ss_pred             hhhhchhhhhhHHHHHHHHHHHhcCCC--CHH----HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CC----hhhHHH
Q 038109           75 FITNTENSLSVLSDLCRTLARLDKGFP--RKS----AYDTLIGRLCKLKKIDEALRVVDIMAEGGFG-LS----AITFHP  143 (324)
Q Consensus        75 ~l~~~~~~~~~~~~a~~~~~~~~~~~p--~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~----~~~~~~  143 (324)
                      .....+...|++++|...+++.....|  +..    +++.+...+...|++++|.+.+++..+.... .+    ..++..
T Consensus        19 ~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   98 (373)
T 1hz4_A           19 LRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQ   98 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            344556778999999999998765544  222    5667778899999999999999987752111 12    233566


Q ss_pred             HHHHHHccCcHHHHHHHHHHHHhC----CCC--C-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC----CCHHHHH
Q 038109          144 ILSVLTRGKRMEEAWGLMEVMKEI----RVS--P-DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG----ADARTYD  212 (324)
Q Consensus       144 li~~~~~~~~~~~a~~~~~~m~~~----~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~----~~~~~~~  212 (324)
                      +...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++.......    ....++.
T Consensus        99 la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  178 (373)
T 1hz4_A           99 QSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLA  178 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHH
Confidence            777888999999999999987643    222  2 2456677888999999999999999987754221    1245778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCcC--HHHHH----HHHHHHHhcCCHHHHHHHHHHhCCCCCCc---CHhHHHH
Q 038109          213 ALVLGACRAGRVEEAFVLLRRMVDDGQSVL--YSTYA----HVMGALLRLGYYAQAVKFVMVCGGRDIKL---DTELFGS  283 (324)
Q Consensus       213 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~----~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~  283 (324)
                      .+...+...|++++|...+++.......++  .....    .....+...|++++|..+++........+   ....+..
T Consensus       179 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  258 (373)
T 1hz4_A          179 MLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRN  258 (373)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHH
Confidence            888999999999999999998765311111  11111    23344779999999999999987754321   1234667


Q ss_pred             HHHHHhCcCCHHHHHHHHHHHHh
Q 038109          284 LGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       284 l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      +...+...|++++|...+++..+
T Consensus       259 la~~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          259 IARAQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            78889999999999999998753

>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=99.23  E-value=7.9e-10  Score=78.27  Aligned_cols=128  Identities=16%  Similarity=0.177  Sum_probs=76.9

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLR  255 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  255 (324)
                      +..+...+...|++++|..+++++.+.+.. +...+..+...+...|++++|...++++...+ +.+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            445555666666666666666666554332 45556666666666666666666666665443 1234455556666666


Q ss_pred             cCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          256 LGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       256 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .|++++|..+++.+.... +.+...+..+...+.+.|++++|.+.++++.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            666666666666655543 22455666666677777777777777766654

>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=99.22  E-value=1.3e-09  Score=77.15  Aligned_cols=129  Identities=19%  Similarity=0.142  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      +|..+...+...|++++|..+++++.+... .+...+..+...+...|++++|...++++.+.+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            345555666666666666666666655422 244555555566666666666666666655543 224455555666666


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      ..|++++|...++++.+.... +...+..+...+.+.|++++|.+.++++..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            666666666666666554332 455555666666666666666666665543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.17  E-value=8.4e-10  Score=89.89  Aligned_cols=206  Identities=10%  Similarity=-0.026  Sum_probs=143.6

Q ss_pred             CHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcC-----CCC--HHHHHHHHHHHHccCCHHHH
Q 038109           50 DLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKG-----FPR--KSAYDTLIGRLCKLKKIDEA  122 (324)
Q Consensus        50 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~--~~~~~~li~~~~~~~~~~~a  122 (324)
                      ++++|.+.|++.               ...|...|++++|...|.+....     .|.  ..+|+.+...|.+.|++++|
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            477887777765               23456678888888877766332     121  34788888889899999999


Q ss_pred             HHHHHHHHhC----CCCC-ChhhHHHHHHHHHcc-CcHHHHHHHHHHHHhCCCCC-C----HHHHHHHHHHHHhcCChhh
Q 038109          123 LRVVDIMAEG----GFGL-SAITFHPILSVLTRG-KRMEEAWGLMEVMKEIRVSP-D----LTAYNYLLTAYCFKGNLTA  191 (324)
Q Consensus       123 ~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~~-~----~~~~~~li~~~~~~~~~~~  191 (324)
                      +..+++..+.    |-.. -..++..+...|... |++++|...|++..+..... +    ..+++.+...+.+.|++++
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            8888887652    1111 135778888888885 99999999998876532110 1    3568888899999999999


Q ss_pred             HHHHHHHHHHCCCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH------HHHHHHHHHHH--hcC
Q 038109          192 TSGVLKKMEEEKLGADA------RTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLY------STYAHVMGALL--RLG  257 (324)
Q Consensus       192 a~~~~~~m~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~------~~~~~li~~~~--~~g  257 (324)
                      |...|++..+.......      ..|..+..++...|++++|...|++..+.  .|+.      ..+..++.++.  ..+
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~  254 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSE  254 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHH
Confidence            99999998876544322      25677788888999999999999887643  2321      23444566664  456


Q ss_pred             CHHHHHHHHHHhCCC
Q 038109          258 YYAQAVKFVMVCGGR  272 (324)
Q Consensus       258 ~~~~a~~~~~~~~~~  272 (324)
                      ++++|...++.+...
T Consensus       255 ~~~~A~~~~~~~~~l  269 (292)
T 1qqe_A          255 QLSEHCKEFDNFMRL  269 (292)
T ss_dssp             THHHHHHHHTTSSCC
T ss_pred             HHHHHHHHhccCCcc
Confidence            788888888776653

>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=99.14  E-value=1.9e-09  Score=78.52  Aligned_cols=145  Identities=8%  Similarity=-0.045  Sum_probs=102.3

Q ss_pred             hhhchhhhhhHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcH
Q 038109           76 ITNTENSLSVLSDLCRTLARLDKGFPRKS-AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRM  154 (324)
Q Consensus        76 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~  154 (324)
                      |...+...|++++|...+.......|+.. .+-.+...|.+.|++++|++.|++..+.... +..+|..+...+.+.|++
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCch
Confidence            45567778888888888888766555433 5667788888888888888888888775332 677788888888888888


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHH-HHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 038109          155 EEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGV-LKKMEEEKLGADARTYDALVLGACRAGR  223 (324)
Q Consensus       155 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~-~~~m~~~~~~~~~~~~~~li~~~~~~g~  223 (324)
                      ++|...|++..+... -+..++..+...|.+.|++++|.+. +++..+..+. +..+|......+...|+
T Consensus        82 ~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVELNP-TQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCc
Confidence            888888888777542 2567777888888888888766554 4666665443 56667766666665554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.13  E-value=2.3e-09  Score=85.69  Aligned_cols=60  Identities=10%  Similarity=-0.000  Sum_probs=32.2

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHH
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGA--DARTYDALVLGACRA----------GRVEEAFVLLRRMVD  236 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~  236 (324)
                      ..+...|.+.|++++|...|++..+..+..  ....+..+..+|...          |++++|...|++..+
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~  223 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQ  223 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHH
Confidence            344555666666666666666665542221  123445555555544          556666666666554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.12  E-value=3.4e-09  Score=84.68  Aligned_cols=183  Identities=10%  Similarity=-0.106  Sum_probs=99.9

Q ss_pred             chhhHhhhhchhhhhhHHHHHHHHHHHhcCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CC-ChhhHHH
Q 038109           70 ANTFNFITNTENSLSVLSDLCRTLARLDKGFPR----KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGF-GL-SAITFHP  143 (324)
Q Consensus        70 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~-~~~~~~~  143 (324)
                      +..+..+...+.+.|++++|...|+.+.+..|+    ..++..+..+|.+.|++++|+..|++..+... .| ...++..
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~   94 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYE   94 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHH
Confidence            344445555556666666666666666554443    33555555666666666666666666555321 11 1233444


Q ss_pred             HHHHHHc--------cCcHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHH
Q 038109          144 ILSVLTR--------GKRMEEAWGLMEVMKEIRVSPDL-TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDAL  214 (324)
Q Consensus       144 li~~~~~--------~~~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  214 (324)
                      +..++..        .|++++|...|++..+..  |+. .....+..              +..+...    ....+..+
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~--------------~~~~~~~----~~~~~~~l  154 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQK--------------IRELRAK----LARKQYEA  154 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHH--------------HHHHHHH----HHHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHH--------------HHHHHHH----HHHHHHHH
Confidence            4445555        555666666655555432  211 11111100              0000000    01113556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCC-c-CHHHHHHHHHHHHhc----------CCHHHHHHHHHHhCCC
Q 038109          215 VLGACRAGRVEEAFVLLRRMVDDGQS-V-LYSTYAHVMGALLRL----------GYYAQAVKFVMVCGGR  272 (324)
Q Consensus       215 i~~~~~~g~~~~a~~~~~~m~~~~~~-p-~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~  272 (324)
                      ...|.+.|++++|...|++..+.... | ....+..+..+|...          |++++|...++.+.+.
T Consensus       155 a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          155 ARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            77888899999999999888765321 1 234566677777755          8888888888887765

>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=99.12  E-value=3.4e-09  Score=96.57  Aligned_cols=185  Identities=14%  Similarity=-0.001  Sum_probs=147.5

Q ss_pred             HccCCHHHHHHHHHHHH--------hCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 038109          114 CKLKKIDEALRVVDIMA--------EGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF  185 (324)
Q Consensus       114 ~~~~~~~~a~~~~~~m~--------~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  185 (324)
                      ...|++++|++.+++..        +. .+.+...+..+...+...|++++|...+++..+... .+...|..+..+|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHH
Confidence            78899999999999998        32 233567788888999999999999999999887642 367888999999999


Q ss_pred             cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 038109          186 KGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKF  265 (324)
Q Consensus       186 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  265 (324)
                      .|++++|...|++..+.... +...|..+..++.+.|++++ .+.|++..+... -+...+..+..++.+.|++++|...
T Consensus       480 ~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999887655 67888999999999999999 999999886532 3467788889999999999999999


Q ss_pred             HHHhCCCCCCcCHhHHHHHHHHHhCcCC--------HHHHHHHHHHH
Q 038109          266 VMVCGGRDIKLDTELFGSLGSKLIGLER--------FNEANFILKEM  304 (324)
Q Consensus       266 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~--------~~~a~~~~~~m  304 (324)
                      ++...+.... +...+..+..++...|+        +++|.+.+..+
T Consensus       557 ~~~al~l~P~-~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~  602 (681)
T 2pzi_A          557 LDEVPPTSRH-FTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEAL  602 (681)
T ss_dssp             HHTSCTTSTT-HHHHHHHHHHHTC-------CCHHHHHHHHHHHHTS
T ss_pred             HHhhcccCcc-cHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhC
Confidence            9999886532 46677778888876554        45555554433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.11  E-value=1.1e-08  Score=78.82  Aligned_cols=125  Identities=6%  Similarity=-0.044  Sum_probs=71.8

Q ss_pred             HHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 038109          144 ILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGR  223 (324)
Q Consensus       144 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  223 (324)
                      +...+.+.|++++|...+++..+... -+...+..+..++...|++++|...|++..+..+. +..+|..+..+|...|+
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKAP-NNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhH
Confidence            56666677777777777777666532 25666667777777777777777777777665444 56666666666654443


Q ss_pred             --HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          224 --VEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       224 --~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                        .+.+...++...  ...|....+...-.++...|++++|...|++..+.
T Consensus       138 ~~~~~~~~~~~~~~--~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  186 (208)
T 3urz_A          138 QEKKKLETDYKKLS--SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR  186 (208)
T ss_dssp             HHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence              233444444432  11222222233334455566777777777777664

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.09  E-value=1.3e-08  Score=82.08  Aligned_cols=179  Identities=12%  Similarity=-0.021  Sum_probs=131.1

Q ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CCChhhHHHHHHHHHccCcHHHHHHHHHHHHh
Q 038109           89 LCRTLARLDKG-FPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGF-GLSAITFHPILSVLTRGKRMEEAWGLMEVMKE  166 (324)
Q Consensus        89 a~~~~~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  166 (324)
                      +...|+++... .++..++..+..++...|++++|++++.+....|. .-+...+..++..+.+.|+.+.|.+.++.|.+
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            66777776544 35666667888999999999999999998877654 23667788889999999999999999999987


Q ss_pred             CCCCC-----CHHHHHHHHHH--HHhcC--ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          167 IRVSP-----DLTAYNYLLTA--YCFKG--NLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       167 ~~~~~-----~~~~~~~li~~--~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      .  .|     +..+...+..+  ....|  ++.+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+.
T Consensus       165 ~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~  240 (310)
T 3mv2_B          165 A--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSD  240 (310)
T ss_dssp             H--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSH
T ss_pred             c--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5  45     34555556555  33334  899999999998765  345444455555889999999999999876542


Q ss_pred             -----C----CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC
Q 038109          238 -----G----QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRD  273 (324)
Q Consensus       238 -----~----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (324)
                           .    -+-+..++..+|......|+  .|.+++.++.+..
T Consensus       241 ~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          241 YYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             cccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence                 0    12355666566666666776  8888998888754

>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=99.08  E-value=3.4e-09  Score=96.55  Aligned_cols=173  Identities=9%  Similarity=-0.088  Sum_probs=126.6

Q ss_pred             hcCCCHHHHHHHHHHHH--------hcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHcc
Q 038109           46 GHERDLETVRYLLNKRA--------RDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKL  116 (324)
Q Consensus        46 ~~~~~~~~a~~~~~~m~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~  116 (324)
                      ...|++++|.+.+++..        +. .+.+...+..+..++...|++++|...++++.+..| +...|..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            67788888888888887        32 244556777778888888888888888888876666 556788888888888


Q ss_pred             CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHH
Q 038109          117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVL  196 (324)
Q Consensus       117 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  196 (324)
                      |++++|++.|++..+.... +...|..+...+.+.|++++ ...|++..+... .+...|..+..++.+.|++++|...|
T Consensus       481 g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            8888888888888775322 56677778888888888888 888888777542 35677788888888888888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 038109          197 KKMEEEKLGADARTYDALVLGACRAGR  223 (324)
Q Consensus       197 ~~m~~~~~~~~~~~~~~li~~~~~~g~  223 (324)
                      ++..+.+.. +...+..+..++...++
T Consensus       558 ~~al~l~P~-~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRH-FTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTT-HHHHHHHHHHHTC----
T ss_pred             HhhcccCcc-cHHHHHHHHHHHHccCC
Confidence            877765433 35667667777666554

>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=99.07  E-value=1.5e-08  Score=83.11  Aligned_cols=228  Identities=12%  Similarity=-0.010  Sum_probs=150.0

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 038109           47 HERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVV  126 (324)
Q Consensus        47 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  126 (324)
                      ..|++++|.+++++..+.. +..      +   +...++++.|...|.+.             ...|...|++++|...|
T Consensus         3 ~~~~~~eA~~~~~~a~k~~-~~~------~---~~~~~~~~~A~~~~~~a-------------~~~~~~~g~~~~A~~~~   59 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYL-KTS------F---MKWKPDYDSAASEYAKA-------------AVAFKNAKQLEQAKDAY   59 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHH-CCC------S---SSCSCCHHHHHHHHHHH-------------HHHHHHTTCHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHc-ccc------c---cCCCCCHHHHHHHHHHH-------------HHHHHHcCCHHHHHHHH
Confidence            3577888888888776541 111      1   11146677777665543             55777888999998888


Q ss_pred             HHHHhC----CCCC-ChhhHHHHHHHHHccCcHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChhhHHHHH
Q 038109          127 DIMAEG----GFGL-SAITFHPILSVLTRGKRMEEAWGLMEVMKEI----RVSP-DLTAYNYLLTAYCFKGNLTATSGVL  196 (324)
Q Consensus       127 ~~m~~~----g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~  196 (324)
                      .+..+.    |-.+ -..+|+.+...|.+.|++++|...+++..+.    |-.. ...+++.+...|.. |++++|...|
T Consensus        60 ~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~  138 (307)
T 2ifu_A           60 LQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLY  138 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHH
Confidence            877652    1111 1357778888888889999998888876543    2111 24567788888888 9999999998


Q ss_pred             HHHHHCCCCC-----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcC-HHHHHHHHHHHHhcCCHHHHHHHH
Q 038109          197 KKMEEEKLGA-----DARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQSVL-YSTYAHVMGALLRLGYYAQAVKFV  266 (324)
Q Consensus       197 ~~m~~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~  266 (324)
                      ++..+.....     ...+++.+...|.+.|++++|++.|++....    +..+. ..++..+...+...|++++|...+
T Consensus       139 ~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~  218 (307)
T 2ifu_A          139 QQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCV  218 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            8766431111     1457788888999999999999999887653    22222 225666666777789999999999


Q ss_pred             HHhCCCCCCc-C---HhHHHHHHHHHhCcCCHHHHHHH
Q 038109          267 MVCGGRDIKL-D---TELFGSLGSKLIGLERFNEANFI  300 (324)
Q Consensus       267 ~~~~~~~~~~-~---~~~~~~l~~~~~~~g~~~~a~~~  300 (324)
                      +... ..... +   ......++..+ ..|+.+.+.++
T Consensus       219 ~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          219 RESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            8887 42211 1   12344455555 45776666553

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.06  E-value=1.9e-08  Score=77.44  Aligned_cols=129  Identities=10%  Similarity=-0.052  Sum_probs=96.0

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLR  255 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  255 (324)
                      .+.+..+|.+.|++++|...|++..+..+. +...+..+..++...|++++|...|++..+... -+..++..+...+..
T Consensus        57 ~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           57 ATELALAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLEA-DNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHH
Confidence            344888999999999999999999988665 789999999999999999999999999987532 346677777777766


Q ss_pred             cCCH--HHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          256 LGYY--AQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       256 ~g~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      .|+.  ..+...+.....  ..|....+.....++...|++++|...|++..+..
T Consensus       135 ~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          135 TAEQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTS
T ss_pred             HhHHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            6543  344555544432  23333334445666777899999999999987544

>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=99.03  E-value=5.9e-08  Score=74.91  Aligned_cols=165  Identities=11%  Similarity=-0.079  Sum_probs=73.3

Q ss_pred             hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----ChhhHHHHHHHHHHCCCCCCHHHHHH
Q 038109          138 AITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKG----NLTATSGVLKKMEEEKLGADARTYDA  213 (324)
Q Consensus       138 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~~~~~~~~~  213 (324)
                      ...+..+-..|...+++++|...|++..+.|   +...+..+-..|.. +    ++++|.+.|++..+.|   +...+..
T Consensus        18 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~   90 (212)
T 3rjv_A           18 RRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIV   90 (212)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            3344444444444444444444444444433   23333344444443 3    4455555555444432   3344444


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHHCCCC-cCHHHHHHHHHHHHh----cCCHHHHHHHHHHhCCCCCCcCHhHHHHH
Q 038109          214 LVLGACR----AGRVEEAFVLLRRMVDDGQS-VLYSTYAHVMGALLR----LGYYAQAVKFVMVCGGRDIKLDTELFGSL  284 (324)
Q Consensus       214 li~~~~~----~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  284 (324)
                      |...|..    .+++++|.+.|++..+.|.. .+...+..|-..|..    .+++++|..+++...+.+  .+...+..|
T Consensus        91 Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~a~~~L  168 (212)
T 3rjv_A           91 LARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS--RTGYAEYWA  168 (212)
T ss_dssp             HHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS--CTTHHHHHH
T ss_pred             HHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC--CCHHHHHHH
Confidence            4444444    44555555555554443321 013334444444444    445555555555554431  122334444


Q ss_pred             HHHHhCc-C-----CHHHHHHHHHHHHhCCCch
Q 038109          285 GSKLIGL-E-----RFNEANFILKEMNKRDLKM  311 (324)
Q Consensus       285 ~~~~~~~-g-----~~~~a~~~~~~m~~~~~~~  311 (324)
                      ...|... |     +.++|...|++..+.|...
T Consensus       169 g~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~~  201 (212)
T 3rjv_A          169 GMMFQQGEKGFIEPNKQKALHWLNVSCLEGFDT  201 (212)
T ss_dssp             HHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCHH
Confidence            4444322 1     5555555555555554433

>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=99.02  E-value=1.4e-08  Score=90.58  Aligned_cols=155  Identities=12%  Similarity=-0.037  Sum_probs=103.0

Q ss_pred             CCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHH
Q 038109           48 ERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVV  126 (324)
Q Consensus        48 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~  126 (324)
                      .|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+..| +...|..+...|...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            467788888888776642 34457777788888888888888888888877666 4567788888888888888888888


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CChhhHHHHHHHHHHCC
Q 038109          127 DIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFK---GNLTATSGVLKKMEEEK  203 (324)
Q Consensus       127 ~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~~  203 (324)
                      ++..+... .+...+..+...+.+.|++++|.+.+++..+... .+...+..+..++...   |++++|.+.+++..+.+
T Consensus        81 ~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDAAP-EHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            88877532 2566777778888888888888888888776542 3566777778888888   88888888888877765


Q ss_pred             CC
Q 038109          204 LG  205 (324)
Q Consensus       204 ~~  205 (324)
                      ..
T Consensus       159 p~  160 (568)
T 2vsy_A          159 VG  160 (568)
T ss_dssp             CC
T ss_pred             Cc
Confidence            44

>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=99.01  E-value=3.1e-09  Score=79.57  Aligned_cols=157  Identities=12%  Similarity=0.015  Sum_probs=78.0

Q ss_pred             hhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH-HHccC
Q 038109           75 FITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSV-LTRGK  152 (324)
Q Consensus        75 ~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~~  152 (324)
                      .....+...|++++|...+++..+..| +...+..+...+...|++++|+..+++..+..  |+...+...... +...+
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~   88 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQA   88 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhhc
Confidence            344445555666666666555544334 34455666666666666666666665554422  222222111111 11111


Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 038109          153 RMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGA-DARTYDALVLGACRAGRVEEAFVLL  231 (324)
Q Consensus       153 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~  231 (324)
                      +...|...+++..+.. +.+...+..+..++...|++++|...|++..+..+.+ +...+..+...+...|+.++|...|
T Consensus        89 ~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y  167 (176)
T 2r5s_A           89 AESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKY  167 (176)
T ss_dssp             TSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             ccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            1223455555554432 1135555555666666666666666666655554332 2345555566666666666666655


Q ss_pred             HHH
Q 038109          232 RRM  234 (324)
Q Consensus       232 ~~m  234 (324)
                      ++.
T Consensus       168 ~~a  170 (176)
T 2r5s_A          168 RRQ  170 (176)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.00  E-value=7e-08  Score=75.25  Aligned_cols=64  Identities=6%  Similarity=-0.137  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCC----chhhHhhhhchhhhhhHHHHHHHHHHHhcCCC
Q 038109           36 AYYDDLVNAAGHERDLETVRYLLNKRARDCCFNT----ANTFNFITNTENSLSVLSDLCRTLARLDKGFP  101 (324)
Q Consensus        36 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  101 (324)
                      ..+..+...+.+.|++++|...|+.+.+..  |+    ...+..+..++.+.|++++|...|+++.+..|
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P   72 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNP   72 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCc
Confidence            334445555666677777777777766532  22    23455566666666777777776666655444

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.00  E-value=4.3e-08  Score=76.43  Aligned_cols=60  Identities=10%  Similarity=-0.018  Sum_probs=35.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhCCCCCCc--CHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          249 VMGALLRLGYYAQAVKFVMVCGGRDIKL--DTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      +...+.+.|++++|...++.+.+..+..  ....+..+..+|.+.|+.++|.+.++.+...+
T Consensus       153 ~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          153 VAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            3455666667777766666665542211  12345566666667777777777766665543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.00  E-value=6.4e-09  Score=84.41  Aligned_cols=178  Identities=16%  Similarity=0.039  Sum_probs=139.5

Q ss_pred             hHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHH
Q 038109           85 VLSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEV  163 (324)
Q Consensus        85 ~~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  163 (324)
                      ..+.....+....   |+ ...+..+...+...|++++|...|++..+.... +...+..+...+.+.|++++|...+++
T Consensus       101 ~~~~l~~~l~~~l---p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~  176 (287)
T 3qou_A          101 PEEAIRALLDXVL---PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXT  176 (287)
T ss_dssp             CHHHHHHHHHHHS---CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHc---CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            3444444444443   54 447788889999999999999999999885432 677888999999999999999999998


Q ss_pred             HHhCCCCCCHHHHHH-HHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-c
Q 038109          164 MKEIRVSPDLTAYNY-LLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQS-V  241 (324)
Q Consensus       164 m~~~~~~~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p  241 (324)
                      .....  |+...... ....+...++.++|...+++.....+. +...+..+...+...|++++|...|++..+.... .
T Consensus       177 ~~~~~--p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~  253 (287)
T 3qou_A          177 IPLQD--QDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAA  253 (287)
T ss_dssp             SCGGG--CSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGG
T ss_pred             Cchhh--cchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccc
Confidence            87653  45443332 233466788889999999998887655 7889999999999999999999999999876432 2


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          242 LYSTYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      +...+..+...+...|+.++|...++..
T Consensus       254 ~~~a~~~l~~~~~~~g~~~~a~~~~r~a  281 (287)
T 3qou_A          254 DGQTRXTFQEILAALGTGDALASXYRRQ  281 (287)
T ss_dssp             GGHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            3567888999999999999998887654

>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=99.00  E-value=6.7e-08  Score=74.62  Aligned_cols=163  Identities=11%  Similarity=-0.049  Sum_probs=86.8

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC----cHHHHHHHHHHHHhCCCCCCHHHHH
Q 038109          102 RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGK----RMEEAWGLMEVMKEIRVSPDLTAYN  177 (324)
Q Consensus       102 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~~~~~~~~  177 (324)
                      +..++..+...|...+++++|++.|++..+.|   +...+..+-..|.. +    +.++|...|++..+.|   +...+.
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~   89 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEI   89 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            44455555555555666666666666665543   33444455555554 4    5666666666655543   344455


Q ss_pred             HHHHHHHh----cCChhhHHHHHHHHHHCCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHH
Q 038109          178 YLLTAYCF----KGNLTATSGVLKKMEEEKLG-ADARTYDALVLGACR----AGRVEEAFVLLRRMVDDGQSVLYSTYAH  248 (324)
Q Consensus       178 ~li~~~~~----~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~  248 (324)
                      .+...|..    .+++++|.+.|++..+.|.. .+...+..|-..|..    .++.++|.+.|++..+.+  .+...+..
T Consensus        90 ~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~a~~~  167 (212)
T 3rjv_A           90 VLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS--RTGYAEYW  167 (212)
T ss_dssp             HHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS--CTTHHHHH
T ss_pred             HHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC--CCHHHHHH
Confidence            55555554    55666666666665554321 014555555555555    556666666666665541  12223344


Q ss_pred             HHHHHHhc-C-----CHHHHHHHHHHhCCCC
Q 038109          249 VMGALLRL-G-----YYAQAVKFVMVCGGRD  273 (324)
Q Consensus       249 li~~~~~~-g-----~~~~a~~~~~~~~~~~  273 (324)
                      |-..|... |     +.++|..+++...+.|
T Consensus       168 Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          168 AGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            44444432 2     5666666666555554

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.99  E-value=3e-08  Score=80.47  Aligned_cols=167  Identities=10%  Similarity=0.008  Sum_probs=132.8

Q ss_pred             CCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHH-H
Q 038109          135 GLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYD-A  213 (324)
Q Consensus       135 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-~  213 (324)
                      +.+...+..+...+...|++++|...+++..+... -+...+..+...+...|++++|...+++.....  |+..... .
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHH
Confidence            34556677788888999999999999999888643 367788899999999999999999999887653  4444333 3


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc-CHhHHHHHHHHHhCcC
Q 038109          214 LVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL-DTELFGSLGSKLIGLE  292 (324)
Q Consensus       214 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  292 (324)
                      ....+.+.++.++|.+.+++..... +.+...+..+...+...|++++|...+..+.+..... +...+..++..|...|
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            3344677888888999999887654 2456778888999999999999999999988764331 3678889999999999


Q ss_pred             CHHHHHHHHHHHH
Q 038109          293 RFNEANFILKEMN  305 (324)
Q Consensus       293 ~~~~a~~~~~~m~  305 (324)
                      +.++|...+++-.
T Consensus       270 ~~~~a~~~~r~al  282 (287)
T 3qou_A          270 TGDALASXYRRQL  282 (287)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            9999998888754

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.98  E-value=2.2e-07  Score=75.53  Aligned_cols=215  Identities=8%  Similarity=-0.047  Sum_probs=99.6

Q ss_pred             HHHHHHHHHHHhcCCCCCchhhHhhhhchhhhh--hHHHHHHHHHHHhcCCC-CHHHHHHHHHHH----Hcc---CCHHH
Q 038109           52 ETVRYLLNKRARDCCFNTANTFNFITNTENSLS--VLSDLCRTLARLDKGFP-RKSAYDTLIGRL----CKL---KKIDE  121 (324)
Q Consensus        52 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~p-~~~~~~~li~~~----~~~---~~~~~  121 (324)
                      ++|+++++.++..+ +-+...|+.--.++...+  +++++.++++.+....| +..+|+.--..+    ...   +++++
T Consensus        50 ~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~  128 (306)
T 3dra_A           50 ERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYR  128 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHH
T ss_pred             HHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHH
Confidence            46666666666532 222234455444555555  56666666666554444 233443222222    222   45555


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHH--HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC------hhhHH
Q 038109          122 ALRVVDIMAEGGFGLSAITFHPILSVLTRGKRME--EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGN------LTATS  193 (324)
Q Consensus       122 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~--~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~------~~~a~  193 (324)
                      ++++++++.+.... +..+|+--...+.+.|.++  ++++.++.+.+.... |-..|+.......+.+.      +++++
T Consensus       129 EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl  206 (306)
T 3dra_A          129 EFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEEL  206 (306)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHH
Confidence            55555555554322 4444444444444445444  555555555554332 44444444444444443      45555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHCC--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhC
Q 038109          194 GVLKKMEEEKLGADARTYDALVLGACRAGRVEE-AFVLLRRMVDDG--QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       194 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (324)
                      +.++++....+. |...|+-+-..+.+.|+..+ +..+..+....+  -..+...+..+...+.+.|+.++|.++++.+.
T Consensus       207 ~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~  285 (306)
T 3dra_A          207 NYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLK  285 (306)
T ss_dssp             HHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            555555554444 55555555555544444222 223333333211  11233444444444444555555555554443

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.98  E-value=9.4e-09  Score=76.92  Aligned_cols=156  Identities=9%  Similarity=0.001  Sum_probs=66.1

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCC
Q 038109          145 LSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLG-ACRAGR  223 (324)
Q Consensus       145 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~g~  223 (324)
                      ...+.+.|++++|...+++..+.. +.+...+..+..++...|++++|...|++......  +...+..+... +...+.
T Consensus        13 a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~~~~~~   89 (176)
T 2r5s_A           13 VSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLELHQQAA   89 (176)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHHHhhcc
Confidence            334444444444444444433321 11334444444444445555555544444433221  22221111111 111112


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc-CHhHHHHHHHHHhCcCCHHHHHHHHH
Q 038109          224 VEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL-DTELFGSLGSKLIGLERFNEANFILK  302 (324)
Q Consensus       224 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~  302 (324)
                      ..+|...+++..+.. +-+...+..+...+...|++++|...++.+.+..+.+ +...+..+...+...|+.++|...|+
T Consensus        90 ~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~  168 (176)
T 2r5s_A           90 ESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYR  168 (176)
T ss_dssp             SCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             cchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHH
Confidence            223444444444321 1123444445555555555555555555555443221 23345555555555555555555555


Q ss_pred             HH
Q 038109          303 EM  304 (324)
Q Consensus       303 ~m  304 (324)
                      +.
T Consensus       169 ~a  170 (176)
T 2r5s_A          169 RQ  170 (176)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.98  E-value=3.8e-07  Score=74.09  Aligned_cols=216  Identities=8%  Similarity=0.029  Sum_probs=170.0

Q ss_pred             HHHHHHHHHHhcCCCC-HHHHHHHHHHHHccC--CHHHHHHHHHHHHhCCCCCChhhHHHHHHHH----Hcc---CcHHH
Q 038109           87 SDLCRTLARLDKGFPR-KSAYDTLIGRLCKLK--KIDEALRVVDIMAEGGFGLSAITFHPILSVL----TRG---KRMEE  156 (324)
Q Consensus        87 ~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~----~~~---~~~~~  156 (324)
                      ++|..+.+.+....|+ ..+|+.--..+...+  +++++++.++.+...... +..+|+.--..+    ...   +++++
T Consensus        50 ~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~~  128 (306)
T 3dra_A           50 ERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPYR  128 (306)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTHH
T ss_pred             HHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHHH
Confidence            5788888888777785 557888888888888  999999999999986443 445555444444    444   78999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChh--hHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC------HHHHH
Q 038109          157 AWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLT--ATSGVLKKMEEEKLGADARTYDALVLGACRAGR------VEEAF  228 (324)
Q Consensus       157 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~--~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~------~~~a~  228 (324)
                      ++.+++.+.+... -+-.+|+.-.....+.|.++  ++++.++++.+..+. |...|+.-...+.+.+.      +++++
T Consensus       129 EL~~~~~~l~~~p-kny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl  206 (306)
T 3dra_A          129 EFDILEAMLSSDP-KNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEEL  206 (306)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHH
Confidence            9999999998754 37888888888888899998  999999999998877 89999888777777776      89999


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH-HHHHHHHhCCCC--CCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          229 VLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQ-AVKFVMVCGGRD--IKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       229 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      +.++.+..... -|...|+.+-..+.+.|+... +..+...+...+  -..++..+..+...|.+.|+.++|.++++.+.
T Consensus       207 ~~~~~aI~~~p-~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~  285 (306)
T 3dra_A          207 NYVKDKIVKCP-QNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLK  285 (306)
T ss_dssp             HHHHHHHHHCS-SCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCC-CCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            99998887543 466777777777888887444 555666655543  13377888899999999999999999999986


Q ss_pred             h
Q 038109          306 K  306 (324)
Q Consensus       306 ~  306 (324)
                      +
T Consensus       286 ~  286 (306)
T 3dra_A          286 S  286 (306)
T ss_dssp             H
T ss_pred             h
Confidence            5

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.97  E-value=1.9e-08  Score=89.75  Aligned_cols=162  Identities=10%  Similarity=-0.092  Sum_probs=119.7

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHH
Q 038109          116 LKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGV  195 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  195 (324)
                      .|++++|++.+++..+... -+...+..+...+...|++++|...+++..+... .+...+..+..+|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRP-QDFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4788999999999887532 3578888999999999999999999999988643 3678899999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc---CCHHHHHHHHHHhCCC
Q 038109          196 LKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRL---GYYAQAVKFVMVCGGR  272 (324)
Q Consensus       196 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---g~~~~a~~~~~~~~~~  272 (324)
                      |++..+.... +...+..+..+|.+.|++++|.+.|++..+... .+...+..+...+...   |+.++|...+++..+.
T Consensus        80 ~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            9999887554 688999999999999999999999999887532 3467788888899999   9999999999998876


Q ss_pred             CCCcCHhHHH
Q 038109          273 DIKLDTELFG  282 (324)
Q Consensus       273 ~~~~~~~~~~  282 (324)
                      +.. +...|.
T Consensus       158 ~p~-~~~~~~  166 (568)
T 2vsy_A          158 GVG-AVEPFA  166 (568)
T ss_dssp             TCC-CSCHHH
T ss_pred             CCc-ccChHH
Confidence            533 333443

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.95  E-value=7e-09  Score=75.45  Aligned_cols=121  Identities=10%  Similarity=0.023  Sum_probs=63.9

Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhh
Q 038109          112 RLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTA  191 (324)
Q Consensus       112 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  191 (324)
                      .+...|++++|++.++...... +-+...+..+...|.+.|++++|...|++..+... -+..+|..+..+|.+.|++++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCchHH
Confidence            3344455566666655554321 11233444555556666666666666666555432 245555666666666666666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH-HHHHH
Q 038109          192 TSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVL-LRRMV  235 (324)
Q Consensus       192 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~-~~~m~  235 (324)
                      |...|++..+..+. +...|..+...|.+.|+.++|.+. +++..
T Consensus        84 A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al  127 (150)
T 4ga2_A           84 AVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAA  127 (150)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            66666665554333 455555566666666665544433 34444

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.94  E-value=5e-08  Score=79.94  Aligned_cols=223  Identities=10%  Similarity=-0.012  Sum_probs=146.9

Q ss_pred             CccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHH
Q 038109           10 KFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDL   89 (324)
Q Consensus        10 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a   89 (324)
                      .|++.+|..+++.-......+             .+...++++.|...|...               ...|...|++++|
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~-------------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A   55 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTS-------------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQA   55 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCC-------------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHH
T ss_pred             cchHHHHHHHHHHHHHHcccc-------------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHH
Confidence            456667777776655543211             011146777777777654               3355667777887


Q ss_pred             HHHHHHHhcCC---CC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHccCcHHHH
Q 038109           90 CRTLARLDKGF---PR----KSAYDTLIGRLCKLKKIDEALRVVDIMAEG----GFGL-SAITFHPILSVLTRGKRMEEA  157 (324)
Q Consensus        90 ~~~~~~~~~~~---p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~~~~~~a  157 (324)
                      ...+.+.....   .+    ..+|+.+...|...|++++|+..|++..+.    |-.. ...++..+...|.. |++++|
T Consensus        56 ~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A  134 (307)
T 2ifu_A           56 KDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKA  134 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHH
Confidence            77777663321   12    237788888888999999999988877642    2111 13567777788888 999999


Q ss_pred             HHHHHHHHhCCCC---C--CHHHHHHHHHHHHhcCChhhHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHH
Q 038109          158 WGLMEVMKEIRVS---P--DLTAYNYLLTAYCFKGNLTATSGVLKKMEEE----KLGAD-ARTYDALVLGACRAGRVEEA  227 (324)
Q Consensus       158 ~~~~~~m~~~~~~---~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~-~~~~~~li~~~~~~g~~~~a  227 (324)
                      ...+++..+....   +  ...+++.+...|.+.|++++|...|++..+.    +..+. ...+..+..++...|++++|
T Consensus       135 ~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A  214 (307)
T 2ifu_A          135 VHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAA  214 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHH
Confidence            9998886653211   1  1467888889999999999999999987753    21111 23566677778888999999


Q ss_pred             HHHHHHHHHCCCCcC------HHHHHHHHHHHHhcCCHHHHHHH
Q 038109          228 FVLLRRMVDDGQSVL------YSTYAHVMGALLRLGYYAQAVKF  265 (324)
Q Consensus       228 ~~~~~~m~~~~~~p~------~~~~~~li~~~~~~g~~~~a~~~  265 (324)
                      ...|++.. .  .|+      ......++.++ ..|+.+.+..+
T Consensus       215 ~~~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          215 QKCVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            99999887 3  232      12344455555 56777766663

>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=98.93  E-value=2.6e-07  Score=75.10  Aligned_cols=161  Identities=16%  Similarity=0.088  Sum_probs=103.0

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCC-CCCCH----HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-CC----HHHHHHH
Q 038109          145 LSVLTRGKRMEEAWGLMEVMKEIR-VSPDL----TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG-AD----ARTYDAL  214 (324)
Q Consensus       145 i~~~~~~~~~~~a~~~~~~m~~~~-~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~l  214 (324)
                      +..+...|++++|..++++..+.. ..|+.    ..+..+...+...+++++|...|++..+.... ++    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            556667777777777777766532 12221    13334555666667778888888777763221 12    2357777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC-----CCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHhCCC----CCCc-CHhHHHH
Q 038109          215 VLGACRAGRVEEAFVLLRRMVDD-----GQSVL-YSTYAHVMGALLRLGYYAQAVKFVMVCGGR----DIKL-DTELFGS  283 (324)
Q Consensus       215 i~~~~~~g~~~~a~~~~~~m~~~-----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~  283 (324)
                      ..+|...|++++|...|++..+.     +..+. ..++..+...|.+.|++++|...++...+.    +..+ -..+|..
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~  241 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            77888888888888888776631     22222 236677777888888888888877665432    1111 2567777


Q ss_pred             HHHHHhCcCC-HHHHHHHHHHHH
Q 038109          284 LGSKLIGLER-FNEANFILKEMN  305 (324)
Q Consensus       284 l~~~~~~~g~-~~~a~~~~~~m~  305 (324)
                      +..+|.+.|+ +++|.+.+++..
T Consensus       242 lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          242 RGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHH
Confidence            8888888884 588888877654

>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=98.93  E-value=4.7e-07  Score=73.54  Aligned_cols=160  Identities=13%  Similarity=0.019  Sum_probs=75.5

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCC-CCCh----hhHHHHHHHHHccCcHHHHHHHHHHHHhCCCC-CC----HHHHHHH
Q 038109          110 IGRLCKLKKIDEALRVVDIMAEGGF-GLSA----ITFHPILSVLTRGKRMEEAWGLMEVMKEIRVS-PD----LTAYNYL  179 (324)
Q Consensus       110 i~~~~~~~~~~~a~~~~~~m~~~g~-~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~l  179 (324)
                      +..+...|++++|.+++++..+... .|+.    ..+..+...+...+++++|...+++..+.... ++    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            4445555555555555555554211 1111    12223444444455555555555555542211 11    2245555


Q ss_pred             HHHHHhcCChhhHHHHHHHHHH----C-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcC-HHHHHH
Q 038109          180 LTAYCFKGNLTATSGVLKKMEE----E-KLGAD-ARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQSVL-YSTYAH  248 (324)
Q Consensus       180 i~~~~~~~~~~~a~~~~~~m~~----~-~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~  248 (324)
                      ..+|...|++++|...|++..+    . +..+. ..++..+...|.+.|++++|.+.+++..+.    +..+. ..+|..
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~  241 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            5556666666666665555542    1 11111 234555555666666666666655554421    11111 345555


Q ss_pred             HHHHHHhcC-CHHHHHHHHHHh
Q 038109          249 VMGALLRLG-YYAQAVKFVMVC  269 (324)
Q Consensus       249 li~~~~~~g-~~~~a~~~~~~~  269 (324)
                      +..++.+.| ++++|...++..
T Consensus       242 lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          242 RGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCcHHHHHHHHHHH
Confidence            555566666 345555555443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.90  E-value=1e-06  Score=71.48  Aligned_cols=164  Identities=12%  Similarity=0.040  Sum_probs=99.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-h----hhHHHHHHHHHccCcHHHHHHHHHHHHhCCC---CCC--HH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLS-A----ITFHPILSVLTRGKRMEEAWGLMEVMKEIRV---SPD--LT  174 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~~~--~~  174 (324)
                      .+...+..+...|++++|.+.+++..+...... .    ..+..+...+...|++++|...+++..+...   .+.  ..
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            455567777888888888888877776432211 1    1233344555666778888877777664321   111  34


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHH---CCCC-C--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc-CH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEE---EKLG-A--DARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQSV-LY  243 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~-~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~  243 (324)
                      +++.+...|...|++++|...|++..+   .... +  ...+++.+...|.+.|++++|.+.+++..+.    +..+ -.
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            677777777777888877777776652   1111 1  1246677777777777777777777765532    1111 14


Q ss_pred             HHHHHHHHHHHhcCCHHHH-HHHHHH
Q 038109          244 STYAHVMGALLRLGYYAQA-VKFVMV  268 (324)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a-~~~~~~  268 (324)
                      .+|..+...|...|++++| ...++.
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~  262 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            5566666677777777777 554544

>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=98.88  E-value=3.8e-07  Score=70.14  Aligned_cols=128  Identities=13%  Similarity=-0.085  Sum_probs=94.1

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF  185 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  185 (324)
                      +..+...+...|++++|++.|++..    .|+..++..+...+.+.|++++|...+++..+.. +.+...+..+..+|..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            4455667777888888888887663    4567777778888888888888888888777654 3356777778888888


Q ss_pred             cCChhhHHHHHHHHHHCCCC--------------C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 038109          186 KGNLTATSGVLKKMEEEKLG--------------A-DARTYDALVLGACRAGRVEEAFVLLRRMVDDG  238 (324)
Q Consensus       186 ~~~~~~a~~~~~~m~~~~~~--------------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  238 (324)
                      .|++++|...|++..+....              | ....+..+..+|.+.|++++|.+.|++..+..
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            88888888888887765332              1 12677778888888888888888888877543

>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=98.87  E-value=3.6e-07  Score=70.25  Aligned_cols=130  Identities=8%  Similarity=0.004  Sum_probs=108.8

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 038109          141 FHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACR  220 (324)
Q Consensus       141 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  220 (324)
                      +..+...+...|++++|...+++..    .|+...+..+..+|...|++++|...|++..+.... +...|..+..+|..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHH
Confidence            4556677888999999999998763    568889999999999999999999999998887544 78899999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCC--------------Cc-CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCC
Q 038109          221 AGRVEEAFVLLRRMVDDGQ--------------SV-LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIK  275 (324)
Q Consensus       221 ~g~~~~a~~~~~~m~~~~~--------------~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (324)
                      .|++++|.+.|++..+...              .| ....+..+..++...|++++|...++...+....
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            9999999999999887421              12 2366777888999999999999999998886543

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.82  E-value=6.7e-07  Score=80.71  Aligned_cols=219  Identities=8%  Similarity=-0.030  Sum_probs=163.2

Q ss_pred             HHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHH-HHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHH
Q 038109           87 SDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEAL-RVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVM  164 (324)
Q Consensus        87 ~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~-~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  164 (324)
                      +.+..+|++.....| ....|-..+.-+...|+.++|. ++|++.... ++.+...|...+...-+.|+++.|..+|+.+
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 ARMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSC  404 (679)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            345566777665556 5668888888888889999997 999999874 4456666777888888999999999999998


Q ss_pred             HhCCC---------CCC------------HHHHHHHHHHHHhcCChhhHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhc-
Q 038109          165 KEIRV---------SPD------------LTAYNYLLTAYCFKGNLTATSGVLKKMEEE-KLGADARTYDALVLGACRA-  221 (324)
Q Consensus       165 ~~~~~---------~~~------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~-  221 (324)
                      .....         .|+            ..+|...+....+.|+.+.|..+|....+. +.. ....|...+..-.+. 
T Consensus       405 l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~-~~~lyi~~A~lE~~~~  483 (679)
T 4e6h_A          405 IDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLV-TPDIYLENAYIEYHIS  483 (679)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGS-CTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHHhC
Confidence            76410         132            346788888888899999999999999876 322 333443333222333 


Q ss_pred             CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc--CHhHHHHHHHHHhCcCCHHHHHH
Q 038109          222 GRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL--DTELFGSLGSKLIGLERFNEANF  299 (324)
Q Consensus       222 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~  299 (324)
                      ++.+.|.++|+...+. .+-+...+...+......|+.+.|..+|+........+  ....|...+..-.+.|+.+.+.+
T Consensus       484 ~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~  562 (679)
T 4e6h_A          484 KDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRT  562 (679)
T ss_dssp             SCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHH
T ss_pred             CCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            5589999999998875 32344555677777788999999999999998875422  35678888888888999999999


Q ss_pred             HHHHHHhCC
Q 038109          300 ILKEMNKRD  308 (324)
Q Consensus       300 ~~~~m~~~~  308 (324)
                      +.+++.+.-
T Consensus       563 v~~R~~~~~  571 (679)
T 4e6h_A          563 LEKRFFEKF  571 (679)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHhC
Confidence            999997654

>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=98.81  E-value=2.7e-07  Score=67.69  Aligned_cols=128  Identities=13%  Similarity=0.018  Sum_probs=73.8

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGAL  253 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  253 (324)
                      ..+..+...+...|++++|...|++..+.... +...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            34455555666666666666666666554333 45666666666666666666666666665432 12345555666666


Q ss_pred             HhcCCHHHHHHHHHHhCCCCCCcCHhHHHH--HHHHHhCcCCHHHHHHHHHHH
Q 038109          254 LRLGYYAQAVKFVMVCGGRDIKLDTELFGS--LGSKLIGLERFNEANFILKEM  304 (324)
Q Consensus       254 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~a~~~~~~m  304 (324)
                      ...|++++|...++...+.... +...+..  ....+.+.|++++|.+.+.+.
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            6666777766666666554321 3333322  233355667777777666654

>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=98.79  E-value=4.4e-07  Score=66.58  Aligned_cols=127  Identities=14%  Similarity=0.012  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .|..+...+...|++++|...|++..+... .+..++..+...+...|++++|...+++..+.. +.+...+..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            455666667777777777777777665422 245566666666666777777777776666543 234556666666666


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHH--HHHHHHhcCCHHHHHHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDA--LVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~--li~~~~~~g~~~~a~~~~~~m  234 (324)
                      ..|++++|...|++..+.... +...+..  ....+...|++++|.+.+...
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            777777777777666655333 3334422  223355566666666666544

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.79  E-value=1.7e-07  Score=71.44  Aligned_cols=154  Identities=10%  Similarity=-0.006  Sum_probs=71.0

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCCh
Q 038109          115 KLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI----RVS-PDLTAYNYLLTAYCFKGNL  189 (324)
Q Consensus       115 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~li~~~~~~~~~  189 (324)
                      ..|++++|.++++.+... ......++..+...+...|++++|...+++..+.    +.. ....++..+...|...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            456666666644333321 1123445555555666666666666666554431    111 1234455555555666666


Q ss_pred             hhHHHHHHHHHHC----CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc-CHHHHHHHHHHHHhcCC
Q 038109          190 TATSGVLKKMEEE----KLGA--DARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQSV-LYSTYAHVMGALLRLGY  258 (324)
Q Consensus       190 ~~a~~~~~~m~~~----~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~  258 (324)
                      ++|...+++..+.    +..|  ....+..+...+...|++++|...+++....    +..+ ...++..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            6666655544332    1011  1233445555555556666665555554321    1100 11223444444555555


Q ss_pred             HHHHHHHHHHh
Q 038109          259 YAQAVKFVMVC  269 (324)
Q Consensus       259 ~~~a~~~~~~~  269 (324)
                      +++|...+++.
T Consensus       163 ~~~A~~~~~~a  173 (203)
T 3gw4_A          163 LLEAQQHWLRA  173 (203)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555544443

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.77  E-value=6.7e-07  Score=80.69  Aligned_cols=248  Identities=8%  Similarity=0.015  Sum_probs=177.4

Q ss_pred             HHHHHHHHHHhcCC-------CHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHH-HHHHHHhcCCC-CHHHH
Q 038109           36 AYYDDLVNAAGHER-------DLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLC-RTLARLDKGFP-RKSAY  106 (324)
Q Consensus        36 ~~~~~ll~~~~~~~-------~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~p-~~~~~  106 (324)
                      ..|...+..--..+       ..+++..+|++.+.. ++..+..|-..+..+...|+.++|. +++++.....| +...|
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lw  381 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLA  381 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHH
Confidence            45666665443332       134566788888775 4667788888888888888888886 99998876667 45567


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCC---------CCC------------hhhHHHHHHHHHccCcHHHHHHHHHHHH
Q 038109          107 DTLIGRLCKLKKIDEALRVVDIMAEGGF---------GLS------------AITFHPILSVLTRGKRMEEAWGLMEVMK  165 (324)
Q Consensus       107 ~~li~~~~~~~~~~~a~~~~~~m~~~g~---------~~~------------~~~~~~li~~~~~~~~~~~a~~~~~~m~  165 (324)
                      -..+...-+.|++++|.++|+++.+...         .|+            ..+|...+....+.|+.+.|..+|.+..
T Consensus       382 l~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~  461 (679)
T 4e6h_A          382 FSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCR  461 (679)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8888888999999999999999886410         132            2367777787788899999999999988


Q ss_pred             hC-CCCCCHHHHHHHHHHHHhc-CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc--
Q 038109          166 EI-RVSPDLTAYNYLLTAYCFK-GNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSV--  241 (324)
Q Consensus       166 ~~-~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p--  241 (324)
                      +. +. +....|......-.+. ++.+.|.++|+...+.- .-+...|...+......|+.+.|..+|++.......+  
T Consensus       462 ~~~~~-~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~-p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~  539 (679)
T 4e6h_A          462 RLKKL-VTPDIYLENAYIEYHISKDTKTACKVLELGLKYF-ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHL  539 (679)
T ss_dssp             HTGGG-SCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTH
T ss_pred             HhcCC-CChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHH
Confidence            76 21 1233343333333344 45899999999888762 2366777788888888999999999999988654321  


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHH
Q 038109          242 LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKL  288 (324)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  288 (324)
                      ....|...+.--.+.|+.+.+.++.+.+.+.-  |+......+++-|
T Consensus       540 ~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~--P~~~~~~~f~~ry  584 (679)
T 4e6h_A          540 LKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF--PEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS--TTCCHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHh
Confidence            34567777777778899999999999887753  3433444444444

>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=98.76  E-value=4.4e-06  Score=68.73  Aligned_cols=170  Identities=9%  Similarity=-0.053  Sum_probs=82.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhh-hHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHcc-C-CHHHHH
Q 038109           48 ERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLS-VLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKL-K-KIDEAL  123 (324)
Q Consensus        48 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~-~-~~~~a~  123 (324)
                      .+..++|+++++.++..+ +-+..+|+.--.++...+ .++++..+++.+....| +..+|+.-...+.+. + ++++++
T Consensus        67 ~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL  145 (349)
T 3q7a_A           67 EEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEI  145 (349)
T ss_dssp             TCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHH
T ss_pred             CCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHH
Confidence            334456666666666542 223344555555555555 36666666666655555 344555444344333 4 556666


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHccCcHH--------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-------
Q 038109          124 RVVDIMAEGGFGLSAITFHPILSVLTRGKRME--------EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGN-------  188 (324)
Q Consensus       124 ~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~--------~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~-------  188 (324)
                      ++++++.+.... +..+|+--...+.+.|.++        ++++.++++.+... -|...|+.....+.+.++       
T Consensus       146 ~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~~~~~  223 (349)
T 3q7a_A          146 EYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAETSSRS  223 (349)
T ss_dssp             HHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCCCHHH
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccccchHH
Confidence            666666654322 4444443333333333333        45555555554432 244445444444444443       


Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 038109          189 LTATSGVLKKMEEEKLGADARTYDALVLGACRA  221 (324)
Q Consensus       189 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  221 (324)
                      ++++++.+++.....+. |...|+-+-..+.+.
T Consensus       224 ~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~  255 (349)
T 3q7a_A          224 LQDELIYILKSIHLIPH-NVSAWNYLRGFLKHF  255 (349)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhc
Confidence            34445555444444333 445554444444333

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

Probab=98.74  E-value=7.2e-07  Score=61.72  Aligned_cols=92  Identities=16%  Similarity=0.165  Sum_probs=39.0

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 038109          142 HPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRA  221 (324)
Q Consensus       142 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  221 (324)
                      ..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...|+++.+.... +..++..+...+...
T Consensus        13 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~   90 (125)
T 1na0_A           13 YNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQ   90 (125)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHh
Confidence            333333444444444444444433321 112334444444444444444444444444433221 344444444444444


Q ss_pred             CCHHHHHHHHHHHH
Q 038109          222 GRVEEAFVLLRRMV  235 (324)
Q Consensus       222 g~~~~a~~~~~~m~  235 (324)
                      |++++|...++++.
T Consensus        91 ~~~~~A~~~~~~~~  104 (125)
T 1na0_A           91 GDYDEAIEYYQKAL  104 (125)
T ss_dssp             TCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHH
Confidence            44444444444444

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

Probab=98.74  E-value=4.7e-07  Score=62.70  Aligned_cols=114  Identities=18%  Similarity=0.176  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 038109          173 LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGA  252 (324)
Q Consensus       173 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  252 (324)
                      ...+..+...+...|++++|.+.|+++.+.... +...+..+...+.+.|++++|...++++.... +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            456777778888888888888888888766433 67777888888888888888888888877643 2355667777777


Q ss_pred             HHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHh
Q 038109          253 LLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLI  289 (324)
Q Consensus       253 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  289 (324)
                      +...|++++|...++.+.+... .+...+..+...+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~  122 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDP-NNAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHH
Confidence            8888888888888877766532 24444544444443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.74  E-value=1.5e-06  Score=70.62  Aligned_cols=167  Identities=16%  Similarity=0.046  Sum_probs=124.7

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCC---CCC--H
Q 038109          139 ITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPD-----LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKL---GAD--A  208 (324)
Q Consensus       139 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~~~--~  208 (324)
                      ..+...+..+...|++++|.+.++...+.....+     ...+..+...+...|++++|...+++..+...   .+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3455567788899999999999998777542211     12344566677888999999999998875322   222  4


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC----CC-cC
Q 038109          209 RTYDALVLGACRAGRVEEAFVLLRRMVDD----GQSV--LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRD----IK-LD  277 (324)
Q Consensus       209 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~-~~  277 (324)
                      .+|+.+...|...|++++|...|++..+.    +..+  ...++..+...|...|++++|...++...+..    .. .-
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            58899999999999999999999988732    1112  22578889999999999999999998765431    11 12


Q ss_pred             HhHHHHHHHHHhCcCCHHHH-HHHHHHHH
Q 038109          278 TELFGSLGSKLIGLERFNEA-NFILKEMN  305 (324)
Q Consensus       278 ~~~~~~l~~~~~~~g~~~~a-~~~~~~m~  305 (324)
                      ..+|..+...|.+.|++++| ...+++..
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            67788899999999999999 77777653

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.72  E-value=6e-07  Score=62.92  Aligned_cols=94  Identities=11%  Similarity=0.024  Sum_probs=44.3

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLR  255 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  255 (324)
                      +......|.+.|++++|.+.|++..+..+. +...|..+..+|.+.|++++|+..|++..+.. +.+...|..+..++..
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHH
Confidence            344444455555555555555554444332 44445555555555555555555555444322 1223344444444555


Q ss_pred             cCCHHHHHHHHHHhCC
Q 038109          256 LGYYAQAVKFVMVCGG  271 (324)
Q Consensus       256 ~g~~~~a~~~~~~~~~  271 (324)
                      .|++++|...|+...+
T Consensus        94 ~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ  109 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            5555555555544444

>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=98.72  E-value=6.1e-08  Score=78.34  Aligned_cols=193  Identities=9%  Similarity=-0.047  Sum_probs=125.0

Q ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Q 038109           34 TSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGR  112 (324)
Q Consensus        34 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~  112 (324)
                      +...+..+...+.+.|++++|...|++..+.. +.+...+..+..++.+.|++++|...+++..+..| +...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            45567778888889999999999999988752 44667888888999999999999999999887777 46688888999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhH
Q 038109          113 LCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTAT  192 (324)
Q Consensus       113 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  192 (324)
                      |...|++++|+..|++..+.... +...+...+....+   ..++. -+..........+......+...  ..|++++|
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~~i~~~l~~l--~~~~~~~A  154 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALR---IAKKK-RWNSIEERRIHQESELHSYLTRL--IAAERERE  154 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHH---HHHHH-HHHHHHHTCCCCCCHHHHHHHHH--HHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHH---HHHHH-HHHHHHHHHHhhhHHHHHHHHHH--HHHHHHHH
Confidence            99999999999999887763211 11111112222111   11111 22223333344444443333222  36788888


Q ss_pred             HHHHHHHHHCCCCCC-HHHHHHHHHHHHhc-CCHHHHHHHHHHHHH
Q 038109          193 SGVLKKMEEEKLGAD-ARTYDALVLGACRA-GRVEEAFVLLRRMVD  236 (324)
Q Consensus       193 ~~~~~~m~~~~~~~~-~~~~~~li~~~~~~-g~~~~a~~~~~~m~~  236 (324)
                      .+.++...+.  .|+ ......+-..+.+. +.+++|.++|....+
T Consensus       155 ~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          155 LEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            8888776655  344 33334444444444 667788888887654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.72  E-value=2.4e-07  Score=70.52  Aligned_cols=155  Identities=16%  Similarity=-0.015  Sum_probs=95.7

Q ss_pred             hhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHh----CCCC-CChhhHHHHHHHHHccCcHH
Q 038109           82 SLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAE----GGFG-LSAITFHPILSVLTRGKRME  155 (324)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~-~~~~~~~~li~~~~~~~~~~  155 (324)
                      ..|++++|.+.++.+....+ ...++..+...+...|++++|...+++..+    .+.. ....++..+...+...|+++
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            45566666664433332221 233666777777777777777777776654    1111 12455666677777788888


Q ss_pred             HHHHHHHHHHhC----CCCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHhcCCH
Q 038109          156 EAWGLMEVMKEI----RVSP--DLTAYNYLLTAYCFKGNLTATSGVLKKMEEE----KLG-ADARTYDALVLGACRAGRV  224 (324)
Q Consensus       156 ~a~~~~~~m~~~----~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~li~~~~~~g~~  224 (324)
                      +|...+++..+.    +-.|  ....+..+...+...|++++|...+++..+.    +.. .-..++..+...+...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            888777765543    2111  2345677778888888888888888776532    111 0123457777888888999


Q ss_pred             HHHHHHHHHHHH
Q 038109          225 EEAFVLLRRMVD  236 (324)
Q Consensus       225 ~~a~~~~~~m~~  236 (324)
                      ++|.+.+++..+
T Consensus       164 ~~A~~~~~~al~  175 (203)
T 3gw4_A          164 LEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999888877653

>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=1.5e-05  Score=65.65  Aligned_cols=218  Identities=11%  Similarity=0.070  Sum_probs=159.7

Q ss_pred             HHHHHHHHHHHhcCCCC-HHHHHHHHHHHHccC-CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc-C-cHHHHHHHH
Q 038109           86 LSDLCRTLARLDKGFPR-KSAYDTLIGRLCKLK-KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRG-K-RMEEAWGLM  161 (324)
Q Consensus        86 ~~~a~~~~~~~~~~~p~-~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-~-~~~~a~~~~  161 (324)
                      .++|.++++.+....|+ ..+|+.--..+...| +++++++.++.+.....+ +..+|+.--..+.+. + ++++++.++
T Consensus        70 se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~~  148 (349)
T 3q7a_A           70 SERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEYI  148 (349)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHHH
Confidence            35788888888777774 557887777777777 599999999999987554 667777766666665 6 889999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChh--------hHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-------HHH
Q 038109          162 EVMKEIRVSPDLTAYNYLLTAYCFKGNLT--------ATSGVLKKMEEEKLGADARTYDALVLGACRAGR-------VEE  226 (324)
Q Consensus       162 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~--------~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~-------~~~  226 (324)
                      +.+.+... -|-.+|+.......+.|.++        ++++.++++.+..+. |...|+.....+.+.++       +++
T Consensus       149 ~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~e  226 (349)
T 3q7a_A          149 HGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSRSLQD  226 (349)
T ss_dssp             HHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHHHHHH
T ss_pred             HHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchHHHHH
Confidence            99998754 37778877777766666676        899999999998776 99999998888888876       688


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH--------------------HHHHHHHHHhCCCC-----CCcCHhHH
Q 038109          227 AFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYY--------------------AQAVKFVMVCGGRD-----IKLDTELF  281 (324)
Q Consensus       227 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~~~~~~-----~~~~~~~~  281 (324)
                      +++.+++..... +-|...|+-+-..+.+.|+.                    .........+...+     -.+.+...
T Consensus       227 ELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al  305 (349)
T 3q7a_A          227 ELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLAL  305 (349)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHH
Confidence            899988887643 23556666555555555543                    23333333333322     13577888


Q ss_pred             HHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          282 GSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       282 ~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      ..+++.|...|+.++|.++++.+.++
T Consensus       306 ~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          306 EYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            88999999999999999999998543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.71  E-value=4.5e-07  Score=63.73  Aligned_cols=97  Identities=11%  Similarity=0.030  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 038109          173 LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGA  252 (324)
Q Consensus       173 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  252 (324)
                      ...+..+...+...|++++|...|++..+.... +...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            344444445555555555555555554443222 34445555555555555555555555544332 1233444444445


Q ss_pred             HHhcCCHHHHHHHHHHhCC
Q 038109          253 LLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       253 ~~~~g~~~~a~~~~~~~~~  271 (324)
                      +...|++++|...++...+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            5555555555555544443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.71  E-value=4.4e-07  Score=72.26  Aligned_cols=128  Identities=9%  Similarity=-0.073  Sum_probs=65.6

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC--HHHHHHHHHHHHh
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVL--YSTYAHVMGALLR  255 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~  255 (324)
                      .+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  ...+..+-.++.+
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~  183 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAAN  183 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHH
Confidence            34455556666666666666555443  222244444445566666666666665332211 110  1234445555666


Q ss_pred             cCCHHHHHHHHHHhCCCCCCcC--HhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          256 LGYYAQAVKFVMVCGGRDIKLD--TELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       256 ~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      .|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...+
T Consensus       184 LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          184 LALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             TTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            6666666666666543222132  2233445555556666666666666665443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.70  E-value=8.3e-07  Score=62.20  Aligned_cols=96  Identities=9%  Similarity=-0.006  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .+......|.+.|++++|++.|++..+... .+..+|..+..++.+.|++++|...+++..+... .+...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDP-ENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS-KFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh-hhhHHHHHHHHHHH
Confidence            444555555555555555555555554321 2444555555555555555555555555544321 23445555555555


Q ss_pred             hcCChhhHHHHHHHHHHC
Q 038109          185 FKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~  202 (324)
                      ..|++++|.+.|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            555555555555555544

>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=98.69  E-value=1.1e-07  Score=76.80  Aligned_cols=194  Identities=9%  Similarity=-0.038  Sum_probs=101.6

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 038109          103 KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTA  182 (324)
Q Consensus       103 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  182 (324)
                      ...+..+...+.+.|++++|+..|++..+... -+...|..+...+.+.|++++|...+++..+.. +.+...+..+..+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            34556666677777777777777777666422 255666666777777777777777777766653 2345666677777


Q ss_pred             HHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 038109          183 YCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQA  262 (324)
Q Consensus       183 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  262 (324)
                      |...|++++|...|++..+.+.. +...+...+....+.   .++.. +..........+...... +..+ ..|+.++|
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~-l~~l-~~~~~~~A  154 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSY-LTRL-IAAERERE  154 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHH-HHHH-HHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHH-HHHH-HHHHHHHH
Confidence            77777777777777766543211 000111111111111   11111 111222223333333222 2222 25677777


Q ss_pred             HHHHHHhCCCCCCcCHhHHHHHHHHHhCc-CCHHHHHHHHHHHHh
Q 038109          263 VKFVMVCGGRDIKLDTELFGSLGSKLIGL-ERFNEANFILKEMNK  306 (324)
Q Consensus       263 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~  306 (324)
                      .+.++...+... .+......+...+.+. +.+++|.++|.+..+
T Consensus       155 ~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          155 LEECQRNHEGHE-DDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HTTTSGGGTTTS-CHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHhhhcccc-chhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            777666655431 1233333333334333 556777777776643

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.68  E-value=5.7e-07  Score=62.84  Aligned_cols=115  Identities=15%  Similarity=-0.005  Sum_probs=51.2

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALL  254 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  254 (324)
                      .+..+...+...|++++|...|++....... +...+..+...+...|++++|.+.+++..... +.+...+..+...+.
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHH
Confidence            3444444444455555555555544443222 34444444455555555555555555444321 112334444444455


Q ss_pred             hcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcC
Q 038109          255 RLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLE  292 (324)
Q Consensus       255 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  292 (324)
                      ..|++++|...++...+... .+...+..+...+.+.|
T Consensus        92 ~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELDP-DNETYKSNLKIAELKLR  128 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHT
T ss_pred             HhCCHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHh
Confidence            55555555555544444321 13334444444444433

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.67  E-value=8.6e-07  Score=61.90  Aligned_cols=115  Identities=14%  Similarity=0.008  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+..++.
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHH
Confidence            44455555555555555555555555432 1234444445555555555555555555544432 123444444555555


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAG  222 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  222 (324)
                      ..|++++|...|++..+.... +...+..+..++.+.|
T Consensus        92 ~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLR  128 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHT
T ss_pred             HhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHh
Confidence            555555555555554443222 3444444444444433

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.66  E-value=9e-07  Score=62.13  Aligned_cols=96  Identities=10%  Similarity=-0.028  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .|..+...+...|++++|.+.|++..+... .+...+..+...+...|++++|...+++..+.. +.+...+..+..++.
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~   95 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAALE   95 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHHH
Confidence            555555556666666666666665554321 234455555555555555555555555554432 123444555555555


Q ss_pred             hcCChhhHHHHHHHHHHC
Q 038109          185 FKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~  202 (324)
                      ..|++++|...|++..+.
T Consensus        96 ~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           96 AMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHh
Confidence            555555555555555443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.65  E-value=8.6e-08  Score=69.55  Aligned_cols=96  Identities=9%  Similarity=-0.013  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .+..+...+.+.|++++|+..|++..+... -+...|..+..++...|++++|...|++..+... .+...|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P-~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK-NDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-SCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHH
Confidence            445555555555555555555555554322 1444555555555555555555555555555432 13445555555555


Q ss_pred             hcCChhhHHHHHHHHHHC
Q 038109          185 FKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~  202 (324)
                      ..|++++|...|++..+.
T Consensus       116 ~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            555555555555555543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.64  E-value=2.7e-06  Score=67.69  Aligned_cols=187  Identities=9%  Similarity=-0.090  Sum_probs=104.4

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCCchhhHhh-------hhchhhhhhHHHHHHHHHHHhcCCCC-----------------
Q 038109           47 HERDLETVRYLLNKRARDCCFNTANTFNFI-------TNTENSLSVLSDLCRTLARLDKGFPR-----------------  102 (324)
Q Consensus        47 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~p~-----------------  102 (324)
                      ..++...|.+.|.+..+.. +-....|..+       ...+.+.++..++...+..-.+..|+                 
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            4677777777777777642 2233556555       34444444444443333332221111                 


Q ss_pred             -----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC--HHH
Q 038109          103 -----KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPD--LTA  175 (324)
Q Consensus       103 -----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~  175 (324)
                           ...+-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...+.. .|.  ...
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a  173 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAA  173 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHH
Confidence                 1233445666677777777777776666543  332244444456667777777777776443321 111  234


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEEKLGAD--ARTYDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      +..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       174 ~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          174 GVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            55666677777777777777776664322133  234555566666777777777777777654

>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=98.63  E-value=1.4e-06  Score=72.31  Aligned_cols=131  Identities=11%  Similarity=-0.074  Sum_probs=90.5

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--------------hhhHHHHHHHHHccCcHHHHHHHHHHHHhCC
Q 038109          103 KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLS--------------AITFHPILSVLTRGKRMEEAWGLMEVMKEIR  168 (324)
Q Consensus       103 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  168 (324)
                      ...|..+...|.+.|++++|+..|++..+......              ...|..+..++.+.|++++|...+++..+..
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            44788889999999999999999999887532211              3566667777777777777777777766653


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 038109          169 VSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEA-FVLLRRMV  235 (324)
Q Consensus       169 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a-~~~~~~m~  235 (324)
                       +.+...+..+..+|...|++++|...|++..+..+. +...+..+..++.+.|+.++| ...|+.|.
T Consensus       227 -p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          227 -SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             235666677777777777777777777777665443 566666677777777777666 33444443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.63  E-value=1.5e-06  Score=63.02  Aligned_cols=95  Identities=11%  Similarity=-0.056  Sum_probs=45.4

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 038109          140 TFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGAC  219 (324)
Q Consensus       140 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  219 (324)
                      .+..+...+.+.|++++|...|++..+... .+...|..+..+|...|++++|...|++..+..+. +...|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHH
Confidence            344444444455555555555555444321 23444444555555555555555555554444333 3444444555555


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 038109          220 RAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       220 ~~g~~~~a~~~~~~m~~  236 (324)
                      +.|++++|...|++..+
T Consensus       116 ~lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQ  132 (151)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555554443

>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=98.62  E-value=3.2e-07  Score=68.41  Aligned_cols=121  Identities=10%  Similarity=0.041  Sum_probs=59.8

Q ss_pred             hhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH-HHccCcH--H
Q 038109           80 ENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSV-LTRGKRM--E  155 (324)
Q Consensus        80 ~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~~~~--~  155 (324)
                      +...|++++|...++...+..| +...|..+...|...|++++|...|++..+... .+...+..+... +...|++  +
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcchH
Confidence            4555666666666665544444 344566666666666666666666666554321 133444444444 4445554  5


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          156 EAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       156 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      +|...++...+... .+...+..+..+|...|++++|...|++..+.
T Consensus        99 ~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            55555555544321 13444444555555555555555555555443

>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=98.61  E-value=1.1e-06  Score=72.98  Aligned_cols=130  Identities=12%  Similarity=-0.097  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 038109          173 LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGAD--------------ARTYDALVLGACRAGRVEEAFVLLRRMVDDG  238 (324)
Q Consensus       173 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  238 (324)
                      ...+..+...|.+.|++++|...|++..+......              ...|..+..+|.+.|++++|+..+++..+..
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            34555556666666666666666666555433311              4566666666777777777777776666542


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHH-HHHHHHH
Q 038109          239 QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEA-NFILKEM  304 (324)
Q Consensus       239 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a-~~~~~~m  304 (324)
                       +.+...+..+..++...|++++|...|+...+... -+...+..+..++.+.|+.++| ..++++|
T Consensus       227 -p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          227 -SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             12455666666667777777777777766665432 2455666666666666766666 3344444

>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=98.58  E-value=2.4e-07  Score=67.03  Aligned_cols=99  Identities=15%  Similarity=0.002  Sum_probs=74.1

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 038109          172 DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMG  251 (324)
Q Consensus       172 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  251 (324)
                      +...+..+...+...|++++|...|+......+. +...|..+..+|...|++++|...|++...... .+...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI-XEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHH
Confidence            4456666777788888888888888887776554 677788888888888888888888888776432 24566666777


Q ss_pred             HHHhcCCHHHHHHHHHHhCCC
Q 038109          252 ALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       252 ~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      ++...|++++|...++...+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            888888888888888777654

>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=98.57  E-value=5.4e-07  Score=67.14  Aligned_cols=123  Identities=10%  Similarity=0.086  Sum_probs=92.3

Q ss_pred             HHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCH--
Q 038109          148 LTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLG-ACRAGRV--  224 (324)
Q Consensus       148 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~g~~--  224 (324)
                      +...|++++|...++...+.. +.+...+..+..+|...|++++|...|++..+.... +...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcch
Confidence            356688888888888877654 346778888888899999999999999988876544 67777778887 7788888  


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC
Q 038109          225 EEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRD  273 (324)
Q Consensus       225 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (324)
                      ++|...+++..+... -+...+..+...+...|++++|...++...+..
T Consensus        98 ~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           98 AQTRAMIDKALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            999999988876532 345667778888889999999999888877653

>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=98.56  E-value=5.9e-06  Score=56.36  Aligned_cols=97  Identities=12%  Similarity=-0.010  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGAL  253 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  253 (324)
                      ..+..+...+...|++++|...|++....... +...+..+...+...|++++|...+++..+... .+...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHHHH
Confidence            33444455555555555555555555444322 444555555555555555555555555544321 2334444455555


Q ss_pred             HhcCCHHHHHHHHHHhCCC
Q 038109          254 LRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       254 ~~~g~~~~a~~~~~~~~~~  272 (324)
                      ...|++++|...++...+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            5555555555555555443

>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=98.56  E-value=1.4e-07  Score=71.82  Aligned_cols=118  Identities=13%  Similarity=0.017  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CC--------------hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCC
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFG-LS--------------AITFHPILSVLTRGKRMEEAWGLMEVMKEIRV  169 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  169 (324)
                      .+..+...+...|++++|+..|++..+.... |+              ...+..+..++.+.|++++|...++...+.. 
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-  118 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-  118 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence            5666777778888888888888887764211 11              1334444444444444444444444444332 


Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 038109          170 SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRV  224 (324)
Q Consensus       170 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  224 (324)
                      +.+...+..+..+|...|++++|...|++..+.... +...+..+..++...++.
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~  172 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVNKLKEA  172 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHHHH
Confidence            123344444444444444444444444444433222 333344444333333333

>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=98.55  E-value=1.1e-06  Score=63.46  Aligned_cols=95  Identities=11%  Similarity=-0.054  Sum_probs=51.7

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 038109          140 TFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGAC  219 (324)
Q Consensus       140 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  219 (324)
                      .+..+...+.+.|++++|...|+...... +.+...|..+..+|...|++++|...|++.....+. +...+..+..+|.
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~  100 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHH
Confidence            34444445555555555555555555432 124455555555556666666666666655554333 4455555556666


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 038109          220 RAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       220 ~~g~~~~a~~~~~~m~~  236 (324)
                      ..|++++|.+.|++..+
T Consensus       101 ~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            66666666666655543

>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=98.50  E-value=7.8e-06  Score=55.72  Aligned_cols=89  Identities=15%  Similarity=0.022  Sum_probs=36.4

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 038109          145 LSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRV  224 (324)
Q Consensus       145 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  224 (324)
                      ...+...|++++|...++...... +.+...+..+..++...|++++|...+++..+.... +...+..+..++...|++
T Consensus        11 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~   88 (118)
T 1elw_A           11 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLNRF   88 (118)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhH
Confidence            333334444444444444433321 113333444444444444444444444444433222 334444444444444444


Q ss_pred             HHHHHHHHHHH
Q 038109          225 EEAFVLLRRMV  235 (324)
Q Consensus       225 ~~a~~~~~~m~  235 (324)
                      ++|.+.+++..
T Consensus        89 ~~A~~~~~~~~   99 (118)
T 1elw_A           89 EEAKRTYEEGL   99 (118)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            44444444443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.50  E-value=0.00047  Score=60.14  Aligned_cols=121  Identities=9%  Similarity=-0.002  Sum_probs=71.9

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGAC-RAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLR  255 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~-~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  255 (324)
                      ...+....+.++.+.|..+|+.. .. ...+...|......-. ..++.+.|..+|+...+.- .-+...+...++-..+
T Consensus       290 ~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~  366 (493)
T 2uy1_A          290 INHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLR  366 (493)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
Confidence            33334444556677788888777 22 1224444432222211 2235788888888776542 1123334455666667


Q ss_pred             cCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          256 LGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       256 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      .|+.+.|..+|+.+.+     ....|...+..-.+.|+.+.+.+++++..
T Consensus       367 ~~~~~~aR~l~er~~k-----~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          367 IGDEENARALFKRLEK-----TSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HTCHHHHHHHHHHSCC-----BHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH-----HHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            7888888888877632     45667777766666788888888777765

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.49  E-value=4.1e-05  Score=65.49  Aligned_cols=194  Identities=9%  Similarity=0.027  Sum_probs=136.0

Q ss_pred             HHHhcCCCHHHHHHHHHHHHhcCCCCC-c---------------hhhHhhhhchhhhhhHHHHHHHHHHHhc---CCCCH
Q 038109           43 NAAGHERDLETVRYLLNKRARDCCFNT-A---------------NTFNFITNTENSLSVLSDLCRTLARLDK---GFPRK  103 (324)
Q Consensus        43 ~~~~~~~~~~~a~~~~~~m~~~~~~~~-~---------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~p~~  103 (324)
                      ..+.+.|++++|.+.|....+..-... .               ..+..+...|...|++++|.+.+..+.+   ..++.
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            446678999999999998876422111 1               1256778889999999999999887743   22322


Q ss_pred             H----HHHHHHHHHHccCCHHHHHHHHHHHHh----CCCCCC-hhhHHHHHHHHHccCcHHHHHHHHHHHHhC--CC--C
Q 038109          104 S----AYDTLIGRLCKLKKIDEALRVVDIMAE----GGFGLS-AITFHPILSVLTRGKRMEEAWGLMEVMKEI--RV--S  170 (324)
Q Consensus       104 ~----~~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~--~  170 (324)
                      .    +.+.+-..+...|+.+.|..++++...    .+..+. ..++..+...+...|++++|..++++....  +.  .
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            1    344445555667899999999887754    232222 456778888999999999999999886542  11  1


Q ss_pred             C-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHC---CCCC-C--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          171 P-DLTAYNYLLTAYCFKGNLTATSGVLKKMEEE---KLGA-D--ARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       171 ~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~-~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      + ...++..++..|...|++++|...+++....   ...| .  ...+..+...+...|++++|...|.+...
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            1 2567888899999999999999999876542   1112 1  34566677778888999999888877653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.48  E-value=1.6e-05  Score=68.15  Aligned_cols=192  Identities=8%  Similarity=-0.130  Sum_probs=94.9

Q ss_pred             hchhhhhhHHHHHHHHHHHhcCCCCH------------------HHHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCCCh
Q 038109           78 NTENSLSVLSDLCRTLARLDKGFPRK------------------SAYDTLIGRLCKLKKIDEALRVVDIMAEGG-FGLSA  138 (324)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~~~~~~p~~------------------~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~~~~  138 (324)
                      ..+.+.|++++|.+.+..+.+..|+.                  .++..+...|...|++++|.+.+.++...- ..++.
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            44556667777777776664433211                  135556666666666666666666654311 11111


Q ss_pred             ----hhHHHHHHHHHccCcHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHC--CC--C
Q 038109          139 ----ITFHPILSVLTRGKRMEEAWGLMEVMKE----IRVSP-DLTAYNYLLTAYCFKGNLTATSGVLKKMEEE--KL--G  205 (324)
Q Consensus       139 ----~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~--~  205 (324)
                          .+.+.+-..+...|+.+++..+++....    .+..+ -..++..+...|...|++++|..++++....  +.  .
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                1122222233344566666666655432    12111 1345555666666666666666666655431  11  1


Q ss_pred             C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          206 A-DARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQSVL--YSTYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       206 ~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      + ....+..++..|...|++++|..++++....    +..|.  ...+..+...+...|+++.|...+...
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            1 1345555666666666666666666554422    11111  223344444455556666666555444

>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=98.47  E-value=5e-06  Score=57.96  Aligned_cols=92  Identities=12%  Similarity=-0.053  Sum_probs=43.2

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 038109          142 HPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRA  221 (324)
Q Consensus       142 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  221 (324)
                      ......+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|...|++..+..+. +...|..+..++...
T Consensus         8 ~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~   85 (126)
T 3upv_A            8 RLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQIAV   85 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHH
Confidence            333344444444444444444444432 123444444555555555555555555554444332 344444555555555


Q ss_pred             CCHHHHHHHHHHHH
Q 038109          222 GRVEEAFVLLRRMV  235 (324)
Q Consensus       222 g~~~~a~~~~~~m~  235 (324)
                      |++++|.+.|++..
T Consensus        86 ~~~~~A~~~~~~al   99 (126)
T 3upv_A           86 KEYASALETLDAAR   99 (126)
T ss_dssp             TCHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHH
Confidence            55555555555444

>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=98.46  E-value=4.1e-06  Score=58.68  Aligned_cols=96  Identities=13%  Similarity=0.028  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCcC----HHHHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDG--QSVL----YSTYAH  248 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~p~----~~~~~~  248 (324)
                      .+..+...+.+.|++++|...|++..+..+. +...|+.+..+|.+.|++++|++.+++..+..  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            3445555666666666666666665554433 45556666666666666666666666554321  0011    123444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhCC
Q 038109          249 VMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      +-.++...|++++|...++....
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            44455555555555555554443

>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=98.46  E-value=0.0002  Score=58.61  Aligned_cols=187  Identities=10%  Similarity=0.001  Sum_probs=117.1

Q ss_pred             cCCCHH-HHHHHHHHHHhcCCCCCchhhHhhhhchhhhhh----------HHHHHHHHHHHhcCCC-CHHHHHHHHHHHH
Q 038109           47 HERDLE-TVRYLLNKRARDCCFNTANTFNFITNTENSLSV----------LSDLCRTLARLDKGFP-RKSAYDTLIGRLC  114 (324)
Q Consensus        47 ~~~~~~-~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~p-~~~~~~~li~~~~  114 (324)
                      +.|.++ +|+++++.++..+ +-+...|+.--.++...+.          ++++..+++.+....| +..+|+.-.-.+.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~  119 (331)
T 3dss_A           41 QAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS  119 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHh
Confidence            455554 7888888887743 2333455554444444433          5677777777766666 5557766555555


Q ss_pred             ccC--CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCc-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----
Q 038109          115 KLK--KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKR-MEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFK-----  186 (324)
Q Consensus       115 ~~~--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----  186 (324)
                      +.+  ++++++.+++++.+.... |..+|+--...+...|. ++++++.++.+.+..+. |...|+.....+.+.     
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC-
T ss_pred             ccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhccc
Confidence            556  478888888888876443 66666666566666676 57788888887776543 666666665555544     


Q ss_pred             ---------CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHHC
Q 038109          187 ---------GNLTATSGVLKKMEEEKLGADARTYDALVLGACRA-----------GRVEEAFVLLRRMVDD  237 (324)
Q Consensus       187 ---------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~  237 (324)
                               +.++++++.++......+. |...|+-+-..+.+.           +.++++++.++++.+.
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~  267 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL  267 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh
Confidence                     3466777777777766555 677776554444443           3355666666666643

>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=98.46  E-value=4.4e-06  Score=58.26  Aligned_cols=98  Identities=14%  Similarity=0.136  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 038109          173 LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGA  252 (324)
Q Consensus       173 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  252 (324)
                      ...+..+...+.+.|++++|...|++..+.... +...|..+..+|.+.|++++|...+++..+... .+...+..+..+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHH
Confidence            345566667777777777777777777766443 667777777777777777777777777765431 235566666677


Q ss_pred             HHhcCCHHHHHHHHHHhCCC
Q 038109          253 LLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       253 ~~~~g~~~~a~~~~~~~~~~  272 (324)
                      +...|++++|...++...+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            77777777777777666554

>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=98.45  E-value=3.5e-06  Score=63.98  Aligned_cols=131  Identities=8%  Similarity=-0.015  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC---------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGAD---------------ARTYDALVLGACRAGRVEEAFVLLRRMVDDGQ  239 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  239 (324)
                      .+..+...+...|++++|...|++..+....-.               ...|..+..+|.+.|++++|...+++..+.. 
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-  118 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-  118 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence            344445555555566666655555554322100               2556666666677777777777777666542 


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHH-HHHHHHHhC
Q 038109          240 SVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEAN-FILKEMNKR  307 (324)
Q Consensus       240 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~~  307 (324)
                      +.+...+..+..++...|++++|...++...+... -+...+..+..++...++.+++. ..+..|...
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP-NNLDIRNSYELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHC------------
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            23455566666667777777777777766655432 24555666666666666665555 444444433

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.44  E-value=3e-06  Score=57.29  Aligned_cols=57  Identities=7%  Similarity=-0.084  Sum_probs=21.9

Q ss_pred             HHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 038109          143 PILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKME  200 (324)
Q Consensus       143 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  200 (324)
                      .+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...|++..
T Consensus        11 ~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~   67 (112)
T 2kck_A           11 LEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVI   67 (112)
T ss_dssp             GHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            33333444444444444444433322 1123333333334444444444444444333

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.43  E-value=4.2e-06  Score=56.57  Aligned_cols=94  Identities=10%  Similarity=-0.067  Sum_probs=40.6

Q ss_pred             hhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC--ChhhHHHHHHHH
Q 038109           72 TFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGL--SAITFHPILSVL  148 (324)
Q Consensus        72 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~--~~~~~~~li~~~  148 (324)
                      .+..+...+...|++++|...+++..+..| +..+|..+...+...|++++|.+.+++..+.. +.  +...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~   86 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADAL   86 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHH
Confidence            333444444444444444444444433332 23344444444444444444444444444431 11  233444444444


Q ss_pred             Hcc-CcHHHHHHHHHHHHh
Q 038109          149 TRG-KRMEEAWGLMEVMKE  166 (324)
Q Consensus       149 ~~~-~~~~~a~~~~~~m~~  166 (324)
                      .+. |++++|.+.++....
T Consensus        87 ~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHGG
T ss_pred             HHHhCCHHHHHHHHHHHhh
Confidence            444 444444444444443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.43  E-value=1e-05  Score=59.32  Aligned_cols=96  Identities=10%  Similarity=0.015  Sum_probs=52.8

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 038109          139 ITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGA  218 (324)
Q Consensus       139 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  218 (324)
                      ..+..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|...|++..+.... +...|..+..+|
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~   89 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            344444455555555555555555554432 124455555555666666666666666655554333 455556666666


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 038109          219 CRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       219 ~~~g~~~~a~~~~~~m~~  236 (324)
                      ...|++++|.+.|++..+
T Consensus        90 ~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHH
Confidence            666666666666665554

>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=98.42  E-value=1e-05  Score=57.15  Aligned_cols=96  Identities=14%  Similarity=-0.046  Sum_probs=45.8

Q ss_pred             hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 038109          138 AITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLG  217 (324)
Q Consensus       138 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  217 (324)
                      ...+..+...+...|++++|...|+...+... .+...+..+..++...|++++|...+++..+.... +...+..+..+
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~   86 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHHHH
Confidence            33444444444444555555555544444321 23444444555555555555555555554444322 34445555555


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 038109          218 ACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       218 ~~~~g~~~~a~~~~~~m~  235 (324)
                      +...|++++|...|++..
T Consensus        87 ~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            555555555555555444

>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=98.40  E-value=5.4e-06  Score=57.78  Aligned_cols=95  Identities=13%  Similarity=0.064  Sum_probs=43.3

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CcC----HHHHHHH
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQ--SVL----YSTYAHV  249 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~p~----~~~~~~l  249 (324)
                      +..+...+...|++++|...|++..+.... +...+..+...+...|++++|...+++......  .++    ..++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            344444444555555555555544443222 344444445555555555555555554443210  011    3344444


Q ss_pred             HHHHHhcCCHHHHHHHHHHhCC
Q 038109          250 MGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      ...+...|++++|...++...+
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHH
Confidence            4445555555555555544444

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.40  E-value=4.5e-06  Score=59.66  Aligned_cols=94  Identities=15%  Similarity=-0.055  Sum_probs=46.3

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLR  255 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  255 (324)
                      +..+...+.+.|++++|...|+......+. +...|..+..+|.+.|++++|...|++...... .+...+..+..++..
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMDI-NEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHH
Confidence            333444455555555555555555544332 444555555555555555555555555544321 223344444455555


Q ss_pred             cCCHHHHHHHHHHhCC
Q 038109          256 LGYYAQAVKFVMVCGG  271 (324)
Q Consensus       256 ~g~~~~a~~~~~~~~~  271 (324)
                      .|++++|...++...+
T Consensus        99 ~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           99 LGDLDGAESGFYSARA  114 (142)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555554443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.40  E-value=6.6e-06  Score=58.80  Aligned_cols=90  Identities=8%  Similarity=-0.102  Sum_probs=43.5

Q ss_pred             HHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 038109          144 ILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGR  223 (324)
Q Consensus       144 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  223 (324)
                      +...+.+.|++++|...|+....... .+...|..+..+|...|++++|...|++.....+. +...+..+..+|...|+
T Consensus        24 ~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~  101 (142)
T 2xcb_A           24 LGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAECHLQLGD  101 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHcCC
Confidence            33444444555555555554444321 23444444555555555555555555555444332 34444445555555555


Q ss_pred             HHHHHHHHHHHH
Q 038109          224 VEEAFVLLRRMV  235 (324)
Q Consensus       224 ~~~a~~~~~~m~  235 (324)
                      +++|.+.|+...
T Consensus       102 ~~~A~~~~~~al  113 (142)
T 2xcb_A          102 LDGAESGFYSAR  113 (142)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555444

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.36  E-value=3.3e-05  Score=55.07  Aligned_cols=98  Identities=13%  Similarity=-0.058  Sum_probs=53.7

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHH
Q 038109          102 RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLS----AITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYN  177 (324)
Q Consensus       102 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  177 (324)
                      +...+..+...+...|++++|.+.|++..+..  |+    ...+..+...+...|++++|...++...+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            34455566666666666666666666665532  33    3445555555555556666655555555432 12344555


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      .+..++...|++++|...|++..+.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            5555555555555555555555544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.34  E-value=2.5e-05  Score=55.74  Aligned_cols=93  Identities=13%  Similarity=0.030  Sum_probs=39.2

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 038109          140 TFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPD----LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV  215 (324)
Q Consensus       140 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  215 (324)
                      .+..+...+...|++++|...|++..+..  |+    ...+..+..+|...|++++|...+++..+.... +...+..+.
T Consensus        30 ~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a  106 (148)
T 2dba_A           30 QLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALYRRS  106 (148)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHHHHH
Confidence            33444444444444444444444444322  22    333444444444444444444444444333221 333444444


Q ss_pred             HHHHhcCCHHHHHHHHHHHH
Q 038109          216 LGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~m~  235 (324)
                      .++...|++++|...|++..
T Consensus       107 ~~~~~~~~~~~A~~~~~~al  126 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCV  126 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH
Confidence            44444444444444444443

>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=98.34  E-value=2.4e-05  Score=55.14  Aligned_cols=100  Identities=11%  Similarity=0.006  Sum_probs=76.3

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHH
Q 038109          171 PDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVM  250 (324)
Q Consensus       171 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li  250 (324)
                      .+...+..+...+...|++++|...|+........ +...|..+..++...|++++|...+++..+... .+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-hhHHHHHHHH
Confidence            45677778888888888888888888887776544 677888888888888888888888888776532 3456677777


Q ss_pred             HHHHhcCCHHHHHHHHHHhCCC
Q 038109          251 GALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       251 ~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      .++...|++++|...+....+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            7888888888888888776553

>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=98.34  E-value=6.7e-06  Score=57.25  Aligned_cols=96  Identities=15%  Similarity=0.171  Sum_probs=48.7

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC--CC----HHHHHHH
Q 038109          141 FHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG--AD----ARTYDAL  214 (324)
Q Consensus       141 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~----~~~~~~l  214 (324)
                      +..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+....  ++    ..++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3444444445555555555555544432 123444555555555555555555555554443211  11    4455555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC
Q 038109          215 VLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       215 i~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      ..++...|++++|.+.|++..+.
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHh
Confidence            56666666666666666665543

>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=98.34  E-value=1.2e-05  Score=56.28  Aligned_cols=59  Identities=17%  Similarity=0.033  Sum_probs=28.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHH
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMK  165 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  165 (324)
                      +..+...+.+.|++++|++.|++..+... -+...|..+..+|.+.|++++|...+++..
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~p-~~~~~~~nlg~~~~~~~~~~~A~~~~~~al   69 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELDP-SNITFYNNKAAVYFEEKKFAECVQFCEKAV   69 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHHHhhhHHHHHHHHHHHH
Confidence            44444555555555555555555544321 133444444444555555555555444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.34  E-value=4.8e-06  Score=60.39  Aligned_cols=131  Identities=14%  Similarity=0.036  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc-CHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLG-AD----ARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQSV-LYS  244 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~  244 (324)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|.+.+++....    +..+ ...
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            3444445555555555555555544322100 01    124455555555566666666555554322    1111 123


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhCCC----CC-CcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          245 TYAHVMGALLRLGYYAQAVKFVMVCGGR----DI-KLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      ++..+...+...|++++|...++...+.    +. ......+..+...+...|++++|.+.+++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            4444555566666666666655544321    10 1123445566666677777777777776654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.32  E-value=1.4e-05  Score=58.61  Aligned_cols=100  Identities=7%  Similarity=-0.091  Sum_probs=86.6

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 038109          172 DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMG  251 (324)
Q Consensus       172 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  251 (324)
                      +...+..+...+.+.|++++|...|++..+.... +...|..+..+|.+.|++++|+..|++..+... -+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            4667888889999999999999999999887654 788999999999999999999999999887542 34778888899


Q ss_pred             HHHhcCCHHHHHHHHHHhCCCC
Q 038109          252 ALLRLGYYAQAVKFVMVCGGRD  273 (324)
Q Consensus       252 ~~~~~g~~~~a~~~~~~~~~~~  273 (324)
                      ++...|++++|...++...+..
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC
Confidence            9999999999999998887754

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.31  E-value=0.00023  Score=62.12  Aligned_cols=68  Identities=3%  Similarity=-0.059  Sum_probs=45.5

Q ss_pred             CCCHHHHHHHHHHHhcCCC-HHHHHHHHHHHHhc-CC-CCCchhhHhhhhchh----hhhhHHHHHHHHHHHhcC
Q 038109           32 EPTSAYYDDLVNAAGHERD-LETVRYLLNKRARD-CC-FNTANTFNFITNTEN----SLSVLSDLCRTLARLDKG   99 (324)
Q Consensus        32 ~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~-~~-~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~   99 (324)
                      .|++..|...+....+.++ .+....+|+..... |. +.+...|...+..+.    ..++++.+.++|++....
T Consensus        44 ~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~  118 (493)
T 2uy1_A           44 SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT  118 (493)
T ss_dssp             CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS
T ss_pred             CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC
Confidence            3788888888887777663 45567777777654 32 335567777666543    457888888888888664

>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=98.29  E-value=2e-06  Score=74.93  Aligned_cols=125  Identities=8%  Similarity=-0.114  Sum_probs=96.5

Q ss_pred             hhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 038109           71 NTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLT  149 (324)
Q Consensus        71 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  149 (324)
                      ..+..+...+.+.|++++|.+.+++..+..| +..+|..+..+|.+.|++++|++.+++..+... -+..++..+..++.
T Consensus         7 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~   85 (477)
T 1wao_1            7 EELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNM   85 (477)
T ss_dssp             TTSSSSSSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            4456677788889999999999998877666 467899999999999999999999999988643 36778888899999


Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCChhhHHHHHH
Q 038109          150 RGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTA--YCFKGNLTATSGVLK  197 (324)
Q Consensus       150 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~  197 (324)
                      +.|++++|...+++..+... .+...+..+..+  +.+.|++++|.+.++
T Consensus        86 ~~g~~~eA~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           86 ALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHTCHHHHHHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999999887542 133445455445  788899999999988

>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=98.28  E-value=1.6e-05  Score=69.23  Aligned_cols=85  Identities=15%  Similarity=0.093  Sum_probs=39.5

Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          150 RGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFV  229 (324)
Q Consensus       150 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  229 (324)
                      +.|++++|...+++..+.. +.+..++..+..+|.+.|++++|...+++..+.... +...|..+..+|.+.|++++|.+
T Consensus        18 ~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~g~~~eA~~   95 (477)
T 1wao_1           18 KAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKFRAALR   95 (477)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHH
Confidence            3444444444444444432 113444444444555555555555555544444322 34444444555555555555555


Q ss_pred             HHHHHHH
Q 038109          230 LLRRMVD  236 (324)
Q Consensus       230 ~~~~m~~  236 (324)
                      .|++..+
T Consensus        96 ~~~~al~  102 (477)
T 1wao_1           96 DYETVVK  102 (477)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5554443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.27  E-value=9.9e-06  Score=58.64  Aligned_cols=95  Identities=22%  Similarity=0.110  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCC----CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc-CHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEK----LGA-DARTYDALVLGACRAGRVEEAFVLLRRMVDD----GQSV-LYS  244 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~  244 (324)
                      ++..+...+...|++++|...+++..+..    ..+ ....+..+...+...|++++|.+.+++..+.    +..+ ...
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            34444445555555555555554433210    000 1234445555555666666666655554422    1111 123


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          245 TYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      ++..+...+...|++++|...+++.
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a  155 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKH  155 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHH
Confidence            4555555666666666666666544

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.27  E-value=3.1e-06  Score=58.26  Aligned_cols=85  Identities=14%  Similarity=0.015  Sum_probs=43.9

Q ss_pred             cCcHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 038109          151 GKRMEEAWGLMEVMKEIR--VSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAF  228 (324)
Q Consensus       151 ~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  228 (324)
                      .|++++|...|++..+.+  -+.+...+..+..+|...|++++|...|++..+..+. +...+..+..++.+.|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHH
Confidence            345555555555555542  1123344555555555666666666666655554433 4555555555566666666666


Q ss_pred             HHHHHHHH
Q 038109          229 VLLRRMVD  236 (324)
Q Consensus       229 ~~~~~m~~  236 (324)
                      ..+++...
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66555543

>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=98.25  E-value=0.0011  Score=54.18  Aligned_cols=221  Identities=9%  Similarity=-0.029  Sum_probs=153.4

Q ss_pred             hhhH-HHHHHHHHHHhcCCCC-HHHHHH---HHHHHHccC-------CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 038109           83 LSVL-SDLCRTLARLDKGFPR-KSAYDT---LIGRLCKLK-------KIDEALRVVDIMAEGGFGLSAITFHPILSVLTR  150 (324)
Q Consensus        83 ~~~~-~~a~~~~~~~~~~~p~-~~~~~~---li~~~~~~~-------~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  150 (324)
                      .|.+ ++|..+.+.+....|+ ..+|+.   ++....+..       .+++++.+++.+...... +..+|+.-...+.+
T Consensus        42 ~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~  120 (331)
T 3dss_A           42 AGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSR  120 (331)
T ss_dssp             TTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhc
Confidence            3444 4788999999888885 446664   333333221       268899999999886443 67777776666777


Q ss_pred             cC--cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc------
Q 038109          151 GK--RMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGN-LTATSGVLKKMEEEKLGADARTYDALVLGACRA------  221 (324)
Q Consensus       151 ~~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~------  221 (324)
                      .+  .+++++.+++.+.+... -|-..|+.-.......|. ++++++.++.+.+..+. |...|+.....+.+.      
T Consensus       121 l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~  198 (331)
T 3dss_A          121 LPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDS  198 (331)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC--
T ss_pred             cCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhcccc
Confidence            77  48999999999998764 378888888888888888 58999999999998777 889998877776655      


Q ss_pred             --------CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc-----------CCHHHHHHHHHHhCCCCCCcCH-hHH
Q 038109          222 --------GRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRL-----------GYYAQAVKFVMVCGGRDIKLDT-ELF  281 (324)
Q Consensus       222 --------g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~-~~~  281 (324)
                              +.++++++.++...... +-|...|+-+-..+.+.           +.++++++.++++.+..  ||. ..+
T Consensus       199 ~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~--pd~~w~l  275 (331)
T 3dss_A          199 GPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE--PENKWCL  275 (331)
T ss_dssp             ----CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC--TTCHHHH
T ss_pred             ccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC--cccchHH
Confidence                    45788899888887643 23444554333333333           35778888888888753  442 332


Q ss_pred             HHHH---HHHhCcCCHHHHHHHHHHHHhCCC
Q 038109          282 GSLG---SKLIGLERFNEANFILKEMNKRDL  309 (324)
Q Consensus       282 ~~l~---~~~~~~g~~~~a~~~~~~m~~~~~  309 (324)
                      -.++   ......|..+++...+.++++-+.
T Consensus       276 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp  306 (331)
T 3dss_A          276 LTIILLMRALDPLLYEKETLQYFSTLKAVDP  306 (331)
T ss_dssp             HHHHHHHHHHCTTTTHHHHHHHHHHHHHHCG
T ss_pred             HHHHHHHHhhcccccHHHHHHHHHHHHHhCc
Confidence            2222   222356788889999998875443

>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=98.24  E-value=2.1e-05  Score=68.05  Aligned_cols=122  Identities=9%  Similarity=-0.111  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGAD--------------ARTYDALVLGACRAGRVEEAFVLLRRMVDDGQS  240 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  240 (324)
                      .+..+...|.+.|++++|...|++..+......              ...|..+..+|.+.|++++|+..+++..+... 
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-  348 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS-  348 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-
Confidence            344444555555555555555555444322111              34555555555555555555555555554321 


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHH
Q 038109          241 VLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEAN  298 (324)
Q Consensus       241 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  298 (324)
                      .+...|..+..+|...|++++|...|+...+.... +...+..+..++.+.|+.+++.
T Consensus       349 ~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          349 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            23444555555555555555555555555554321 3444555555555555555443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.24  E-value=1.6e-05  Score=55.08  Aligned_cols=88  Identities=14%  Similarity=0.001  Sum_probs=38.7

Q ss_pred             HHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 038109          146 SVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVE  225 (324)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  225 (324)
                      ..+.+.|++++|...+++..+... .+...+..+..++...|++++|...|++..+..+. +...+..+..++.+.|+++
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~~g~~~  102 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHNAN  102 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHH
Confidence            334444444444444444444321 13344444444444444444444444444443322 3344444444444444444


Q ss_pred             HHHHHHHHHH
Q 038109          226 EAFVLLRRMV  235 (324)
Q Consensus       226 ~a~~~~~~m~  235 (324)
                      +|...+++..
T Consensus       103 ~A~~~~~~al  112 (121)
T 1hxi_A          103 AALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.22  E-value=2.1e-05  Score=54.49  Aligned_cols=95  Identities=8%  Similarity=-0.121  Sum_probs=62.7

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLR  255 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  255 (324)
                      +..+...+.+.|++++|...|++..+..+. +...|..+..++...|++++|+..|++..+... -+...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHH
Confidence            344555666777777777777777765444 666777777777777777777777777665431 234556666667777


Q ss_pred             cCCHHHHHHHHHHhCCC
Q 038109          256 LGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       256 ~g~~~~a~~~~~~~~~~  272 (324)
                      .|++++|...++...+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           98 EHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            77777777777766554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.19  E-value=0.0001  Score=51.24  Aligned_cols=89  Identities=16%  Similarity=0.147  Sum_probs=41.3

Q ss_pred             HHHHccCcHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC---HHHHHHHHHHHH
Q 038109          146 SVLTRGKRMEEAWGLMEVMKEIRVSPDL---TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGAD---ARTYDALVLGAC  219 (324)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~  219 (324)
                      ..+...|++++|...|+...+.... +.   ..+..+..++...|++++|...|++..+..+. +   ...+..+..++.
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~~~   87 (129)
T 2xev_A           10 FDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHH
Confidence            3444445555555555554443211 11   23444444555555555555555555443222 1   334444455555


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 038109          220 RAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       220 ~~g~~~~a~~~~~~m~~  236 (324)
                      +.|++++|...|+...+
T Consensus        88 ~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555443

>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=98.17  E-value=3.5e-05  Score=66.71  Aligned_cols=138  Identities=9%  Similarity=-0.121  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 038109          103 KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTA  182 (324)
Q Consensus       103 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  182 (324)
                      ...|..+...+.+.|++++|+..|++..+..  |+...+          . .+...    +...    .....|..+..+
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~----------~-~~~~~----~~~~----~~~~~~~nla~~  326 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGL----------S-EKESK----ASES----FLLAAFLNLAMC  326 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSC----------C-HHHHH----HHHH----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccC----------C-hHHHH----HHHH----HHHHHHHHHHHH
Confidence            3467888889999999999999999888632  221000          0 00000    0000    012344555555


Q ss_pred             HHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 038109          183 YCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQA  262 (324)
Q Consensus       183 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  262 (324)
                      |.+.|++++|...+++..+.... +...|..+..+|...|++++|...|++..+... -+...+..+..++.+.++.+++
T Consensus       327 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          327 YLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555554333 455555555555555555555555555553311 1233444444555555555544


Q ss_pred             H
Q 038109          263 V  263 (324)
Q Consensus       263 ~  263 (324)
                      .
T Consensus       405 ~  405 (457)
T 1kt0_A          405 D  405 (457)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.16  E-value=0.00015  Score=50.33  Aligned_cols=94  Identities=11%  Similarity=-0.077  Sum_probs=60.7

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCh---hhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC---HHHHHHHHH
Q 038109          108 TLIGRLCKLKKIDEALRVVDIMAEGGFGLSA---ITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPD---LTAYNYLLT  181 (324)
Q Consensus       108 ~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~li~  181 (324)
                      .+...+...|++++|...|++..+.... +.   ..+..+..++.+.|++++|...++...+.... +   ...+..+..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHH
Confidence            3445666677777777777777664221 22   35566666777777777777777776664321 2   455666677


Q ss_pred             HHHhcCChhhHHHHHHHHHHCC
Q 038109          182 AYCFKGNLTATSGVLKKMEEEK  203 (324)
Q Consensus       182 ~~~~~~~~~~a~~~~~~m~~~~  203 (324)
                      ++...|++++|...|+...+..
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC
Confidence            7777777777777777776653

>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=98.11  E-value=4.1e-05  Score=64.23  Aligned_cols=138  Identities=7%  Similarity=-0.052  Sum_probs=80.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .|..+...+.+.|++++|++.|++..+.-  +..          .....       .+...+. -+.+..+|..+..+|.
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~----------~~~~~-------~~~~~~~-~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGS----------RAAAE-------DADGAKL-QPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHH----------HHHSC-------HHHHGGG-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcC----------ccccC-------hHHHHHH-HHHHHHHHHHHHHHHH
Confidence            46777888888899999988888877520  000          00000       0111111 0113455666666677


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVK  264 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  264 (324)
                      +.|++++|...+++..+.... +...|..+..+|...|++++|.+.|++..+... -+...+..+...+...++.+++.+
T Consensus       285 ~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P-~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777766665433 566666667777777777777777776665421 234455555555666666655543

>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=98.09  E-value=3.7e-05  Score=64.53  Aligned_cols=123  Identities=7%  Similarity=-0.096  Sum_probs=96.2

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHH----------------CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEE----------------EKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~----------------~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      ..+..+...+.+.|++++|...|++..+                ... .+...|..+..+|.+.|++++|.+.+++..+.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~-~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  302 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQP-VALSCVLNIGACKLKMSDWQGAVDSCLEALEI  302 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHH-HHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            3466777888889999999998887775                211 14678888999999999999999999998865


Q ss_pred             CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHH
Q 038109          238 GQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANF  299 (324)
Q Consensus       238 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  299 (324)
                      . +-+...+..+..+|...|++++|...++...+... -+...+..+...+.+.++.+++.+
T Consensus       303 ~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P-~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          303 D-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHH
Confidence            3 23567788888899999999999999998877643 266777777777777777777654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.06  E-value=8.1e-06  Score=56.15  Aligned_cols=86  Identities=12%  Similarity=-0.013  Sum_probs=42.6

Q ss_pred             cCCHHHHHHHHHHHHhCCC--CCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHH
Q 038109          116 LKKIDEALRVVDIMAEGGF--GLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATS  193 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  193 (324)
                      .|++++|+..|++..+.+.  +-+...+..+...+...|++++|...+++..+... -+...+..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHHH
Confidence            3455555555555555321  11234455555555555555555555555555432 23445555555555666666666


Q ss_pred             HHHHHHHHC
Q 038109          194 GVLKKMEEE  202 (324)
Q Consensus       194 ~~~~~m~~~  202 (324)
                      ..|++....
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            655555443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.02  E-value=0.00015  Score=52.80  Aligned_cols=64  Identities=13%  Similarity=0.141  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          173 LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       173 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      ...|..+..+|.+.|++++|...++...+..+. +...|..+..+|...|++++|...|++..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            456667777777777777777777777766443 5677777777777777777777777776654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.99  E-value=8.7e-05  Score=54.11  Aligned_cols=99  Identities=8%  Similarity=-0.048  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHC--------CC---------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          173 LTAYNYLLTAYCFKGNLTATSGVLKKMEEE--------KL---------GADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       173 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------~~---------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      ...+......+.+.|++++|...|.+....        ..         +.+...|..+..+|.+.|++++|...+++..
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            456677778888888888888888877654        10         1124567777778888888888888888777


Q ss_pred             HCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          236 DDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       236 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      +.. +.+...|..+..++...|++++|...++.....
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            643 234566777777788888888888888777665

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.97  E-value=4.6e-05  Score=63.13  Aligned_cols=96  Identities=11%  Similarity=-0.043  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHH-H
Q 038109          210 TYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSK-L  288 (324)
Q Consensus       210 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~  288 (324)
                      .|..+..+|.+.|++++|...+++..+.. +.+...|..+..+|...|++++|...|+...+.... +...+..+... .
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~  309 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAE  309 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHH
Confidence            67788888899999999999998887653 235677888888899999999999999988876432 44555555544 2


Q ss_pred             hCcCCHHHHHHHHHHHHhC
Q 038109          289 IGLERFNEANFILKEMNKR  307 (324)
Q Consensus       289 ~~~g~~~~a~~~~~~m~~~  307 (324)
                      ...+..+++..+|.+|...
T Consensus       310 ~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          310 QEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             -------------------
T ss_pred             HHHHHHHHHHHHHHHhhCC
Confidence            3456677788888887643

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.97  E-value=6.6e-05  Score=65.20  Aligned_cols=125  Identities=14%  Similarity=0.060  Sum_probs=92.5

Q ss_pred             HHHhcCChhhHHHHHHHHHHC---CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-Cc-CHHHHH
Q 038109          182 AYCFKGNLTATSGVLKKMEEE---KLGA----DARTYDALVLGACRAGRVEEAFVLLRRMVDD-----GQ-SV-LYSTYA  247 (324)
Q Consensus       182 ~~~~~~~~~~a~~~~~~m~~~---~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~~-~p-~~~~~~  247 (324)
                      .+...|++++|..++++..+.   -..|    ...+++.|..+|...|++++|..++++...-     |. .| ...+++
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            355789999999999876642   1222    2467899999999999999999999886542     21 23 356788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhCC-----CC--CCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          248 HVMGALLRLGYYAQAVKFVMVCGG-----RD--IKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       248 ~li~~~~~~g~~~~a~~~~~~~~~-----~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      .|...|..+|++++|+.++++..+     .|  .+....+.+.+-.++...|.+++|..++.++++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999988866543     22  222344556667788888999999999999875

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.94  E-value=0.00061  Score=60.51  Aligned_cols=173  Identities=12%  Similarity=0.039  Sum_probs=112.5

Q ss_pred             CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCc----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 038109          117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKR----------MEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFK  186 (324)
Q Consensus       117 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  186 (324)
                      ...++|++.++++.+.... +..+|+.--..+.+.|+          ++++...++.+.+...+ +..+|+.-..++.+.
T Consensus        43 ~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            3446677777777764332 34455544444444444          77777778777775533 666777777777777


Q ss_pred             C--ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc-------
Q 038109          187 G--NLTATSGVLKKMEEEKLGADARTYDALVLGACRAG-RVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRL-------  256 (324)
Q Consensus       187 ~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-------  256 (324)
                      +  +++++.+.++++.+.... +...|+.-..++.+.| .++++++.++++.+... -+...|+.....+.+.       
T Consensus       121 ~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p-~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          121 PEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHHHHHHHHhhccccccc
Confidence            7  568888888888877665 7777777777777777 77778877777765432 3455566555555542       


Q ss_pred             -------CCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCH
Q 038109          257 -------GYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERF  294 (324)
Q Consensus       257 -------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  294 (324)
                             +.++++.+.++......+. |...|.-+-..+.+.++.
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~  242 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPH  242 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCc
Confidence                   4567777777777665433 666776666666666653

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.93  E-value=0.0008  Score=59.75  Aligned_cols=174  Identities=11%  Similarity=-0.014  Sum_probs=135.3

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhh----------HHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccC
Q 038109           49 RDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSV----------LSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLK  117 (324)
Q Consensus        49 ~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~  117 (324)
                      ..-++|++.++.+...+ +-+...|+.--.++...++          ++++.+.++.+.+..| +..+|+.-.-.+.+.+
T Consensus        43 ~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           43 ELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCS
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcc
Confidence            34567899999998853 3444677777777777777          8999999999987777 5668888777788888


Q ss_pred             --CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC-cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc--------
Q 038109          118 --KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGK-RMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFK--------  186 (324)
Q Consensus       118 --~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~--------  186 (324)
                        +++++++.++++.+.... +..+|+--...+.+.| ..+++.+.++++.+..+. |...|+.....+.+.        
T Consensus       122 ~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          122 EPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhcccccccc
Confidence              779999999999987554 7777887777777888 889999999998887643 778888777776663        


Q ss_pred             ------CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 038109          187 ------GNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEE  226 (324)
Q Consensus       187 ------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  226 (324)
                            +.++++.+.+++.....+. |...|+-+-..+.+.++.++
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCccc
Confidence                  4578889999888877665 78889888888877776443

>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=97.92  E-value=0.00025  Score=50.27  Aligned_cols=111  Identities=12%  Similarity=0.020  Sum_probs=62.8

Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhhHH
Q 038109          118 KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF----KGNLTATS  193 (324)
Q Consensus       118 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~  193 (324)
                      ++++|++.|++..+.|.+ +..    +-..|...+..++|.+.|++..+.|   +...+..+-..|..    .+++++|.
T Consensus        10 d~~~A~~~~~~aa~~g~~-~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELNEM-FGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTTCT-THH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCCCH-hhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            455666666666665521 222    4444445555566666666665553   44555555555555    55666666


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCC
Q 038109          194 GVLKKMEEEKLGADARTYDALVLGACR----AGRVEEAFVLLRRMVDDGQ  239 (324)
Q Consensus       194 ~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~  239 (324)
                      +.|++..+.|   +...+..|-..|..    .++.++|.+.|++..+.|.
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            6666665552   44555555555655    5666666666666655543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.91  E-value=2.3e-05  Score=65.00  Aligned_cols=129  Identities=14%  Similarity=0.049  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCh------------------hhHHHHHHHHHccCcHHHHHHHHHHHHh
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSA------------------ITFHPILSVLTRGKRMEEAWGLMEVMKE  166 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~------------------~~~~~li~~~~~~~~~~~a~~~~~~m~~  166 (324)
                      .+..+...+.+.|++++|+..|++..+..  |+.                  ..|..+..++.+.|++++|...+++..+
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~  258 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLT  258 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            46666677777777777777777766531  222                  2677788888888999999998888877


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHC
Q 038109          167 IRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLG-ACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       167 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~g~~~~a~~~~~~m~~~  237 (324)
                      .. +.+...|..+..+|...|++++|...|++..+.... +...+..+... ....+..+++...|+.|...
T Consensus       259 ~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          259 EE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------------------
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            54 236778888888899999999999998887765433 44555555544 33456677788888887643

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.91  E-value=0.00022  Score=51.38  Aligned_cols=61  Identities=15%  Similarity=0.085  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHC-------CCCCCHHHH----HHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEE-------KLGADARTY----DALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~~~----~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      .|+.+..++.+.|++++|+..+++..+.       .+. +...|    .....++...|++++|+..|++..+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd-~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD-EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST-HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc-hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            6667777777777777777777766654       332 34566    6777777777777777777777653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.88  E-value=5.3e-05  Score=65.78  Aligned_cols=97  Identities=11%  Similarity=-0.013  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHh-----CCC-CCC-hhhHHHHHHHHHccCcHHHHHHHHHHHHh-----CCC-CC
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAE-----GGF-GLS-AITFHPILSVLTRGKRMEEAWGLMEVMKE-----IRV-SP  171 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~-~~  171 (324)
                      +++.|...|...|++++|+.++++..+     .|. .|+ ..+++.|...|...|++++|+.++++..+     .|. .|
T Consensus       353 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp  432 (490)
T 3n71_A          353 LLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHP  432 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            566666666666776666666666543     111 122 34566666666677777777666665442     231 12


Q ss_pred             -CHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 038109          172 -DLTAYNYLLTAYCFKGNLTATSGVLKKMEE  201 (324)
Q Consensus       172 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  201 (324)
                       ...+.+.+-.++...+.+++|..+|..+++
T Consensus       433 ~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          433 ITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             233445566666677777777777777665

>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=97.86  E-value=0.0011  Score=46.79  Aligned_cols=111  Identities=9%  Similarity=-0.133  Sum_probs=61.1

Q ss_pred             hhhHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----cCcHHHH
Q 038109           83 LSVLSDLCRTLARLDKG-FPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR----GKRMEEA  157 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a  157 (324)
                      .+++++|.+.|++..+. .|+..    +...|...+.+++|.+.|++..+.|   +...+..+-..|..    .++.++|
T Consensus         8 ~~d~~~A~~~~~~aa~~g~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNEMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCCHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            44555555555555332 22222    4445555555566666666665553   34445555555554    5566666


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHHCC
Q 038109          158 WGLMEVMKEIRVSPDLTAYNYLLTAYCF----KGNLTATSGVLKKMEEEK  203 (324)
Q Consensus       158 ~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~  203 (324)
                      ...|++..+.|   +...+..+-..|..    .+++++|...|++..+.|
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            66666666554   34455556666665    566666666666666554

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.83  E-value=0.00024  Score=51.22  Aligned_cols=61  Identities=23%  Similarity=0.123  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhCCC-----CCCc-CHhHH----HHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          245 TYAHVMGALLRLGYYAQAVKFVMVCGGR-----DIKL-DTELF----GSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~-~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      .|..+-.++.+.|++++|+..++...+.     .+.| +...|    .....++...|++++|+..|++..
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence            4444455555555555555555444432     0122 34455    667777777777777777777664

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.80  E-value=3e-05  Score=52.29  Aligned_cols=63  Identities=6%  Similarity=0.067  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          173 LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       173 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      ...+..+...+...|++++|...|++..+.... +...|..+..++.+.|++++|.+.+++..+
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            344455555555556666666655555554332 455555555555566666666665555553

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.73  E-value=0.00026  Score=48.12  Aligned_cols=78  Identities=12%  Similarity=-0.056  Sum_probs=42.2

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          157 AWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       157 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      |...+++..+.. +.+...+..+...|...|++++|...|++..+.... +...|..+..+|...|++++|...|++..+
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344455444432 124455555555666666666666666655554332 455555556666666666666666655543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.72  E-value=0.00022  Score=48.51  Aligned_cols=81  Identities=15%  Similarity=-0.012  Sum_probs=65.1

Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 038109          190 TATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVC  269 (324)
Q Consensus       190 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (324)
                      +.|...|++..+.... +...+..+...|...|++++|...|++..+... .+...+..+..++...|++++|...++..
T Consensus         2 ~~a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            2 QAITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CCHHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4677788888776554 788888899999999999999999999886532 34667778888899999999999998877


Q ss_pred             CCC
Q 038109          270 GGR  272 (324)
Q Consensus       270 ~~~  272 (324)
                      .+.
T Consensus        80 l~~   82 (115)
T 2kat_A           80 LAA   82 (115)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.63  E-value=0.0012  Score=42.26  Aligned_cols=62  Identities=19%  Similarity=0.236  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      ..+..+...+...|++++|...|++..+.... +...+..+..++.+.|++++|.+.+++..+
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            34444445555555555555555555443322 344455555555555555555555555443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.61  E-value=0.00034  Score=46.89  Aligned_cols=62  Identities=11%  Similarity=0.007  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHh
Q 038109          104 SAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKE  166 (324)
Q Consensus       104 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  166 (324)
                      ..|..+...+...|++++|++.|++..+... .+...+..+..++.+.|++++|...+++..+
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITAQP-QNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3444455555555555555555555544321 1344444444555555555555555555444

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.61  E-value=0.00044  Score=45.76  Aligned_cols=63  Identities=16%  Similarity=0.048  Sum_probs=38.2

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          172 DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       172 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      +...+..+..+|...|++++|...|++..+..+. +...|..+..+|...|++++|.+.|++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4455556666666666666666666666655433 45556666666666666666666666554

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.59  E-value=0.001  Score=42.66  Aligned_cols=61  Identities=16%  Similarity=0.150  Sum_probs=27.1

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          141 FHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       141 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      +..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...|++..+.
T Consensus        12 ~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            3333344444444444444444443332 113344444444555555555555555544443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.47  E-value=0.00026  Score=50.93  Aligned_cols=97  Identities=10%  Similarity=-0.024  Sum_probs=59.5

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhH----------HHHHHHHHHHhcCCCC-HHHHHHHHHHHHc
Q 038109           47 HERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVL----------SDLCRTLARLDKGFPR-KSAYDTLIGRLCK  115 (324)
Q Consensus        47 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~p~-~~~~~~li~~~~~  115 (324)
                      +.+.+++|.+.++...+.. +.++..|..+..++...+++          ++|+..|++..+..|+ ..+|..+..+|..
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Confidence            4445677777777776653 44556666666666666554          4777777776666663 4467777777766


Q ss_pred             cC-----------CHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 038109          116 LK-----------KIDEALRVVDIMAEGGFGLSAITFHPILS  146 (324)
Q Consensus       116 ~~-----------~~~~a~~~~~~m~~~g~~~~~~~~~~li~  146 (324)
                      .|           ++++|++.|++..+  +.|+...|...+.
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~  132 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            53           66666666666665  3345444444333

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.46  E-value=0.0005  Score=49.44  Aligned_cols=100  Identities=15%  Similarity=0.068  Sum_probs=70.1

Q ss_pred             chhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCH----------HHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 038109           79 TENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKI----------DEALRVVDIMAEGGFGLSAITFHPILSV  147 (324)
Q Consensus        79 ~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~----------~~a~~~~~~m~~~g~~~~~~~~~~li~~  147 (324)
                      -..+.+.+++|.+.++...+..| +...|..+..++...+++          ++|+..|++..+.... +..+|..+-.+
T Consensus        11 ~~~r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~a   89 (158)
T 1zu2_A           11 EFDRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNA   89 (158)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHH
Confidence            34677889999999999877777 567888888888877764          5788888887775332 45677777777


Q ss_pred             HHccC-----------cHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038109          148 LTRGK-----------RMEEAWGLMEVMKEIRVSPDLTAYNYLLT  181 (324)
Q Consensus       148 ~~~~~-----------~~~~a~~~~~~m~~~~~~~~~~~~~~li~  181 (324)
                      |...|           ++++|...|++..+.  .|+...|...+.
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~  132 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            77654           677777777776663  455544444333

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.29  E-value=0.0014  Score=43.26  Aligned_cols=62  Identities=15%  Similarity=0.030  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHH
Q 038109          103 KSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMK  165 (324)
Q Consensus       103 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  165 (324)
                      ...|..+...|...|++++|+..|++..+.... +...|..+..++...|++++|...+++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345555555555566666666666555553221 34455555555555566666655555544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.19  E-value=0.015  Score=53.89  Aligned_cols=133  Identities=13%  Similarity=0.080  Sum_probs=78.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF  185 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  185 (324)
                      ...++..+.+.|.+++|+++.+.-            ..-+......|+++.|.++.+.+      .+...|..+...+.+
T Consensus       632 ~~~~~~~l~~~~~~~~a~~~~~~~------------~~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~  693 (814)
T 3mkq_A          632 LTKIARFLEGQEYYEEALNISPDQ------------DQKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQ  693 (814)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHCCCH------------HHHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCChHHheecCCCc------------chheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHH
Confidence            366666677777777777654211            11123345567777777765432      356778888888888


Q ss_pred             cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 038109          186 KGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKF  265 (324)
Q Consensus       186 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  265 (324)
                      .++++.|.+.|..+.+         |..+...+...|+.+...++-+.....|.      ++....+|.+.|++++|.++
T Consensus       694 ~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~  758 (814)
T 3mkq_A          694 RFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDL  758 (814)
T ss_dssp             TTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHH
Confidence            8888888888877643         33444445556666665555554444432      23334445556666666666


Q ss_pred             HHHhCC
Q 038109          266 VMVCGG  271 (324)
Q Consensus       266 ~~~~~~  271 (324)
                      +.++.+
T Consensus       759 ~~~~~~  764 (814)
T 3mkq_A          759 LIKSQR  764 (814)
T ss_dssp             HHHTTC
T ss_pred             HHHcCC
Confidence            655443

>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=97.03  E-value=0.0014  Score=56.02  Aligned_cols=61  Identities=8%  Similarity=-0.015  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHh-----CCC-CCC-hhhHHHHHHHHHccCcHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAE-----GGF-GLS-AITFHPILSVLTRGKRMEEAWGLMEVMK  165 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~  165 (324)
                      +++.+..+|...|++++|+.++++..+     .|. .|+ ..+++.|...|...|++++|+.++++..
T Consensus       342 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          342 MMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            566667777777777777776666553     121 122 3456666666777777777776666544

>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=97.01  E-value=0.0033  Score=53.68  Aligned_cols=86  Identities=16%  Similarity=0.088  Sum_probs=63.0

Q ss_pred             hcCCHHHHHHHHHHHHHC---CCC---c-CHHHHHHHHHHHHhcCCHHHHHHHHHHhCC-------CCCCcCHhHHHHHH
Q 038109          220 RAGRVEEAFVLLRRMVDD---GQS---V-LYSTYAHVMGALLRLGYYAQAVKFVMVCGG-------RDIKLDTELFGSLG  285 (324)
Q Consensus       220 ~~g~~~~a~~~~~~m~~~---~~~---p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~  285 (324)
                      ..|++++|+.++++..+.   -+.   | ...+++.|..+|...|++++|+.++++...       ...+-...+++.|.
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            457889999988876642   111   2 256788888999999999999888866543       22222356688889


Q ss_pred             HHHhCcCCHHHHHHHHHHHH
Q 038109          286 SKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       286 ~~~~~~g~~~~a~~~~~~m~  305 (324)
                      ..|...|++++|..++++..
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHH
Confidence            99999999999999988764

>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=96.98  E-value=0.0051  Score=52.52  Aligned_cols=91  Identities=11%  Similarity=0.040  Sum_probs=58.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCC---CCc----CHHHHHHHHHHHHhcCCHHHHHHHHHHhCC-------CCCCcCHhH
Q 038109          215 VLGACRAGRVEEAFVLLRRMVDDG---QSV----LYSTYAHVMGALLRLGYYAQAVKFVMVCGG-------RDIKLDTEL  280 (324)
Q Consensus       215 i~~~~~~g~~~~a~~~~~~m~~~~---~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-------~~~~~~~~~  280 (324)
                      +..+.+.|++++|+.++++.....   ..|    ...+++.+..+|...|++++|+.++++...       ...+-...+
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            444556778888888877776431   111    245677777778888888887777755432       111223456


Q ss_pred             HHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          281 FGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       281 ~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      ++.|...|...|++++|..++++..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            7777778888888888887777653

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.97  E-value=0.013  Score=48.34  Aligned_cols=71  Identities=11%  Similarity=0.122  Sum_probs=40.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHH
Q 038109          207 DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELF  281 (324)
Q Consensus       207 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  281 (324)
                      +..+|..+...+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.+.+....  .|...+|
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~  346 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTL  346 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChH
Confidence            45555555555555566666666666666543  55555555555566666666666666555553  2344444

>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=96.90  E-value=0.0039  Score=53.27  Aligned_cols=85  Identities=8%  Similarity=-0.062  Sum_probs=47.0

Q ss_pred             hhhhhHHHHHHHHHHHhcC----C-CC----HHHHHHHHHHHHccCCHHHHHHHHHHHHh-----CC-CCCC-hhhHHHH
Q 038109           81 NSLSVLSDLCRTLARLDKG----F-PR----KSAYDTLIGRLCKLKKIDEALRVVDIMAE-----GG-FGLS-AITFHPI  144 (324)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~----~-p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g-~~~~-~~~~~~l  144 (324)
                      .+.|++++|...+++..+.    . |+    ..+++.+...|...|++++|+.++++..+     .| -.|+ ..+++.|
T Consensus       298 ~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nL  377 (429)
T 3qwp_A          298 KAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKV  377 (429)
T ss_dssp             HHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHH
T ss_pred             HhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHH
Confidence            3445566666666555321    1 21    12566666666666777666666666553     11 1122 3456666


Q ss_pred             HHHHHccCcHHHHHHHHHHHH
Q 038109          145 LSVLTRGKRMEEAWGLMEVMK  165 (324)
Q Consensus       145 i~~~~~~~~~~~a~~~~~~m~  165 (324)
                      ...|...|++++|+.++++..
T Consensus       378 a~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          378 GKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHH
Confidence            666666677776666666544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.87  E-value=0.043  Score=50.86  Aligned_cols=153  Identities=10%  Similarity=0.028  Sum_probs=78.6

Q ss_pred             HhcCCCHHHHHH-HHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHH
Q 038109           45 AGHERDLETVRY-LLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEAL  123 (324)
Q Consensus        45 ~~~~~~~~~a~~-~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~  123 (324)
                      ....++++.|.+ ++..     + ++......++..+.+.|..+.|.++.+       +..   .-.......|+++.|.
T Consensus       609 ~~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~-------~~~---~~f~~~l~~~~~~~A~  672 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISP-------DQD---QKFELALKVGQLTLAR  672 (814)
T ss_dssp             HHHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCC-------CHH---HHHHHHHHHTCHHHHH
T ss_pred             HHHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCC-------Ccc---hheehhhhcCCHHHHH
Confidence            345677777766 4311     1 101112455555666666666655432       111   1122345567777777


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC
Q 038109          124 RVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK  203 (324)
Q Consensus       124 ~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  203 (324)
                      ++.+.+      .+...|..+...+.+.++++.|.+.|..+..         |..+...|...|+.+...++-+.....|
T Consensus       673 ~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~  737 (814)
T 3mkq_A          673 DLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG  737 (814)
T ss_dssp             HHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            664332      2556677777777777777777777776643         3334444444555555444444444332


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038109          204 LGADARTYDALVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       204 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  234 (324)
                      .      ++....+|.+.|++++|.+++.++
T Consensus       738 ~------~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          738 K------FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             C------HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             c------hHHHHHHHHHcCCHHHHHHHHHHc
Confidence            1      222333344455555555555443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.86  E-value=0.039  Score=45.52  Aligned_cols=74  Identities=12%  Similarity=-0.097  Sum_probs=53.9

Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHH
Q 038109          170 SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYA  247 (324)
Q Consensus       170 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  247 (324)
                      +.+..+|.++...+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.|++....  .|...||.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence            4567777777666666788888888888887765  67777777777778888888888888776654  45656654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.77  E-value=0.013  Score=38.04  Aligned_cols=55  Identities=9%  Similarity=0.116  Sum_probs=28.5

Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          181 TAYCFKGNLTATSGVLKKMEEEKLGADAR-TYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      ..+.+.|++++|...|++..+.... +.. .+..+..+|...|++++|.+.|++..+
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3444555555555555555544332 344 555555555555555555555555544

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.61  E-value=0.091  Score=36.26  Aligned_cols=140  Identities=11%  Similarity=0.052  Sum_probs=91.4

Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          150 RGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFV  229 (324)
Q Consensus       150 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  229 (324)
                      -.|..++..++..+....   .+..-||-+|--....-+-+...++++..-+.   .|.          ...|+......
T Consensus        19 ldG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi~   82 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVE   82 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHHH
Confidence            346666666666666553   24555555555555555555555555544332   121          23344444444


Q ss_pred             HHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCC
Q 038109          230 LLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDL  309 (324)
Q Consensus       230 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  309 (324)
                      .+-.+   +  .+...+...+..+..+|.-++-.+++..+... -+|++...-.+..+|.+.|+..+|.+++.+.-++|+
T Consensus        83 C~~~~---n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           83 CGVIN---N--TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHT---T--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHh---c--chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            43322   1  24456777888999999999999999997554 467888888899999999999999999999999888


Q ss_pred             ch
Q 038109          310 KM  311 (324)
Q Consensus       310 ~~  311 (324)
                      +-
T Consensus       157 kE  158 (172)
T 1wy6_A          157 KE  158 (172)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.50  E-value=0.015  Score=37.72  Aligned_cols=57  Identities=18%  Similarity=0.121  Sum_probs=33.3

Q ss_pred             HHHHccCcHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChhhHHHHHHHHHHCC
Q 038109          146 SVLTRGKRMEEAWGLMEVMKEIRVSPDLT-AYNYLLTAYCFKGNLTATSGVLKKMEEEK  203 (324)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~  203 (324)
                      ..+.+.|++++|...+++..+... .+.. .+..+..+|...|++++|...|++..+..
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEP-VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCS-STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            344555666666666666555431 2344 55666666666666666666666666553

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.47  E-value=0.15  Score=37.14  Aligned_cols=44  Identities=14%  Similarity=0.121  Sum_probs=20.2

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHH
Q 038109          115 KLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVM  164 (324)
Q Consensus       115 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  164 (324)
                      ..|+++.|.++.+++      -+...|..|.....+.|+++-|++.|...
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            344444444444333      13444444444444444444444444433

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.43  E-value=0.089  Score=33.94  Aligned_cols=65  Identities=12%  Similarity=0.019  Sum_probs=35.3

Q ss_pred             CHHHHHHHHHHHHhcCC---hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          172 DLTAYNYLLTAYCFKGN---LTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       172 ~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      |...+..+..++...++   .++|..++++..+..+. +......+...+.+.|++++|...|+++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            44444455555443333   45666666665555444 4555555555566666666666666665543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.35  E-value=0.12  Score=37.78  Aligned_cols=102  Identities=8%  Similarity=0.067  Sum_probs=59.8

Q ss_pred             chhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHH
Q 038109           79 TENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAW  158 (324)
Q Consensus        79 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~  158 (324)
                      .....|+++.|.++.+.+    .+...|..|.......|+++-|.+.|.+..+         +..+.-.|.-.|+.++..
T Consensus        14 LAL~lg~l~~A~e~a~~l----~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL----NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH----CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh----CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHH
Confidence            345566666666666555    3455677777777777777777777766543         344444455556666655


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHH
Q 038109          159 GLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKM  199 (324)
Q Consensus       159 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  199 (324)
                      ++-+.....|-      ++....++.-.|+++++.++|.+.
T Consensus        81 kla~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           81 KMQNIAQTRED------FGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHC
Confidence            55444444431      333444555667777777766443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.35  E-value=0.0094  Score=42.37  Aligned_cols=82  Identities=17%  Similarity=0.111  Sum_probs=58.2

Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCc--CHHHHHHHHHHHHhcCCHHHHH
Q 038109          189 LTATSGVLKKMEEEKLGADARTYDALVLGACRAG---RVEEAFVLLRRMVDDGQSV--LYSTYAHVMGALLRLGYYAQAV  263 (324)
Q Consensus       189 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~  263 (324)
                      ...+.+-|.+..+.|. ++..+.-.+..++++++   +.+++..+++...+.. .|  +...+-.+.-++.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            4556666776666655 57777777888888887   5668888888887764 24  2344444556678888888888


Q ss_pred             HHHHHhCCC
Q 038109          264 KFVMVCGGR  272 (324)
Q Consensus       264 ~~~~~~~~~  272 (324)
                      ++++.+.+.
T Consensus        92 ~y~~~lL~i  100 (152)
T 1pc2_A           92 KYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            888888775

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.16  E-value=0.081  Score=37.56  Aligned_cols=87  Identities=9%  Similarity=0.006  Sum_probs=63.0

Q ss_pred             CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---ChhhHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHH
Q 038109          152 KRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKG---NLTATSGVLKKMEEEKLGA--DARTYDALVLGACRAGRVEE  226 (324)
Q Consensus       152 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~  226 (324)
                      .....+.+-|.+..+.|. ++..+...+..++++.+   +.+++..+|++..+.+ .|  +...+-.+.-+|.+.|++++
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 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHH
Confidence            345667777777766654 67777777888888887   5668888888888764 23  24445556677789999999


Q ss_pred             HHHHHHHHHHCCCCcC
Q 038109          227 AFVLLRRMVDDGQSVL  242 (324)
Q Consensus       227 a~~~~~~m~~~~~~p~  242 (324)
                      |.+.++.+.+.  .|+
T Consensus        90 A~~y~~~lL~i--eP~  103 (152)
T 1pc2_A           90 ALKYVRGLLQT--EPQ  103 (152)
T ss_dssp             HHHHHHHHHHH--CTT
T ss_pred             HHHHHHHHHhc--CCC
Confidence            99999888864  464

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.09  E-value=0.08  Score=34.91  Aligned_cols=26  Identities=27%  Similarity=0.299  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKME  200 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~  200 (324)
                      .+..+..++.+.|+++.|...+++..
T Consensus        48 i~~~L~~~~~~~g~~~~A~~~~~~al   73 (104)
T 2v5f_A           48 VLDYLSYAVYQQGDLDKALLLTKKLL   73 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            33344444444444444444444433

>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=95.89  E-value=0.12  Score=41.08  Aligned_cols=88  Identities=8%  Similarity=-0.028  Sum_probs=50.9

Q ss_pred             hhhHHHHHHHHHHHhcCCCC---HHHHHHHHHHHHc-----cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc-Cc
Q 038109           83 LSVLSDLCRTLARLDKGFPR---KSAYDTLIGRLCK-----LKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRG-KR  153 (324)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~p~---~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-~~  153 (324)
                      .+....|...+++..+..|+   ...|..+...|.+     .|+.++|.+.|++..+-+..-+..++......+++. |+
T Consensus       176 l~~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          176 PDTVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             HHhHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            34455555666665555555   3356666666666     366666666666666633221245555555666553 66


Q ss_pred             HHHHHHHHHHHHhCCCC
Q 038109          154 MEEAWGLMEVMKEIRVS  170 (324)
Q Consensus       154 ~~~a~~~~~~m~~~~~~  170 (324)
                      .+++.+.+++..+....
T Consensus       256 ~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          256 RAGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHHcCCCC
Confidence            66666666666665544

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.80  E-value=0.096  Score=33.78  Aligned_cols=48  Identities=8%  Similarity=0.015  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          154 MEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       154 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      .++|...+++..+... -++.....+...+.+.|++++|...|+++.+.
T Consensus        25 ~~~A~~~l~~AL~~dp-~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A           25 TDEVSLLLEQALQLEP-YNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHCc-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3455555555444321 13344444444555555555555555555443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.56  E-value=0.13  Score=33.85  Aligned_cols=64  Identities=11%  Similarity=0.110  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHCC------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          173 LTAYNYLLTAYCFKGNLTATSGVLKKMEEEK------LGADARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       173 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      ...+-.+...+.+.++++.|...|+...+.-      -.+....+..+..++.+.|++++|...+++..+
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            3344455555666666666666665544320      112345555566666666666666666665554

>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=95.50  E-value=0.21  Score=39.68  Aligned_cols=92  Identities=12%  Similarity=0.076  Sum_probs=71.8

Q ss_pred             HHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhc-----CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-CCH
Q 038109          154 MEEAWGLMEVMKEIRVSPD---LTAYNYLLTAYCFK-----GNLTATSGVLKKMEEEKLGADARTYDALVLGACRA-GRV  224 (324)
Q Consensus       154 ~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-g~~  224 (324)
                      ...|...+++..+.  .|+   ...|..+...|.+.     |+.++|.+.|++..+.+..-+..++......+++. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            56777777777774  455   56788888889884     99999999999999875543477888888888884 999


Q ss_pred             HHHHHHHHHHHHCCCC--cCHHHHH
Q 038109          225 EEAFVLLRRMVDDGQS--VLYSTYA  247 (324)
Q Consensus       225 ~~a~~~~~~m~~~~~~--p~~~~~~  247 (324)
                      +++.+.+++.......  |+....+
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHH
Confidence            9999999999987665  6654433

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.46  E-value=0.084  Score=36.09  Aligned_cols=22  Identities=14%  Similarity=0.144  Sum_probs=10.4

Q ss_pred             HHHHHhCcCCHHHHHHHHHHHH
Q 038109          284 LGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       284 l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      |.-++.+.|++++|.++++.+.
T Consensus        80 LAvg~yklg~Y~~A~~~~~~lL  101 (126)
T 1nzn_A           80 LAVGNYRLKEYEKALKYVRGLL  101 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHH
Confidence            3344444455555555444444

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.32  E-value=0.075  Score=44.64  Aligned_cols=76  Identities=13%  Similarity=0.016  Sum_probs=53.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh-----CCCchhHHHHHHHh
Q 038109          246 YAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK-----RDLKMGFKLRDYYE  320 (324)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~~~~~  320 (324)
                      ...++.++...|++++|...+..+.... +.+...|..++.+|.+.|+..+|.+.|++..+     .|+.|+.++..+|.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~~  252 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNE  252 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence            3445666777788887777777665543 34667777788888888888888877777643     48888887777776


Q ss_pred             hh
Q 038109          321 IN  322 (324)
Q Consensus       321 ~~  322 (324)
                      ..
T Consensus       253 ~i  254 (388)
T 2ff4_A          253 RI  254 (388)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.87  E-value=0.6  Score=32.29  Aligned_cols=65  Identities=17%  Similarity=0.173  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQ  239 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  239 (324)
                      ...+..++.....|+-++-.+++.++.. +..|+....-.+..+|.+.|+..+|.+++.+..+.|+
T Consensus        92 e~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           92 EHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            3344444455555555555555555322 2234455555555555555555555555555555554

>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=94.63  E-value=0.23  Score=41.74  Aligned_cols=70  Identities=16%  Similarity=0.020  Sum_probs=57.3

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCcCHHHH
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD-----DGQSVLYSTY  246 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~~  246 (324)
                      ...++.++...|+++++...++.+....+- +...|..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+-
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 HTAKAEAEIACGRASAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            445677888899999999988888776544 888999999999999999999999988654     3888987763

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.60  E-value=0.16  Score=46.36  Aligned_cols=128  Identities=16%  Similarity=0.061  Sum_probs=76.5

Q ss_pred             HHHHHHHHhcCC-hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHC------CCCcCH-----
Q 038109          177 NYLLTAYCFKGN-LTATSGVLKKMEEEKLGADARTYDALVLGACRAGR-VEEAFVLLRRMVDD------GQSVLY-----  243 (324)
Q Consensus       177 ~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~------~~~p~~-----  243 (324)
                      ..++..+...++ .+.|..+|+++......-+......++..+.+.++ --+|.+++.+..+.      ...+..     
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            445555555666 47788888888876443222223334443333332 22455555444321      111110     


Q ss_pred             ------HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          244 ------STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       244 ------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                            .....=.+-|...|+++.|+.+-+...... +-+-.+|..|..+|.+.|+++.|+-.++.+.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                  111111234667889999999888887763 3368889999999999999999998888773

>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=94.29  E-value=0.38  Score=33.94  Aligned_cols=102  Identities=10%  Similarity=0.005  Sum_probs=46.6

Q ss_pred             CHHHHHHHHHHHHhcCCh------hhHHHHHHHHHHCCCCCCH----HHHHHHHHHH---HhcCCHHHHHHHHHHHHHCC
Q 038109          172 DLTAYNYLLTAYCFKGNL------TATSGVLKKMEEEKLGADA----RTYDALVLGA---CRAGRVEEAFVLLRRMVDDG  238 (324)
Q Consensus       172 ~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~~~~~~~~----~~~~~li~~~---~~~g~~~~a~~~~~~m~~~~  238 (324)
                      |..+|-..+....+.|+.      +...++|++.... ++|+.    ..|--+.--|   ...++.++|.++|+.+++..
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            455555555555555666      5555666655443 23321    1122221111   12345555555555554332


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCC
Q 038109          239 QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIK  275 (324)
Q Consensus       239 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (324)
                      -+. ...|....+--.++|++..|.+++......+.+
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            222 333333333344555555555555555554433

>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=94.14  E-value=1  Score=31.80  Aligned_cols=35  Identities=11%  Similarity=0.040  Sum_probs=20.1

Q ss_pred             CHHHHHHHHHHHHccCCH------HHHHHHHHHHHhCCCCCC
Q 038109          102 RKSAYDTLIGRLCKLKKI------DEALRVVDIMAEGGFGLS  137 (324)
Q Consensus       102 ~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~~g~~~~  137 (324)
                      |..+|-..+...-+.|+.      ++..++|++.... ++|+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~   52 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPD   52 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGG
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCcc
Confidence            444555555555555666      6666666666553 4443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.96  E-value=0.63  Score=31.75  Aligned_cols=67  Identities=12%  Similarity=0.022  Sum_probs=29.6

Q ss_pred             CChhhHHHHHHHHHccCcHHH---HHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          136 LSAITFHPILSVLTRGKRMEE---AWGLMEVMKEIRVS-PDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       136 ~~~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      |+..+-..+..+++++.+...   +..+++.+.+.+.+ -.....-.+.-++.+.|++++|.+.++.+.+.
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            344444444445555544333   44555554443211 01112222333455555555555555555543

>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=93.67  E-value=0.88  Score=29.49  Aligned_cols=50  Identities=12%  Similarity=0.116  Sum_probs=34.3

Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          153 RMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       153 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      +.-+..+-++.+....+.|++....+.+++|-+.+++..|.++|+..+.+
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            44556666666666667777777777777777777777777777766644

>3eiq_C Programmed cell death protein 4; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Mus musculus}

Probab=93.64  E-value=2.3  Score=34.96  Aligned_cols=77  Identities=13%  Similarity=0.034  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcC--CHHHHHHHHHHHHhCCCchhHHHHHHHhhh
Q 038109          245 TYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLE--RFNEANFILKEMNKRDLKMGFKLRDYYEIN  322 (324)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~  322 (324)
                      ....++.-|...|+.++|.+.++++..-.+. ...+...+..++-+.+  ..+...+++..+...|+.+.+.+...+...
T Consensus       219 ki~~lL~EY~~s~D~~EA~~ci~EL~~p~fh-he~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls~~q~~~Gf~~v  297 (358)
T 3eiq_C          219 EIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYERI  297 (358)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHCCTTCH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCHHHHHHHHHHccCCcch-HHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence            3577888899999999999999999754332 3445566666777654  346688999999999999888887776543

>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=93.28  E-value=0.54  Score=30.47  Aligned_cols=48  Identities=10%  Similarity=0.109  Sum_probs=26.3

Q ss_pred             HHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHh
Q 038109           16 SVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRAR   63 (324)
Q Consensus        16 a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   63 (324)
                      .+++-+-|+.......-|++....+.+++|.+.+++..|.++++-.+.
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            344444444444555556666666666666666666666666555543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.27  E-value=1.2  Score=40.65  Aligned_cols=53  Identities=17%  Similarity=0.186  Sum_probs=38.5

Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038109          181 TAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  234 (324)
                      +.+...|+++-|+++-++....-+. +-.+|..|..+|...|+++.|+-.+..+
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            4455677888888887777665333 5677888888888888888888777765

>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=92.18  E-value=1.9  Score=29.69  Aligned_cols=62  Identities=13%  Similarity=0.181  Sum_probs=40.5

Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 038109          153 RMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALV  215 (324)
Q Consensus       153 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  215 (324)
                      |.-+..+-++.+...++.|+.....+.+++|-+.+++..|.++|+..+.+- .+...+|..++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~l  129 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI  129 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHH
Confidence            444566666666677777777777777777777777777777777766542 22333455444

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=91.75  E-value=8.3e-05  Score=62.88  Aligned_cols=240  Identities=10%  Similarity=0.052  Sum_probs=122.3

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccC
Q 038109           38 YDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLK  117 (324)
Q Consensus        38 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~  117 (324)
                      |..|-.+....+++.+|.+-|   .+   ..|+..|..++.+..+.|.+++..+.+...++...+..+=+.|+-+|++.+
T Consensus        57 Ws~LgkAqL~~~~v~eAIdsy---Ik---A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~~  130 (624)
T 3lvg_A           57 WSQLAKAQLQKGMVKEAIDSY---IK---ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTN  130 (624)
T ss_dssp             SSSHHHHTTTSSSCTTTTTSS---CC---CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTSC
T ss_pred             HHHHHHHHHccCchHHHHHHH---Hh---CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHHhhC
Confidence            555555555555554444432   11   124444555666666666666666655555444333333345555666665


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCC--------------------CCCCHHHHH
Q 038109          118 KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIR--------------------VSPDLTAYN  177 (324)
Q Consensus       118 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------------------~~~~~~~~~  177 (324)
                      ++.+..+.+       -.|+..-...+.+-|...|.++.|.-+|..+....                    -..++.||-
T Consensus       131 rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWK  203 (624)
T 3lvg_A          131 RLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWK  203 (624)
T ss_dssp             SSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHH
T ss_pred             cHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHH
Confidence            554433222       12444444555555556666665555555442211                    012345555


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLG  257 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  257 (324)
                      .+-.+|...+.+.-|.-.--.+.-     .......++..|-..|.+++.+.+++.-... -+....+|+-|.-.|++- 
T Consensus       204 eV~~ACvd~~EfrLAqicGLniIv-----hadeL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY-  276 (624)
T 3lvg_A          204 EVCFACVDGKEFRLAQMCGLHIVV-----HADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF-  276 (624)
T ss_dssp             HHTHHHHHSCTTTTTTHHHHHHHC-----CSSCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS-
T ss_pred             HHHHHHhCchHHHHHHHhcchhcc-----cHHHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc-
Confidence            555566666655555433333332     2222334455566667777777766655421 135566777776666665 


Q ss_pred             CHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHH
Q 038109          258 YYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKE  303 (324)
Q Consensus       258 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  303 (324)
                      ++++..+.++..-.   +.|..   .+|++|.+..-|.++.-++..
T Consensus       277 ~PeKlmEHlklf~s---riNip---KviracE~ahLW~ElvfLY~~  316 (624)
T 3lvg_A          277 KPQKMREHLELFWS---RVNIP---KVLRAAEQAHLWAELVFLYDK  316 (624)
T ss_dssp             CTTHHHHHHTTSSS---SSCCT---TTHHHHTTTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH---hccHH---HHHHHHHHHhhHHHHHHHHhc
Confidence            34444433333222   22222   367888888888777766653

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=91.63  E-value=1.8  Score=29.71  Aligned_cols=70  Identities=14%  Similarity=0.099  Sum_probs=43.1

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          203 KLGADARTYDALVLGACRAGRV---EEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       203 ~~~~~~~~~~~li~~~~~~g~~---~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      +..|+..+--....+++++.+.   .+++.+++++.+.+..-....+-.+.-++.+.|+++.|.++.+.+.+.
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            4445666555566666666554   356777777766542112344444556777778888888877777764

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.28  E-value=3.5  Score=40.04  Aligned_cols=188  Identities=13%  Similarity=0.098  Sum_probs=112.1

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCC-------------------
Q 038109          109 LIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRV-------------------  169 (324)
Q Consensus       109 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-------------------  169 (324)
                      ++..+...+..+.+.++..-.     +-+...--.+..++...|++++|...|++... |+                   
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccccc
Confidence            444455555555554433221     22333334555677788889999888875421 11                   


Q ss_pred             ----CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 038109          170 ----SPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGAD----ARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSV  241 (324)
Q Consensus       170 ----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  241 (324)
                          ..-..-|.-++..+.+.+.++.+.++-....+....-+    ...|..++..+...|++++|...+-.+.....+ 
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r-  970 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK-  970 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC-
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH-
Confidence                01124577788888899999988887765554322112    236888999999999999999999888765443 


Q ss_pred             CHHHHHHHHHHHHhcCCHHH------------HHHHHHHhCC-C-CCCcCHhHHHHHHHHHhCcCCHHHHHH-HHHHH
Q 038109          242 LYSTYAHVMGALLRLGYYAQ------------AVKFVMVCGG-R-DIKLDTELFGSLGSKLIGLERFNEANF-ILKEM  304 (324)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~------------a~~~~~~~~~-~-~~~~~~~~~~~l~~~~~~~g~~~~a~~-~~~~m  304 (324)
                       ...+..|+..++..|..+.            ..+++....+ . .+...+.-|..|-..+...|++.+|-. +++..
T Consensus       971 -~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~ 1047 (1139)
T 4fhn_B          971 -KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKL 1047 (1139)
T ss_dssp             -HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHH
Confidence             3566777777776665543            3333322111 1 111122346666666677788777644 34444

>2zu6_B Programmed cell death protein 4; protein-protein complex, ATP-binding, helicase, hydrolase, initiation factor, nucleotide-binding; 2.80A {Homo sapiens} PDB: 3eij_A

Probab=91.12  E-value=2.7  Score=33.81  Aligned_cols=76  Identities=13%  Similarity=0.040  Sum_probs=54.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCC--HHHHHHHHHHHHhCCCchhHHHHHHHhhh
Q 038109          246 YAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLER--FNEANFILKEMNKRDLKMGFKLRDYYEIN  322 (324)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~~~~~~m~~~~~~~~~~~~~~~~~~  322 (324)
                      ...++.-|...|+.++|.+.++++..-.+. ...+...+..++-+.++  .+...+++..+.+.|+.+.+.+..++...
T Consensus       169 i~~lL~EY~~~~D~~EA~~ci~EL~~p~f~-~e~V~~ai~~alE~~~~~~re~~~~LL~~L~~~~~ls~~q~~~Gf~~v  246 (307)
T 2zu6_B          169 IDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIIMVLESTGESTFKMILDLLKSLWKSSTITVDQMKRGYERI  246 (307)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHCCGGGH-HHHHHHHHHHHHTCCSSHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCcch-HHHHHHHHHHHHccCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence            456788888889999999999988753332 33455566666766533  45677889999888888888877766543

>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=91.12  E-value=1.2  Score=30.64  Aligned_cols=82  Identities=16%  Similarity=0.117  Sum_probs=59.0

Q ss_pred             CCCHHHHHHHHHHHhcCC-CHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcC-CCCHHHHHHH
Q 038109           32 EPTSAYYDDLVNAAGHER-DLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKG-FPRKSAYDTL  109 (324)
Q Consensus        32 ~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~p~~~~~~~l  109 (324)
                      .++...-......|-+.. +.-+..+-++.+...++.|++......+++|.+..++..|.++|+-++.. .+...+|..+
T Consensus        49 Et~EeFdaRy~~~F~~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~  128 (152)
T 2y69_E           49 ETDEEFDARWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYV  128 (152)
T ss_dssp             CCHHHHHHHHHHHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHH
T ss_pred             CcHHHHHHHHHHHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHH
Confidence            444444444444455555 66677888888888888999999999999999999999999999988543 2444567777


Q ss_pred             HHHH
Q 038109          110 IGRL  113 (324)
Q Consensus       110 i~~~  113 (324)
                      ++-.
T Consensus       129 lqEl  132 (152)
T 2y69_E          129 IQEL  132 (152)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.91  E-value=6.9  Score=33.38  Aligned_cols=257  Identities=11%  Similarity=0.026  Sum_probs=153.7

Q ss_pred             ccchhHHHHHHHHhhhc--CCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCCCCchhhHhhhhchh----hh
Q 038109           11 FLIPQSVLVTRSFTKSG--AFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRAR-DCCFNTANTFNFITNTEN----SL   83 (324)
Q Consensus        11 ~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~~~~~l~~~~~----~~   83 (324)
                      +.+.+|++.+..+....  ......+......++..|...++++...+.+.-+.+ +|..+..  ...+++.+.    ..
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~a--i~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLS--IQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHH--HHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHH--HHHHHHHHHHHHhcC
Confidence            55677887776666533  444566778899999999999999999888876654 3433322  223333221    12


Q ss_pred             h--hHHHHHHHHHHHhc---C--CCC---HHHHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCCC---hhhHHHHHHHH
Q 038109           84 S--VLSDLCRTLARLDK---G--FPR---KSAYDTLIGRLCKLKKIDEALRVVDIMAEG--GFGLS---AITFHPILSVL  148 (324)
Q Consensus        84 ~--~~~~a~~~~~~~~~---~--~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~~~---~~~~~~li~~~  148 (324)
                      .  +.+.-..+.+.+..   +  +-.   ......|...+...|++.+|.+++..+...  |....   ...+...++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            2  22222223332211   1  121   124467889999999999999999998753  22211   35677788899


Q ss_pred             HccCcHHHHHHHHHHHHh----CCCCCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHHC-CCCCCHHHHHH----HHHH
Q 038109          149 TRGKRMEEAWGLMEVMKE----IRVSPD--LTAYNYLLTAYCFKGNLTATSGVLKKMEEE-KLGADARTYDA----LVLG  217 (324)
Q Consensus       149 ~~~~~~~~a~~~~~~m~~----~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~----li~~  217 (324)
                      ...+++..|..++.....    ....|+  ...|...+..+...+++.+|.+.|.+.... ...-|...+..    ++.+
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~  267 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYF  267 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHH
Confidence            999999999999887642    222232  346677888888999999998888776542 11113222221    1112


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc--CCHHHHHHHHHHh
Q 038109          218 ACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRL--GYYAQAVKFVMVC  269 (324)
Q Consensus       218 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~--g~~~~a~~~~~~~  269 (324)
                      ..-.+....-..+.........-++...|..++.+|...  .+++.+...+...
T Consensus       268 ~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~  321 (445)
T 4b4t_P          268 LVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPV  321 (445)
T ss_dssp             HHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSS
T ss_pred             HHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHHHH
Confidence            222222222223333333333336677888899998765  3566666665443

>2nsz_A Programmed cell death protein 4; PDCD4, tumor suppressor, translation, antitumor protein; 1.15A {Mus musculus} SCOP: a.118.1.14 PDB: 2kzt_B 2hm8_A 2ggf_A

Probab=90.39  E-value=2.8  Score=28.71  Aligned_cols=71  Identities=14%  Similarity=0.073  Sum_probs=28.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcC--CHHHHHHHHHHHHhCCCchhHHHHHHHh
Q 038109          249 VMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLE--RFNEANFILKEMNKRDLKMGFKLRDYYE  320 (324)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~~~  320 (324)
                      ++.-|...|+.++|.+.++++..-.+. ...+...+..++-+.+  ..+.+.+++..+...|+.+...+..++.
T Consensus        13 ll~EY~~~~D~~Ea~~cl~eL~~p~f~-~e~V~~~i~~alE~~~~~~~e~~~~LL~~L~~~~~is~~q~~~Gf~   85 (129)
T 2nsz_A           13 LLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYE   85 (129)
T ss_dssp             HHHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHhCCCccH-HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHHHHHHHHH
Confidence            444444445555555544444321111 1222233333333332  1233444444444445444444444433

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=89.95  E-value=3.6  Score=28.64  Aligned_cols=68  Identities=15%  Similarity=0.118  Sum_probs=39.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          205 GADARTYDALVLGACRAGRV---EEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       205 ~~~~~~~~~li~~~~~~g~~---~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      .|+..+--....++.++.+.   .+++.+++.+.+.+..-.....-.|.-++.+.|+++.|.++.+.+.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            45555555566666666553   356667766665432112333333455677777777777777777664

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=89.73  E-value=10  Score=35.61  Aligned_cols=150  Identities=13%  Similarity=0.092  Sum_probs=88.3

Q ss_pred             HHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH--HHHhcCChhhHHHHHHHHHHCCCCCCHH-HHH---HHHHHHHhc
Q 038109          148 LTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLT--AYCFKGNLTATSGVLKKMEEEKLGADAR-TYD---ALVLGACRA  221 (324)
Q Consensus       148 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~---~li~~~~~~  221 (324)
                      +.-.|+.+....++..+....   +..+...+.-  ++...|+.+.+..+.+.+...   .+.. -|.   ++..+|+..
T Consensus       500 ~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~---~dp~vRygaa~alglAyaGT  573 (963)
T 4ady_A          500 MLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQELADDLITKMLAS---DESLLRYGGAFTIALAYAGT  573 (963)
T ss_dssp             HTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTS
T ss_pred             hcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCC
Confidence            446677777777777766542   2333333333  344678889998888888764   2322 222   344567788


Q ss_pred             CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCH-HHHHHH
Q 038109          222 GRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERF-NEANFI  300 (324)
Q Consensus       222 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~  300 (324)
                      |+.....++++.+.... ..+......+.-++...|+.+.+.+++..+.+.+ .|....-..+.-+....|+. .++.++
T Consensus       574 Gn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~  651 (963)
T 4ady_A          574 GNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDV  651 (963)
T ss_dssp             CCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHH
T ss_pred             CCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHH
Confidence            99887777888887652 2233322223334445666666677766555543 44554444444555555443 567777


Q ss_pred             HHHHH
Q 038109          301 LKEMN  305 (324)
Q Consensus       301 ~~~m~  305 (324)
                      +..+.
T Consensus       652 L~~L~  656 (963)
T 4ady_A          652 LDPLT  656 (963)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            77774

>2ion_A PDCD4, programmed cell death 4, PDCD4; alpha-helical, antitumor protein; 1.57A {Mus musculus} SCOP: a.118.1.14 PDB: 2ios_A 2iol_A

Probab=88.12  E-value=2.9  Score=29.59  Aligned_cols=25  Identities=24%  Similarity=0.236  Sum_probs=14.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          211 YDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       211 ~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      ...++.-|...|+.++|.+.++++.
T Consensus        12 i~~lL~EY~~~~D~~EA~~cl~EL~   36 (152)
T 2ion_A           12 IDMLLKEYLLSGDISEAEHCLKELE   36 (152)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhC
Confidence            4445555555566666666655553

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.26  E-value=2.7  Score=32.85  Aligned_cols=52  Identities=12%  Similarity=0.208  Sum_probs=24.1

Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 038109          149 TRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEE  201 (324)
Q Consensus       149 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  201 (324)
                      .+.|++++++.....-.+.. +.|...-..++..+|-.|+++.|.+-++...+
T Consensus         8 l~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~   59 (273)
T 1zbp_A            8 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK   59 (273)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            34445555554444444432 22444444455555555555555544444443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=86.50  E-value=3.6  Score=29.52  Aligned_cols=119  Identities=10%  Similarity=-0.047  Sum_probs=63.5

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHC-CCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcCHH-H
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEE-KLGADA-------RTYDALVLGACRAGRVEEAFVLLRRMVDD-GQSVLYS-T  245 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~-~  245 (324)
                      +-.-+..+...|.++.|.-+.+.+... +..|+.       .++..+.+++...|++..|...|++..+. ..-|... +
T Consensus        23 l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~  102 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKV  102 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC------
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence            334466677778888887777665432 112331       24566667777888888888888775432 1111111 1


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhC
Q 038109          246 YAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKR  307 (324)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  307 (324)
                      ...+ .   .......         ......+...--.+..+|.+.|++++|+.+++.+..+
T Consensus       103 ~~~~-~---~~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          103 RPST-G---NSASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             ---------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             cccc-c---ccCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            1101 0   0000000         0011224445455788888999999999998876443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.10  E-value=15  Score=31.29  Aligned_cols=256  Identities=13%  Similarity=0.050  Sum_probs=141.7

Q ss_pred             CCHHHHHHHHHHHHhc-----CCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCC-CCHHHHHHH----HHHHHccCC
Q 038109           49 RDLETVRYLLNKRARD-----CCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGF-PRKSAYDTL----IGRLCKLKK  118 (324)
Q Consensus        49 ~~~~~a~~~~~~m~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~l----i~~~~~~~~  118 (324)
                      ++++.|.+.+..+.+.     +...+......++..|...++++...+.+..+.+.. .-..+...+    +........
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            6788888877666542     233445567778889999999999888777664322 122222333    333333333


Q ss_pred             HHH--HHHHHHHHHh--CC-CCC---ChhhHHHHHHHHHccCcHHHHHHHHHHHHhC--CCCCC---HHHHHHHHHHHHh
Q 038109          119 IDE--ALRVVDIMAE--GG-FGL---SAITFHPILSVLTRGKRMEEAWGLMEVMKEI--RVSPD---LTAYNYLLTAYCF  185 (324)
Q Consensus       119 ~~~--a~~~~~~m~~--~g-~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~---~~~~~~li~~~~~  185 (324)
                      .+.  -..+.+....  .| +-.   .......|...+...|++.+|.+++..+...  |..+.   ...+...++.|..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~  189 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSIL  189 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            322  2222222111  11 111   1223356778888899999999999987642  22211   4567788899999


Q ss_pred             cCChhhHHHHHHHHHH----CCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcCHHHHHHHH----HHHH
Q 038109          186 KGNLTATSGVLKKMEE----EKLGAD--ARTYDALVLGACRAGRVEEAFVLLRRMVDD-GQSVLYSTYAHVM----GALL  254 (324)
Q Consensus       186 ~~~~~~a~~~~~~m~~----~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li----~~~~  254 (324)
                      .+++..|..++.+...    ....|+  ..-+...+..+...+++.+|.+.|.+.... ...-+...+..++    ....
T Consensus       190 ~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~i  269 (445)
T 4b4t_P          190 KGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLV  269 (445)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHH
Confidence            9999999999988642    222222  245667777788899999998888776542 1111222111111    1111


Q ss_pred             hcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCc--CCHHHHHHHHHHH
Q 038109          255 RLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGL--ERFNEANFILKEM  304 (324)
Q Consensus       255 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~a~~~~~~m  304 (324)
                      -.+....-..++.........++...|..++.+|...  .+++.+.+.|...
T Consensus       270 La~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~  321 (445)
T 4b4t_P          270 LSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPV  321 (445)
T ss_dssp             HSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSS
T ss_pred             hCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHHHH
Confidence            1111111111111111111124667788888888643  5566666666543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=85.61  E-value=0.018  Score=49.05  Aligned_cols=213  Identities=8%  Similarity=0.109  Sum_probs=122.7

Q ss_pred             CchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 038109           69 TANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVL  148 (324)
Q Consensus        69 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  148 (324)
                      .+..|..|..+..+.+.+.+|.+.|-+.    .|...|..+|.+..+.|.+++-.+.+...++..-.|  ..=+.|+-+|
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA----~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ay  126 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA----DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFAL  126 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC----SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC----CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHH
Confidence            3455667777777777666665543322    233456677777777777777777776655543323  3335677777


Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC--------------------CCCCH
Q 038109          149 TRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEK--------------------LGADA  208 (324)
Q Consensus       149 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------------------~~~~~  208 (324)
                      ++.++..+.++++.       .||..-...+.+-|...|.++.|.-+|..+....                    -.-++
T Consensus       127 Ak~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~  199 (624)
T 3lvg_A          127 AKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANST  199 (624)
T ss_dssp             HTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSS
T ss_pred             HhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCCh
Confidence            77777655443332       2555555566666666666666665554432111                    01255


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHH
Q 038109          209 RTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKL  288 (324)
Q Consensus       209 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  288 (324)
                      .||-.+-.+|...+++.-|.-.--.+.-.   |+  -...++..|...|.+++-..+++...... ......|+-|.-.|
T Consensus       200 ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILY  273 (624)
T 3lvg_A          200 RTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILY  273 (624)
T ss_dssp             CSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHH
Confidence            67777777777777776665544443321   11  12235566777777777777777666432 34566777777777


Q ss_pred             hCcCCHHHHHHHH
Q 038109          289 IGLERFNEANFIL  301 (324)
Q Consensus       289 ~~~g~~~~a~~~~  301 (324)
                      ++- +.++.++.+
T Consensus       274 sKY-~PeKlmEHl  285 (624)
T 3lvg_A          274 SKF-KPQKMREHL  285 (624)
T ss_dssp             HSS-CTTHHHHHH
T ss_pred             Hhc-CHHHHHHHH
Confidence            653 344444443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=85.28  E-value=25  Score=34.13  Aligned_cols=186  Identities=12%  Similarity=0.058  Sum_probs=109.9

Q ss_pred             hhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC-------------------
Q 038109           76 ITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGL-------------------  136 (324)
Q Consensus        76 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~-------------------  136 (324)
                      ++..+...+..+.+.++.....   .+...--.+..+|...|++++|.+.|++... |+..                   
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~~---~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~~  893 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWLN---SDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKYH  893 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHSC---CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTTT
T ss_pred             HHHHHHHhhhHHHHHHHhhhcc---CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccccccc
Confidence            3444444555555544333221   1333334566788889999999999976521 1111                   


Q ss_pred             ----ChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCC--CC--HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCH
Q 038109          137 ----SAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVS--PD--LTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADA  208 (324)
Q Consensus       137 ----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~  208 (324)
                          -..=|.-++..+-+.+.++.+.++-....+....  ++  ...|..+.+++...|++++|...+-.+.....  -.
T Consensus       894 ~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~  971 (1139)
T 4fhn_B          894 HQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KK  971 (1139)
T ss_dssp             SCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CH
T ss_pred             ccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HH
Confidence                1123566777788888888888777665543221  11  23578899999999999999999988876543  34


Q ss_pred             HHHHHHHHHHHhcCCHH------------HHHHHHHHHHHC----CCCcCHHHHHHHHHHHHhcCCHHHH-HHHHHHh
Q 038109          209 RTYDALVLGACRAGRVE------------EAFVLLRRMVDD----GQSVLYSTYAHVMGALLRLGYYAQA-VKFVMVC  269 (324)
Q Consensus       209 ~~~~~li~~~~~~g~~~------------~a~~~~~~m~~~----~~~p~~~~~~~li~~~~~~g~~~~a-~~~~~~~  269 (324)
                      .....|+..+|..|..+            +..+++....+.    ...|  .-|..|-.-+...|++..| .-+|+.+
T Consensus       972 ~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p--~Yy~iLYs~ri~r~dyR~AA~vmYe~~ 1047 (1139)
T 4fhn_B          972 SCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQP--CWYNILFSWRYKHQNYRDAAAIIYEKL 1047 (1139)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCST--HHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCC--CHHHHhHhhhhccCChHHHHHHHHHHH
Confidence            56667777777666544            444444332211    1122  2345455556667777654 4444444

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=84.30  E-value=9.2  Score=32.43  Aligned_cols=61  Identities=5%  Similarity=-0.059  Sum_probs=31.9

Q ss_pred             hHHHHHHHHHccCcHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 038109          140 TFHPILSVLTRGKRMEEAWGLMEVMKEIR--VSPDLTAYNYLLTAYCFKGNLTATSGVLKKME  200 (324)
Q Consensus       140 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  200 (324)
                      +...+...|.+.|++++|.+.+.++...-  ...-...+-.+++.+...+++..+...+.+..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            44455555556666666666665555421  12223445555555555566665555555443

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=83.81  E-value=5.9  Score=27.96  Aligned_cols=59  Identities=14%  Similarity=0.117  Sum_probs=42.7

Q ss_pred             HHHHHHHhCCCCCCc-CHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCchhHHHHHHHh
Q 038109          262 AVKFVMVCGGRDIKL-DTELFGSLGSKLIGLERFNEANFILKEMNKRDLKMGFKLRDYYE  320 (324)
Q Consensus       262 a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~  320 (324)
                      +..+|..|...|+-. -...|......+...|++.+|.++|+.-.+++-.|-..+...|.
T Consensus        84 p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P~~rL~~~~~  143 (152)
T 4a1g_A           84 LHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEPREFLQQQYR  143 (152)
T ss_dssp             HHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccHHHHHHHHH
Confidence            667777776666543 35566777777778888888888888888888888777766554

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.59  E-value=11  Score=31.89  Aligned_cols=96  Identities=9%  Similarity=-0.065  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC--CChhhHHHHHHHHHccCcHHHHHHHHHHHHh---CCCCCCHH----H
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFG--LSAITFHPILSVLTRGKRMEEAWGLMEVMKE---IRVSPDLT----A  175 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~----~  175 (324)
                      +...+...|.+.|+++.|.+.|.++......  --...+-.+++.+...+++..+...+.+...   .+..|+..    .
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            6678899999999999999999999874333  2356778888999999999999999888653   23333322    2


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          176 YNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       176 ~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      |..  ..+...+++..|...|-+....
T Consensus       213 ~~g--l~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          213 YYG--IHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHH--HGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHH--HHHHHhChHHHHHHHHHHHhcc
Confidence            222  2234578899998888776543

>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=82.51  E-value=20  Score=29.90  Aligned_cols=163  Identities=7%  Similarity=-0.117  Sum_probs=74.2

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHhc-CCCCCc---hhhHhhhhchhhh-hhHHHHHHH----HHHHhcCCCCH---H
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRARD-CCFNTA---NTFNFITNTENSL-SVLSDLCRT----LARLDKGFPRK---S  104 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~---~~~~~l~~~~~~~-~~~~~a~~~----~~~~~~~~p~~---~  104 (324)
                      ....|...+.+.|+.++..+++.....- +..|-+   .....++..+... +..+.-.++    ++.........   .
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~~  100 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQS  100 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666777777777777777665431 111111   1233334433332 111111111    12111110100   0


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-----hhhHHHHHHHHHccCcHHHHHHHHHHHHhC--CCCCCHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLS-----AITFHPILSVLTRGKRMEEAWGLMEVMKEI--RVSPDLTAYN  177 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~  177 (324)
                      .=..++..|...|++.+|.+++.++.+.=-..|     ..+|..-++.|...++..++...+......  .+.+++....
T Consensus       101 l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a  180 (394)
T 3txn_A          101 LEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQG  180 (394)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHH
Confidence            112456666677777777666666665211111     233444555566666666666666654432  1222322221


Q ss_pred             H----HHHHHH-hcCChhhHHHHHHHH
Q 038109          178 Y----LLTAYC-FKGNLTATSGVLKKM  199 (324)
Q Consensus       178 ~----li~~~~-~~~~~~~a~~~~~~m  199 (324)
                      .    -...+. ..++|..|...|-+.
T Consensus       181 ~i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          181 ALDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHhccCHHHHHHHHHHH
Confidence            1    112233 566666666655443

>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=81.45  E-value=14  Score=27.41  Aligned_cols=53  Identities=11%  Similarity=0.136  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc
Q 038109          224 VEEAFVLLRRMVDDGQSVL-YSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL  276 (324)
Q Consensus       224 ~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (324)
                      ..++.++|..|...|+--. ..-|......+...|++.+|..+|+...+.+-.|
T Consensus        95 ~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           95 FHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             HHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             cCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            4455555555554443221 2334444444445555555555555544444333

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=81.23  E-value=6.1  Score=30.93  Aligned_cols=55  Identities=11%  Similarity=0.014  Sum_probs=31.7

Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhC
Q 038109          112 RLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEI  167 (324)
Q Consensus       112 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  167 (324)
                      ...+.|++++|++....-++... -|...-..+++.+|-.|+++.|..-++...+.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P-~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            34455666666666655555432 25555556666666666666666666555543

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens}

Probab=80.55  E-value=2.9  Score=31.57  Aligned_cols=47  Identities=9%  Similarity=-0.144  Sum_probs=21.6

Q ss_pred             HHhcCCCHHHHHHHHHHHHhcCCCCCch--hhHhhhhchhhhhhHHHHHHHHH
Q 038109           44 AAGHERDLETVRYLLNKRARDCCFNTAN--TFNFITNTENSLSVLSDLCRTLA   94 (324)
Q Consensus        44 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~   94 (324)
                      ..++.|+++.+..++    +.|..++..  .-...+...+..|+.+-+..+++
T Consensus        15 ~A~~~g~~~~~~~Ll----~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~   63 (240)
T 3eu9_A           15 KATQYGIYERCRELV----EAGYDVRQPDKENVTLLHWAAINNRIDLVKYYIS   63 (240)
T ss_dssp             HHHHTTCHHHHHHHH----HTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHcCChHHHHHHH----HcCCCcCCCCCCCCCHHHHHHHhCCHHHHHHHHH
Confidence            345666665554444    344433321  11223444455566555544444

---

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	324
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.86
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.79
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.67
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.64
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.36
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.33
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.28
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.27
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.27
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.19
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.19
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.08
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.0
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.94
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.8
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.76
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.72
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.69
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.59
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.54
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.52
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.51
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.47
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.46
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.32
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.31
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.25
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.24
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.24
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.23
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.21
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.12
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.12
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.1
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.01
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.01
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.01
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.94
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.92
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.9
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.86
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.85
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.8
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.74
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.73
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.64
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.63
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.62
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.58
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.2
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.16
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.04
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.81
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.79
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.49
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.67
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.79
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.65
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.0
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.7
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.51
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	90.64
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	89.94

>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=99.86  E-value=1.9e-18  Score=144.27  Aligned_cols=292  Identities=12%  Similarity=-0.029  Sum_probs=242.3

Q ss_pred             CCCCccchhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhH
Q 038109            7 LPTKFLIPQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVL   86 (324)
Q Consensus         7 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~   86 (324)
                      .-+.|++++|...+.......+    -++..+..+...+.+.|++++|.+.+++..+.. +.+..++..+..++.+.|++
T Consensus         9 ~~~~G~~~~A~~~~~~~l~~~p----~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           9 EYQAGDFEAAERHCMQLWRQEP----DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            3456888999998888766551    246678888899999999999999999998763 44567889999999999999


Q ss_pred             HHHHHHHHHHhcCC------------------------------------------------------------------
Q 038109           87 SDLCRTLARLDKGF------------------------------------------------------------------  100 (324)
Q Consensus        87 ~~a~~~~~~~~~~~------------------------------------------------------------------  100 (324)
                      ++|...+....+..                                                                  
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhc
Confidence            99998877543221                                                                  


Q ss_pred             --C-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHH
Q 038109          101 --P-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYN  177 (324)
Q Consensus       101 --p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  177 (324)
                        | +...+..+...+...|++++|...+++..+... -+..++..+...+...|++++|...++.....+. .+...+.
T Consensus       164 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~  241 (388)
T d1w3ba_         164 TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHG  241 (388)
T ss_dssp             HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHH
T ss_pred             cCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCc-ccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHH
Confidence              1 233556667788889999999999999887532 2567888899999999999999999999887653 4677788


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLG  257 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  257 (324)
                      .+...+.+.|++++|...|++..+..+. +..++..+...+...|++++|.+.++...... +.+...+..+...+...|
T Consensus       242 ~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         242 NLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCC
Confidence            8999999999999999999999887655 68899999999999999999999999887653 456778888899999999


Q ss_pred             CHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          258 YYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       258 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      ++++|...+++..+..+. +...+..+...|.+.|++++|.+.|++..+.+
T Consensus       320 ~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~  369 (388)
T d1w3ba_         320 NIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             CHHHHHHHHHHHTTSCTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999886433 67788899999999999999999999987643

>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=99.79  E-value=2.6e-16  Score=131.05  Aligned_cols=263  Identities=13%  Similarity=0.012  Sum_probs=217.5

Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCH
Q 038109           41 LVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKI  119 (324)
Q Consensus        41 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~  119 (324)
                      +...+.+.|++++|.+.++++.+.. +-++..+..+..++.+.|++++|...++++.+..| +..+|..+...|.+.|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccc
Confidence            3455678899999999999998763 44567888999999999999999999999987777 466999999999999999


Q ss_pred             HHHHHHHHHHHhCCCC----------------------------------------------------------------
Q 038109          120 DEALRVVDIMAEGGFG----------------------------------------------------------------  135 (324)
Q Consensus       120 ~~a~~~~~~m~~~g~~----------------------------------------------------------------  135 (324)
                      ++|+..+....+....                                                                
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhc
Confidence            9999998877653221                                                                


Q ss_pred             ---CChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHH
Q 038109          136 ---LSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYD  212 (324)
Q Consensus       136 ---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  212 (324)
                         -+...+..+...+...|+.++|...++...+.. +-+...+..+...+...|++++|...++.....+.. +...+.
T Consensus       164 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~  241 (388)
T d1w3ba_         164 TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHG  241 (388)
T ss_dssp             HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             cCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-HHHHHH
Confidence               112344555566777889999999999887754 235678888999999999999999999998887654 778888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcC
Q 038109          213 ALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLE  292 (324)
Q Consensus       213 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  292 (324)
                      .+...+.+.|++++|...|++..+.. +-+..++..+...+...|++++|...++...... +.+...+..+...+.+.|
T Consensus       242 ~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         242 NLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCC
Confidence            89999999999999999999988653 2346778888999999999999999998887764 457788889999999999


Q ss_pred             CHHHHHHHHHHHHhCC
Q 038109          293 RFNEANFILKEMNKRD  308 (324)
Q Consensus       293 ~~~~a~~~~~~m~~~~  308 (324)
                      ++++|.+.+++..+..
T Consensus       320 ~~~~A~~~~~~al~~~  335 (388)
T d1w3ba_         320 NIEEAVRLYRKALEVF  335 (388)
T ss_dssp             CHHHHHHHHHHHTTSC
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            9999999999987543

>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=99.67  E-value=2.5e-14  Score=116.51  Aligned_cols=255  Identities=13%  Similarity=0.042  Sum_probs=193.4

Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCH
Q 038109           41 LVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKI  119 (324)
Q Consensus        41 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~  119 (324)
                      .-..+.+.|++++|.+.|+..++.. +.+..+|..+..++...|++++|...+.+..+..| +...|..+...|...|++
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccccccc
Confidence            3445789999999999999999863 44568899999999999999999999999877777 566899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCC-C-------------hhhHHHHHHHHHccCcHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHH
Q 038109          120 DEALRVVDIMAEGGFGL-S-------------AITFHPILSVLTRGKRMEEAWGLMEVMKEIR-VSPDLTAYNYLLTAYC  184 (324)
Q Consensus       120 ~~a~~~~~~m~~~g~~~-~-------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~  184 (324)
                      ++|.+.+++........ .             .......+..+...+...++...+.+..+.. -.++..++..+...+.
T Consensus       104 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~  183 (323)
T d1fcha_         104 RQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFN  183 (323)
T ss_dssp             HHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHH
T ss_pred             cccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHH
Confidence            99999999987643210 0             0011112223344566788888888776543 2345778888899999


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVK  264 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  264 (324)
                      ..|++++|...|++.....+. +...|..+...|.+.|++++|.+.|++..+.. +-+..++..+..+|.+.|++++|..
T Consensus       184 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~  261 (323)
T d1fcha_         184 LSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVE  261 (323)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999999998877554 68889999999999999999999999988653 1246678889999999999999999


Q ss_pred             HHHHhCCCC----------CCcCHhHHHHHHHHHhCcCCHHHHH
Q 038109          265 FVMVCGGRD----------IKLDTELFGSLGSKLIGLERFNEAN  298 (324)
Q Consensus       265 ~~~~~~~~~----------~~~~~~~~~~l~~~~~~~g~~~~a~  298 (324)
                      .|++..+..          .......|..+-.++...|+.+.+.
T Consensus       262 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         262 HFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            998775421          1112334555555665556655443

>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=99.64  E-value=6.6e-14  Score=113.96  Aligned_cols=229  Identities=11%  Similarity=-0.068  Sum_probs=183.3

Q ss_pred             hhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCc
Q 038109           75 FITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKR  153 (324)
Q Consensus        75 ~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~  153 (324)
                      .....+.+.|++++|...|+++.+..| +..+|..+...+...|++++|...|++..+... -+...+..+...+...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc-cccccccccccccccccc
Confidence            456678899999999999999988888 467999999999999999999999999987543 257788888999999999


Q ss_pred             HHHHHHHHHHHHhCCCCC--------------CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCC-CCCHHHHHHHHHHH
Q 038109          154 MEEAWGLMEVMKEIRVSP--------------DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKL-GADARTYDALVLGA  218 (324)
Q Consensus       154 ~~~a~~~~~~m~~~~~~~--------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~  218 (324)
                      +++|.+.++.........              +.......+..+...+.+.+|...|.+..+... .++...+..+...+
T Consensus       103 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~  182 (323)
T d1fcha_         103 QRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLF  182 (323)
T ss_dssp             HHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHH
Confidence            999999999987653210              011111223344455677888888888776433 34678888899999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHH
Q 038109          219 CRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEAN  298 (324)
Q Consensus       219 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  298 (324)
                      ...|++++|...|++...... -+..+|..+...+...|++++|...++...+... -+...|..+..+|.+.|++++|+
T Consensus       183 ~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~  260 (323)
T d1fcha_         183 NLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISCINLGAHREAV  260 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHHHHHhh-ccHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999999999876532 3467788888999999999999999998877542 26778889999999999999999


Q ss_pred             HHHHHHHh
Q 038109          299 FILKEMNK  306 (324)
Q Consensus       299 ~~~~~m~~  306 (324)
                      +.|++..+
T Consensus       261 ~~~~~al~  268 (323)
T d1fcha_         261 EHFLEALN  268 (323)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998764

>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=99.36  E-value=2.9e-10  Score=91.43  Aligned_cols=185  Identities=9%  Similarity=0.003  Sum_probs=93.9

Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHH
Q 038109          119 IDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKK  198 (324)
Q Consensus       119 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  198 (324)
                      .++|..+|++..+...+-+...|...+....+.|+.+.|..+|+.+.+........+|...+..+.+.|+++.|.++|++
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            34555555555544333334445555555555566666666666655543222233455555555566666666666666


Q ss_pred             HHHCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCC-CCc
Q 038109          199 MEEEKLGADARTYDALVLG-ACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRD-IKL  276 (324)
Q Consensus       199 m~~~~~~~~~~~~~~li~~-~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~  276 (324)
                      ..+.+.. +...|...... +...|+.+.|..+|+.+.+. .+.+...+...+..+.+.|+++.|..+|+...... ..|
T Consensus       160 al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~  237 (308)
T d2onda1         160 AREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCh
Confidence            5554433 22233222221 23345566666666655543 12234455555555566666666666665554332 122


Q ss_pred             C--HhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          277 D--TELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       277 ~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      +  ...|...+..-.+.|+.+.+.++.+++.
T Consensus       238 ~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         238 EKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            2  2345555555555566666666666553

>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=99.33  E-value=1.4e-09  Score=87.36  Aligned_cols=217  Identities=8%  Similarity=-0.026  Sum_probs=162.5

Q ss_pred             HHHHHHHHHHHhcCCCCCchhhHhhhhch--------------hhhhhHHHHHHHHHHHhcC-CC-CHHHHHHHHHHHHc
Q 038109           52 ETVRYLLNKRARDCCFNTANTFNFITNTE--------------NSLSVLSDLCRTLARLDKG-FP-RKSAYDTLIGRLCK  115 (324)
Q Consensus        52 ~~a~~~~~~m~~~~~~~~~~~~~~l~~~~--------------~~~~~~~~a~~~~~~~~~~-~p-~~~~~~~li~~~~~  115 (324)
                      +++..+|++++.. ++.++..|..-+..+              ...+..+++..++++..+. .| +...|...+..+.+
T Consensus        33 ~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          33 KRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            4455566666554 344445554443332              3445668899999988764 35 45688888999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCChhhHHH
Q 038109          116 LKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTA-YCFKGNLTATSG  194 (324)
Q Consensus       116 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~~~~~~a~~  194 (324)
                      .|+.+.|..+|+++.+........+|...+..+.+.|+.+.|.++|+...+.+.. +...|...... +...|+.+.|..
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~  190 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHH
Confidence            9999999999999987544333457889999999999999999999999887543 33444333333 345689999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHhCC
Q 038109          195 VLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDG-QSVL--YSTYAHVMGALLRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       195 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (324)
                      +|+.+.+..+. +...|...+..+.+.|+.+.|..+|++..+.. ..|.  ...|...+.--...|+.+.+..+++++.+
T Consensus       191 i~e~~l~~~p~-~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         191 IFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999987444 78899999999999999999999999987753 4443  45677778777788999999999887644

>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=3e-09  Score=86.46  Aligned_cols=264  Identities=12%  Similarity=0.018  Sum_probs=189.3

Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHhcCCCCC-----chhhHhhhhchhhhhhHHHHHHHHHHHhcC---CCCH----HHHHH
Q 038109           41 LVNAAGHERDLETVRYLLNKRARDCCFNT-----ANTFNFITNTENSLSVLSDLCRTLARLDKG---FPRK----SAYDT  108 (324)
Q Consensus        41 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~p~~----~~~~~  108 (324)
                      ....+...|++++|.+++++.++.. +.+     ...+..+..++...|++++|...+++..+.   .++.    .++..
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   96 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQ   96 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence            3455678999999999999988752 222     235667788899999999999999987432   2222    25677


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHh----CCCCCC---hhhHHHHHHHHHccCcHHHHHHHHHHHHhCC----CCCCHHHHH
Q 038109          109 LIGRLCKLKKIDEALRVVDIMAE----GGFGLS---AITFHPILSVLTRGKRMEEAWGLMEVMKEIR----VSPDLTAYN  177 (324)
Q Consensus       109 li~~~~~~~~~~~a~~~~~~m~~----~g~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~~~~  177 (324)
                      +...+...|++..+...+.+...    .+....   ...+..+...+...|+++.+...+.......    .......+.
T Consensus        97 ~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  176 (366)
T d1hz4a_          97 QSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLA  176 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHH
Confidence            78889999999999999987654    222211   2345566677889999999999998876542    223345666


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHC----CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC---cCHHHHHH
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEE----KLGA--DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQS---VLYSTYAH  248 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~----~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~---p~~~~~~~  248 (324)
                      .....+...+++..+...+.+....    +..+  ....+..+...+...|++++|...++........   .....+..
T Consensus       177 ~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  256 (366)
T d1hz4a_         177 MLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRN  256 (366)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHH
Confidence            6777788899999998888765532    1111  1234566677788999999999999876644221   22445566


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhCC----CCCCc-CHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          249 VMGALLRLGYYAQAVKFVMVCGG----RDIKL-DTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      +..++...|++++|...++....    .+..| ....+..+...|.+.|++++|.+.+++..
T Consensus       257 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al  318 (366)
T d1hz4a_         257 IARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDAL  318 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            78889999999999999877642    23333 34567778889999999999999998764

>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=99.27  E-value=4.9e-10  Score=90.27  Aligned_cols=195  Identities=11%  Similarity=0.020  Sum_probs=109.4

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhh-hHHHHHHHHHHHhcCCC-CHHHHHHHHHHHH
Q 038109           37 YYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLS-VLSDLCRTLARLDKGFP-RKSAYDTLIGRLC  114 (324)
Q Consensus        37 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~  114 (324)
                      .|+.+-..+.+.+.+++|+++++++++.+ |-+...|+....++...| ++++|...++...+..| +..+|+.+...+.
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHH
Confidence            34444445556666677777777766642 333345555555555554 36666666666655555 3446666666666


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC------
Q 038109          115 KLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGN------  188 (324)
Q Consensus       115 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~------  188 (324)
                      +.|++++|++.++++.+.... +..+|..+...+.+.|++++|...++...+... .+...|+.+...+.+.+.      
T Consensus       124 ~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~~~~~~~  201 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRAV  201 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             hhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccccchhhh
Confidence            666666666666666654222 455666666666666666666666666666432 245555555555554444      


Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          189 LTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       189 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      +++|.+.+....+..+. +...|+.+...+.. ...+++.+.++...+
T Consensus       202 ~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~  247 (315)
T d2h6fa1         202 LEREVQYTLEMIKLVPH-NESAWNYLKGILQD-RGLSKYPNLLNQLLD  247 (315)
T ss_dssp             HHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTT-TCGGGCHHHHHHHHH
T ss_pred             hHHhHHHHHHHHHhCCC-chHHHHHHHHHHHh-cChHHHHHHHHHHHH
Confidence            34555555555554433 55555555444333 234555555555443

>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=99.27  E-value=7.6e-10  Score=89.14  Aligned_cols=232  Identities=7%  Similarity=-0.021  Sum_probs=176.9

Q ss_pred             hhhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccC-CHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 038109           71 NTFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLK-KIDEALRVVDIMAEGGFGLSAITFHPILSVL  148 (324)
Q Consensus        71 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  148 (324)
                      ..++.+...+.+.+..++|.+.++++.+..| +..+|+....++...| ++++|+..+++..+.... +..+|..+...+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHHH
Confidence            4455566667778889999999999988888 4668999988888876 599999999999886443 688899999999


Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-----
Q 038109          149 TRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGR-----  223 (324)
Q Consensus       149 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~-----  223 (324)
                      .+.|++++|...++.+.+... .+...|..+...+.+.|++++|...++.+.+.++. +...|+.+...+.+.+.     
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp-~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~~  200 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRA  200 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HhhccHHHHHHHHhhhhhhhh-cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchhh
Confidence            999999999999999998653 37899999999999999999999999999998766 78889888777776665     


Q ss_pred             -HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCC-cCHhHHHHHHHHHhCc---------C
Q 038109          224 -VEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIK-LDTELFGSLGSKLIGL---------E  292 (324)
Q Consensus       224 -~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~---------g  292 (324)
                       +++|.+.+....+... -+...|..+...+. ....+++...++...+.... .+...+..++..|...         .
T Consensus       201 ~~~~ai~~~~~al~~~P-~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~  278 (315)
T d2h6fa1         201 VLEREVQYTLEMIKLVP-HNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  278 (315)
T ss_dssp             HHHHHHHHHHHHHHHST-TCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             hhHHhHHHHHHHHHhCC-CchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHH
Confidence             5788888888776532 34555655554444 44456666666655443222 2455666667666432         4


Q ss_pred             CHHHHHHHHHHHHhC
Q 038109          293 RFNEANFILKEMNKR  307 (324)
Q Consensus       293 ~~~~a~~~~~~m~~~  307 (324)
                      .+++|.++++.+...
T Consensus       279 ~~~ka~~l~~~l~~~  293 (315)
T d2h6fa1         279 ILNKALELCEILAKE  293 (315)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHh
Confidence            577888888876543

>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=99.19  E-value=7.6e-10  Score=86.38  Aligned_cols=128  Identities=13%  Similarity=-0.066  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      +|..+...|.+.|++++|++.|++..+.... +..+|..+..++.+.|++++|...|++..+... -+..++..+..+|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHHHHH
Confidence            4555566666666666666666666653221 455566666666666666666666666665432 13445555666666


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      ..|++++|...|+...+..+. +......+..++.+.+..+.+..+.....
T Consensus       117 ~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFE  166 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence            666666666666666554332 33333333344444444444444444433

>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=99.19  E-value=3.5e-10  Score=92.03  Aligned_cols=260  Identities=10%  Similarity=-0.061  Sum_probs=187.8

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCch-hhH----------hhhhchhhhhhHHHHHHHHHHHhcCCC-CHHH
Q 038109           38 YDDLVNAAGHERDLETVRYLLNKRARDCCFNTAN-TFN----------FITNTENSLSVLSDLCRTLARLDKGFP-RKSA  105 (324)
Q Consensus        38 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~----------~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~  105 (324)
                      ++.++......+..++|+++++..++.  .|+.. .|+          .....+...|.+++|..+++.+.+..| +...
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~  109 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGT  109 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHH
Confidence            344444334444558999999999874  46653 332          223345667789999999999877777 5667


Q ss_pred             HHHHHHHHHccC--CHHHHHHHHHHHHhCCCCCChhhHH-HHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 038109          106 YDTLIGRLCKLK--KIDEALRVVDIMAEGGFGLSAITFH-PILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTA  182 (324)
Q Consensus       106 ~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~~~~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  182 (324)
                      |..+..++...+  ++++|...++++.+... ++...+. .....+...+..++|...++...+... -+...|+.+...
T Consensus       110 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~~  187 (334)
T d1dcea1         110 WHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCL  187 (334)
T ss_dssp             HHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHH
T ss_pred             HHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHHH
Confidence            887777776665  58999999999988533 2455544 444667778999999999999888764 378889999999


Q ss_pred             HHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 038109          183 YCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQA  262 (324)
Q Consensus       183 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  262 (324)
                      +.+.|++++|...++...+.  .|+   .......+...+..+++...+........ ++...+..+...+...|+.++|
T Consensus       188 ~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~-~~~~~~~~l~~~~~~~~~~~~a  261 (334)
T d1dcea1         188 LPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRA-EPLFRCELSVEKSTVLQSELES  261 (334)
T ss_dssp             HHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCSSSCCCCHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCc-chhhHHHHHHHHHHHHhhHHHH
Confidence            99999998886665543332  111   12233445566777788888887766532 4444555667778888999999


Q ss_pred             HHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCC
Q 038109          263 VKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRD  308 (324)
Q Consensus       263 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  308 (324)
                      ...+.+.....+ -+...+..+...|.+.|+.++|.+.+++..+.+
T Consensus       262 ~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld  306 (334)
T d1dcea1         262 CKELQELEPENK-WCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  306 (334)
T ss_dssp             HHHHHHHCTTCH-HHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhhCc-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            999999888753 367788889999999999999999999987654

>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=99.08  E-value=1.5e-09  Score=84.72  Aligned_cols=95  Identities=14%  Similarity=-0.071  Sum_probs=50.5

Q ss_pred             hhHhhhhchhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 038109           72 TFNFITNTENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR  150 (324)
Q Consensus        72 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  150 (324)
                      ++..+..+|.+.|++++|...|++..+..| +..+|+.+..+|.+.|++++|++.|++..+.... +..++..+...+..
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHHHH
Confidence            444445555555555555555555544444 3345555555555555555555555555553221 33445555555555


Q ss_pred             cCcHHHHHHHHHHHHhC
Q 038109          151 GKRMEEAWGLMEVMKEI  167 (324)
Q Consensus       151 ~~~~~~a~~~~~~m~~~  167 (324)
                      .|++++|...++...+.
T Consensus       118 ~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHhh
Confidence            55555555555555543

>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=99.00  E-value=2.9e-07  Score=74.30  Aligned_cols=239  Identities=12%  Similarity=0.035  Sum_probs=172.4

Q ss_pred             hhhhchhhhhhHHHHHHHHHHHhcCCCC------HHHHHHHHHHHHccCCHHHHHHHHHHHHhCC----CCC-ChhhHHH
Q 038109           75 FITNTENSLSVLSDLCRTLARLDKGFPR------KSAYDTLIGRLCKLKKIDEALRVVDIMAEGG----FGL-SAITFHP  143 (324)
Q Consensus        75 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g----~~~-~~~~~~~  143 (324)
                      .....+...|++++|.+.+++..+..|+      ..++..+...|...|++++|+..|++..+..    ..+ ...++..
T Consensus        17 lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   96 (366)
T d1hz4a_          17 LRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQ   96 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence            3456678899999999999998666653      2367788899999999999999999887521    111 1345566


Q ss_pred             HHHHHHccCcHHHHHHHHHHHHh----CCCCC---CHHHHHHHHHHHHhcCChhhHHHHHHHHHHC----CCCCCHHHHH
Q 038109          144 ILSVLTRGKRMEEAWGLMEVMKE----IRVSP---DLTAYNYLLTAYCFKGNLTATSGVLKKMEEE----KLGADARTYD  212 (324)
Q Consensus       144 li~~~~~~~~~~~a~~~~~~m~~----~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~~  212 (324)
                      +...+...|++..+...+.....    .+..+   ....+..+...+...|+++.+...+......    +.......+.
T Consensus        97 ~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  176 (366)
T d1hz4a_          97 QSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLA  176 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHH
Confidence            67788899999999998887653    22211   1235566778899999999999999887653    2223456667


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC----CCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCc---CHhHHHH
Q 038109          213 ALVLGACRAGRVEEAFVLLRRMVDD----GQSV--LYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKL---DTELFGS  283 (324)
Q Consensus       213 ~li~~~~~~g~~~~a~~~~~~m~~~----~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~  283 (324)
                      .....+...++..++...+.+....    +..+  ....+..+...+...|+++.|...+..........   ....+..
T Consensus       177 ~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  256 (366)
T d1hz4a_         177 MLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRN  256 (366)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHH
Confidence            7778888899999999888776532    2111  12345556667889999999999999887653322   2345566


Q ss_pred             HHHHHhCcCCHHHHHHHHHHHHh----CCCchhH
Q 038109          284 LGSKLIGLERFNEANFILKEMNK----RDLKMGF  313 (324)
Q Consensus       284 l~~~~~~~g~~~~a~~~~~~m~~----~~~~~~~  313 (324)
                      +...+...|++++|...+++...    .+..|+.
T Consensus       257 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  290 (366)
T d1hz4a_         257 IARAQILLGEFEPAEIVLEELNENARSLRLMSDL  290 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHH
Confidence            78899999999999999998753    3555543

>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=98.94  E-value=2e-07  Score=73.70  Aligned_cols=213  Identities=11%  Similarity=-0.031  Sum_probs=124.5

Q ss_pred             hhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHccCcHH
Q 038109           81 NSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEG----GFGL-SAITFHPILSVLTRGKRME  155 (324)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~~~~~  155 (324)
                      ...+++++|.+++.+             ....|...+++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|+++
T Consensus        28 ~~~~~~~~Aa~~y~~-------------aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~   94 (290)
T d1qqea_          28 SDSYKFEEAADLCVQ-------------AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSV   94 (290)
T ss_dssp             CSHHHHHHHHHHHHH-------------HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             CccccHHHHHHHHHH-------------HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcH
Confidence            334456666555443             345666777777777777766542    1111 1346677777777777777


Q ss_pred             HHHHHHHHHHhC----C-CCCCHHHHHHHHHHHHh-cCChhhHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCH
Q 038109          156 EAWGLMEVMKEI----R-VSPDLTAYNYLLTAYCF-KGNLTATSGVLKKMEEE----KLGA-DARTYDALVLGACRAGRV  224 (324)
Q Consensus       156 ~a~~~~~~m~~~----~-~~~~~~~~~~li~~~~~-~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~g~~  224 (324)
                      +|...+++..+.    | ......++..+...|.. .|++++|.+.+++..+.    +-.+ -..++..+...+...|++
T Consensus        95 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y  174 (290)
T d1qqea_          95 NAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQY  174 (290)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChH
Confidence            777777765432    1 11123445555556644 58888888888765431    1111 134567778888888888


Q ss_pred             HHHHHHHHHHHHCCCC-----cCH-HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCC-cC---HhHHHHHHHHHhC--cC
Q 038109          225 EEAFVLLRRMVDDGQS-----VLY-STYAHVMGALLRLGYYAQAVKFVMVCGGRDIK-LD---TELFGSLGSKLIG--LE  292 (324)
Q Consensus       225 ~~a~~~~~~m~~~~~~-----p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~--~g  292 (324)
                      ++|.+.|++.......     +.. ..+...+-.+...|+++.|...++...+..+. ++   ......++.++..  .+
T Consensus       175 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e  254 (290)
T d1qqea_         175 IEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSE  254 (290)
T ss_dssp             HHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHH
Confidence            8888888887654211     111 12233444566778888888888887765322 11   2344556666654  34


Q ss_pred             CHHHHHHHHHHHHh
Q 038109          293 RFNEANFILKEMNK  306 (324)
Q Consensus       293 ~~~~a~~~~~~m~~  306 (324)
                      .+++|+..|+++.+
T Consensus       255 ~~~eai~~y~~~~~  268 (290)
T d1qqea_         255 QLSEHCKEFDNFMR  268 (290)
T ss_dssp             THHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHhh
Confidence            57778777765543

>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=1.1e-06  Score=69.25  Aligned_cols=237  Identities=11%  Similarity=-0.002  Sum_probs=145.5

Q ss_pred             hhHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHH
Q 038109           14 PQSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTL   93 (324)
Q Consensus        14 ~~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   93 (324)
                      .++.++++........+..     +-.++. -...+++++|.++|.+.               .+.|...+++++|.+.|
T Consensus         2 ~~~~~~l~~aek~~~~~~~-----~~~~~~-~~~~~~~~~Aa~~y~~a---------------a~~y~~~~~~~~A~~~y   60 (290)
T d1qqea_           2 SDPVELLKRAEKKGVPSSG-----FMKLFS-GSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSF   60 (290)
T ss_dssp             CCHHHHHHHHHHHSSCCCT-----HHHHHS-CCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHH
T ss_pred             CCHHHHHHHHHHhcCcchh-----HHHHhc-CCccccHHHHHHHHHHH---------------HHHHHHCcCHHHHHHHH
Confidence            3456666666666643221     111111 11222466666665543               45567777788888877


Q ss_pred             HHHhcC---CCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHh----CCCC-CChhhHHHHHHHHH-ccCcHHHHHHH
Q 038109           94 ARLDKG---FPR----KSAYDTLIGRLCKLKKIDEALRVVDIMAE----GGFG-LSAITFHPILSVLT-RGKRMEEAWGL  160 (324)
Q Consensus        94 ~~~~~~---~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~-~~~~~~~~li~~~~-~~~~~~~a~~~  160 (324)
                      .+..+.   ..+    ..+|..+...|.+.|++++|.+.+++..+    .|.. ....++..+...|. ..|++++|...
T Consensus        61 ~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~  140 (290)
T d1qqea_          61 LKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDC  140 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHH
Confidence            776332   112    23788888888889999999888887654    2111 11345555666664 46899999998


Q ss_pred             HHHHHhC----CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCH------HHHHHHHHHHHhcCCHHHHHH
Q 038109          161 MEVMKEI----RVSP-DLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADA------RTYDALVLGACRAGRVEEAFV  229 (324)
Q Consensus       161 ~~~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~  229 (324)
                      +++..+.    +-++ -..++..+...+...|++++|...|++..........      ..+...+..+...|+++.|..
T Consensus       141 ~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~  220 (290)
T d1qqea_         141 YELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAAR  220 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHH
Confidence            8876532    2111 1355778889999999999999999988765332211      223445566778899999999


Q ss_pred             HHHHHHHCCCC-cC---HHHHHHHHHHHHh--cCCHHHHHHHHHHhCC
Q 038109          230 LLRRMVDDGQS-VL---YSTYAHVMGALLR--LGYYAQAVKFVMVCGG  271 (324)
Q Consensus       230 ~~~~m~~~~~~-p~---~~~~~~li~~~~~--~g~~~~a~~~~~~~~~  271 (324)
                      .+++..+.... ++   ......++.++..  .+.+++|...|+.+.+
T Consensus       221 ~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         221 TLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             HHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence            99988754211 11   2344556666554  3457788877765554

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.76  E-value=1.8e-08  Score=81.57  Aligned_cols=260  Identities=12%  Similarity=0.017  Sum_probs=179.9

Q ss_pred             hhHHHHHHHHhhhcCCCCCCCHH-HHHH---HHHHHhc-------CCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhh
Q 038109           14 PQSVLVTRSFTKSGAFPDEPTSA-YYDD---LVNAAGH-------ERDLETVRYLLNKRARDCCFNTANTFNFITNTENS   82 (324)
Q Consensus        14 ~~a~~~~~~~~~~~~~~~~~~~~-~~~~---ll~~~~~-------~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~   82 (324)
                      ++|..++...-...     |+.. .|+.   ++.....       .|++++|+.+++...+.. +.+...|..+..++..
T Consensus        46 ~~al~~~~~~l~~~-----P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~  119 (334)
T d1dcea1          46 ESVLELTSQILGAN-----PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (334)
T ss_dssp             HHHHHHHHHHHHHC-----TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHC-----CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHH
Confidence            56666666555444     5543 2322   2232333       345788999999888753 4555667666666555


Q ss_pred             hh--hHHHHHHHHHHHhcCCC-CHHHHH-HHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHH
Q 038109           83 LS--VLSDLCRTLARLDKGFP-RKSAYD-TLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAW  158 (324)
Q Consensus        83 ~~--~~~~a~~~~~~~~~~~p-~~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~  158 (324)
                      .+  +++++...+..+.+..| +...+. .....+...+.+++|+..++++.+.... +...|+.+...+.+.|++++|.
T Consensus       120 ~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~  198 (334)
T d1dcea1         120 LPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSG  198 (334)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSS
T ss_pred             hccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHH
Confidence            44  58899999999876665 566654 4557788899999999999999887544 7788888888999999888776


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 038109          159 GLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDG  238 (324)
Q Consensus       159 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  238 (324)
                      ..+....+.  .|+   ...+...+...+..+++...+......... +...+..+...+...|+.++|...+.+.....
T Consensus       199 ~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  272 (334)
T d1dcea1         199 PQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAE-PLFRCELSVEKSTVLQSELESCKELQELEPEN  272 (334)
T ss_dssp             SCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCC-CSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcc-hhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            555443332  111   122334456678888898888888776543 56667777888888899999999998877543


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcC-HhHHHHHHHHHh
Q 038109          239 QSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLD-TELFGSLGSKLI  289 (324)
Q Consensus       239 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~  289 (324)
                       +-+..++..+...+...|+.++|...++...+.  .|+ ...|..+...+.
T Consensus       273 -p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         273 -KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             -HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHH
T ss_pred             -chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHHh
Confidence             234567777888899999999999999999775  444 445555544443

>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=98.72  E-value=6.6e-07  Score=65.94  Aligned_cols=84  Identities=17%  Similarity=-0.050  Sum_probs=38.5

Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhh
Q 038109          112 RLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTA  191 (324)
Q Consensus       112 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  191 (324)
                      .+...|+++.|++.|+++    .+|+..+|..+...+...|++++|.+.|++..+... .+...|..+..+|.+.|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp-~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh-hhhhhHHHHHHHHHhhccHHH
Confidence            334445555555544432    123444444444445555555555555554444321 234444444444445555555


Q ss_pred             HHHHHHHHH
Q 038109          192 TSGVLKKME  200 (324)
Q Consensus       192 a~~~~~~m~  200 (324)
                      |.+.|++..
T Consensus        89 A~~~~~kAl   97 (192)
T d1hh8a_          89 AIKDLKEAL   97 (192)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            554444443

>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=98.69  E-value=1.4e-06  Score=64.18  Aligned_cols=82  Identities=12%  Similarity=0.058  Sum_probs=41.8

Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 038109          149 TRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAF  228 (324)
Q Consensus       149 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  228 (324)
                      ...|++++|.+.|.++    .+|+..+|..+..+|...|++++|.+.|++..+.+.. +...|..+..+|.+.|++++|.
T Consensus        16 ~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          16 ADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHHHHH
Confidence            3445555555555432    1234445555555555555555555555555554333 4455555555555555555555


Q ss_pred             HHHHHHH
Q 038109          229 VLLRRMV  235 (324)
Q Consensus       229 ~~~~~m~  235 (324)
                      +.|++..
T Consensus        91 ~~~~kAl   97 (192)
T d1hh8a_          91 KDLKEAL   97 (192)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555443

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.59  E-value=2.7e-06  Score=57.01  Aligned_cols=90  Identities=13%  Similarity=0.018  Sum_probs=47.2

Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHH
Q 038109          181 TAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYA  260 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  260 (324)
                      ..+.+.|++++|...|++..+..+. +...|..+..+|...|++++|+..++...+... .+...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhcc-chhhHHHHHHHHHHHccCHH
Confidence            3445555555555555555554333 455555555555555555555555555554321 33444555555555555555


Q ss_pred             HHHHHHHHhCCC
Q 038109          261 QAVKFVMVCGGR  272 (324)
Q Consensus       261 ~a~~~~~~~~~~  272 (324)
                      +|...++...+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            555555555543

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.54  E-value=2.1e-06  Score=61.10  Aligned_cols=91  Identities=13%  Similarity=0.040  Sum_probs=56.7

Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 038109          180 LTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYY  259 (324)
Q Consensus       180 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  259 (324)
                      ...|.+.|++++|...|++..+..+. +...|..+..+|...|++++|.+.|++..+.. +-+...|..+..++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            34556666666666666666665444 56666666666666666666666666666542 12345566666666666666


Q ss_pred             HHHHHHHHHhCCC
Q 038109          260 AQAVKFVMVCGGR  272 (324)
Q Consensus       260 ~~a~~~~~~~~~~  272 (324)
                      ++|...++.....
T Consensus        95 ~eA~~~~~~a~~~  107 (159)
T d1a17a_          95 RAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            6666666666554

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.52  E-value=2.3e-06  Score=57.33  Aligned_cols=88  Identities=15%  Similarity=0.038  Sum_probs=45.7

Q ss_pred             HHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 038109          146 SVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVE  225 (324)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  225 (324)
                      ..+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|...++...+.++. +...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHccCHH
Confidence            33444555555555555554432 224445555555555555555555555555554433 4555555555555555555


Q ss_pred             HHHHHHHHHH
Q 038109          226 EAFVLLRRMV  235 (324)
Q Consensus       226 ~a~~~~~~m~  235 (324)
                      +|+..|++..
T Consensus        89 ~A~~~~~~a~   98 (117)
T d1elwa_          89 EAKRTYEEGL   98 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555554

>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=98.51  E-value=1.5e-06  Score=64.31  Aligned_cols=99  Identities=14%  Similarity=0.021  Sum_probs=62.7

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 038109          101 PRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLL  180 (324)
Q Consensus       101 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  180 (324)
                      |+...+......|.+.|++++|+..|++..+... -+...|..+..+|.+.|++++|...|+...+... -+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p-~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p-~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCC-CcHHHHHHHH
Confidence            4455555566667777777777777776665432 2556666666667777777777777776665431 2455666666


Q ss_pred             HHHHhcCChhhHHHHHHHHHH
Q 038109          181 TAYCFKGNLTATSGVLKKMEE  201 (324)
Q Consensus       181 ~~~~~~~~~~~a~~~~~~m~~  201 (324)
                      .+|.+.|++++|...|++..+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            677777777777777666554

>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=98.47  E-value=5e-06  Score=59.00  Aligned_cols=91  Identities=14%  Similarity=0.057  Sum_probs=64.4

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 038109          145 LSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRV  224 (324)
Q Consensus       145 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  224 (324)
                      .+.|.+.|++++|...|++..+.. +.+...|..+..+|...|++++|...|+...+.... +..+|..+..+|...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcCCH
Confidence            345667777777777777776654 235667777777777777777777777777766544 667777777777777777


Q ss_pred             HHHHHHHHHHHHC
Q 038109          225 EEAFVLLRRMVDD  237 (324)
Q Consensus       225 ~~a~~~~~~m~~~  237 (324)
                      ++|...+++....
T Consensus        95 ~eA~~~~~~a~~~  107 (159)
T d1a17a_          95 RAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            7777777777654

>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=98.46  E-value=2.8e-06  Score=62.73  Aligned_cols=99  Identities=11%  Similarity=0.005  Sum_probs=85.8

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHH
Q 038109          171 PDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSV-LYSTYAHV  249 (324)
Q Consensus       171 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~l  249 (324)
                      |+...+......|.+.|++++|...|++.....+. +...|+.+..+|.+.|++++|+..|+...+.  .| +..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            67777888889999999999999999998887665 7889999999999999999999999998754  45 46678889


Q ss_pred             HHHHHhcCCHHHHHHHHHHhCCC
Q 038109          250 MGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      ..+|...|++++|...|+...+.
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999999999999887653

>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=98.32  E-value=1.9e-06  Score=58.17  Aligned_cols=93  Identities=15%  Similarity=0.053  Sum_probs=45.3

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCcC-HHHHHHHHHHH
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRV---EEAFVLLRRMVDDGQSVL-YSTYAHVMGAL  253 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~---~~a~~~~~~m~~~~~~p~-~~~~~~li~~~  253 (324)
                      .+++.+...+++++|.+.|++....++. +..++..+..++.+.++.   ++|+.+|++.......|+ ..++..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            3444555555555555555555554433 445555555555443332   345555555544332222 12344444555


Q ss_pred             HhcCCHHHHHHHHHHhCC
Q 038109          254 LRLGYYAQAVKFVMVCGG  271 (324)
Q Consensus       254 ~~~g~~~~a~~~~~~~~~  271 (324)
                      .+.|++++|.+.|+.+.+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            555555555555555554

>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=98.31  E-value=4.4e-06  Score=55.41  Aligned_cols=84  Identities=14%  Similarity=0.010  Sum_probs=35.5

Q ss_pred             HHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 038109          148 LTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEA  227 (324)
Q Consensus       148 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  227 (324)
                      +.+.|++++|...|++..+... -+...|..+..++.+.|++++|...|++..+..+. +...|..+..+|...|++++|
T Consensus        26 ~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g~~~~A  103 (112)
T d1hxia_          26 MLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHNANAA  103 (112)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCCCHHHH
Confidence            3344444444444444443321 13344444444444444444444444444443322 344444444444444444444


Q ss_pred             HHHHHH
Q 038109          228 FVLLRR  233 (324)
Q Consensus       228 ~~~~~~  233 (324)
                      .+.+++
T Consensus       104 ~~~l~~  109 (112)
T d1hxia_         104 LASLRA  109 (112)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>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=98.25  E-value=1.4e-05  Score=57.70  Aligned_cols=79  Identities=13%  Similarity=0.010  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHH-----hCCCchhHHHHHH
Q 038109          244 STYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMN-----KRDLKMGFKLRDY  318 (324)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~~~~~~~~~~~~  318 (324)
                      ..+..+...+...|++++|...++.+....+ -+...|..++.+|.+.|+.++|++.|++..     +.|+.|+.++..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~l  146 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  146 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHHH
Confidence            4566788888999999999999988888753 488889999999999999999999999874     4699999888888


Q ss_pred             Hhhhc
Q 038109          319 YEINV  323 (324)
Q Consensus       319 ~~~~v  323 (324)
                      |..++
T Consensus       147 ~~~il  151 (179)
T d2ff4a2         147 NERIL  151 (179)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77643

>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=98.24  E-value=4.9e-06  Score=56.02  Aligned_cols=93  Identities=11%  Similarity=0.003  Sum_probs=47.1

Q ss_pred             HHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh---hhHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 038109          143 PILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNL---TATSGVLKKMEEEKLGAD-ARTYDALVLGA  218 (324)
Q Consensus       143 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~---~~a~~~~~~m~~~~~~~~-~~~~~~li~~~  218 (324)
                      .+++.+...+++++|++.|+.....+. .+..++..+..++.+.++.   ++|..+|+++...+..|+ ..+|..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p-~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            344555555555555555555555432 2445555555555543332   345555555554433322 12444555555


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 038109          219 CRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       219 ~~~g~~~~a~~~~~~m~~  236 (324)
                      .+.|++++|.+.|++..+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            555555555555555554

>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=98.24  E-value=8.8e-06  Score=53.88  Aligned_cols=87  Identities=9%  Similarity=-0.051  Sum_probs=48.3

Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 038109          180 LTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYY  259 (324)
Q Consensus       180 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  259 (324)
                      ...+.+.|++++|...|++..+..+. +...|..+..++.+.|++++|+..|++..+.. +-+...+..+...|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            44455566666666666665555433 45566666666666666666666666555432 12344555555555555666


Q ss_pred             HHHHHHHHH
Q 038109          260 AQAVKFVMV  268 (324)
Q Consensus       260 ~~a~~~~~~  268 (324)
                      ++|.+.+++
T Consensus       101 ~~A~~~l~~  109 (112)
T d1hxia_         101 NAALASLRA  109 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            665555544

>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=98.23  E-value=0.0005  Score=52.64  Aligned_cols=117  Identities=10%  Similarity=-0.060  Sum_probs=62.7

Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCHH
Q 038109          189 LTATSGVLKKMEEEKLGADARTYDALVLGACR----AGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLR----LGYYA  260 (324)
Q Consensus       189 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~  260 (324)
                      ...+...+......   .+...+..+...|..    ..+...+...++...+.|.   ......+-..+..    ..+++
T Consensus       126 ~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~---~~A~~~lg~~y~~g~~~~~d~~  199 (265)
T d1ouva_         126 FKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKD---SPGCFNAGNMYHHGEGATKNFK  199 (265)
T ss_dssp             HHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTCSSCCCHH
T ss_pred             hHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhccccccc---cccccchhhhcccCcccccchh
Confidence            34444444444332   244555555555553    3445555556555555442   2233333333333    45677


Q ss_pred             HHHHHHHHhCCCCCCcCHhHHHHHHHHHhC----cCCHHHHHHHHHHHHhCCCchhHH
Q 038109          261 QAVKFVMVCGGRDIKLDTELFGSLGSKLIG----LERFNEANFILKEMNKRDLKMGFK  314 (324)
Q Consensus       261 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~  314 (324)
                      .|..+|....+.|   ++..+..|...|.+    ..+.++|.++|++-.+.|-.+...
T Consensus       200 ~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~~A~~  254 (265)
T d1ouva_         200 EALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKGACD  254 (265)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHHHH
T ss_pred             hhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCHHHHH
Confidence            7777777776665   34455556666654    336777777777777777655433

>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=98.21  E-value=0.00056  Score=52.34  Aligned_cols=226  Identities=10%  Similarity=-0.046  Sum_probs=152.7

Q ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhh----hhhHHHHHHHHHHHhcCCCCHHHHHHH
Q 038109           34 TSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENS----LSVLSDLCRTLARLDKGFPRKSAYDTL  109 (324)
Q Consensus        34 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~l  109 (324)
                      |+..+..|-..+.+.+++++|.+.|++..+.|   +...+..|...|..    ..+...+...+....... +......+
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~-~~~a~~~l   76 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN-YSNGCHLL   76 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-CHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc-ccchhhcc
Confidence            45566677677788999999999999998876   45555566666655    567888888888775432 33344444


Q ss_pred             HHHHH----ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH----ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038109          110 IGRLC----KLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLT----RGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLT  181 (324)
Q Consensus       110 i~~~~----~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~----~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  181 (324)
                      ...+.    ...+.+.|...++...+.|..   .....+...+.    .......+...+......   .+...+..+..
T Consensus        77 ~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~  150 (265)
T d1ouva_          77 GNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGS  150 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHH
T ss_pred             ccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhh
Confidence            44433    356889999999999887653   22222322222    234567777777776664   36677777888


Q ss_pred             HHHh----cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 038109          182 AYCF----KGNLTATSGVLKKMEEEKLGADARTYDALVLGACR----AGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGAL  253 (324)
Q Consensus       182 ~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  253 (324)
                      .|..    ..+...+...++...+.|   +......+-..|..    ..+.++|...|+...+.|.   +..+..|-..|
T Consensus       151 ~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~---~~a~~~LG~~y  224 (265)
T d1ouva_         151 LYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN---GGGCFNLGAMQ  224 (265)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHH
T ss_pred             hhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhcccC---HHHHHHHHHHH
Confidence            8876    445667888888777764   56666666666665    5689999999999988774   23444455555


Q ss_pred             Hh----cCCHHHHHHHHHHhCCCCCC
Q 038109          254 LR----LGYYAQAVKFVMVCGGRDIK  275 (324)
Q Consensus       254 ~~----~g~~~~a~~~~~~~~~~~~~  275 (324)
                      ..    ..+.++|.++|+.....|..
T Consensus       225 ~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         225 YNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             HcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            53    33677888888887776643

>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=98.12  E-value=0.00062  Score=53.89  Aligned_cols=136  Identities=13%  Similarity=0.106  Sum_probs=82.5

Q ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHH
Q 038109           33 PTSAYYDDLVNAAGHERDLETVRYLLNKRARDCCFNTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGR  112 (324)
Q Consensus        33 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~  112 (324)
                      ||..--..+.+.|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+++.+.    -+..+|..+...
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~----~~~~~~k~~~~~   78 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA----NSTRTWKEVCFA   78 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH----TCHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc----CCHHHHHHHHHH
Confidence            5555566777778888888888888875433         446677777888888887777655    355678777888


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 038109          113 LCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKG  187 (324)
Q Consensus       113 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  187 (324)
                      +.+......|     .+...+...+......++..|-..|.+++...+++..... -.++...++-++..|++.+
T Consensus        79 l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          79 CVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC
T ss_pred             HHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC
Confidence            8777666443     2223333445556677888888888888888888876543 2456677778888887754

>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=98.12  E-value=0.0001  Score=52.65  Aligned_cols=111  Identities=12%  Similarity=-0.104  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .+......+.+.|++++|+..|.+..+.-.....              ..+.-......+       -..+|+.+..+|.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~--------------~~~~~~~~~~~~-------~~~~~~nla~~y~   73 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESS--------------FSNEEAQKAQAL-------RLASHLNLAMCHL   73 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCC--------------CCSHHHHHHHHH-------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccc--------------cchHHHhhhchh-------HHHHHHHHHHHHH
Confidence            3444556777778888888888777652110000              000000000000       0124555556666


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      +.|++++|...++...+..+. +...|..+..+|...|++++|...|+...+.
T Consensus        74 k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          74 KLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            666666666666666655433 5666666666666666666666666666543

>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=98.10  E-value=0.0012  Score=52.11  Aligned_cols=209  Identities=11%  Similarity=0.053  Sum_probs=124.6

Q ss_pred             CCchhhHhhhhchhhhhhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 038109           68 NTANTFNFITNTENSLSVLSDLCRTLARLDKGFPRKSAYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSV  147 (324)
Q Consensus        68 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  147 (324)
                      |+..--..+...|.+.|.++.|..++..+..       |..++..+.+.+++..|.+++.+..      +..+|..+...
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d-------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~   78 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN-------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFA   78 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC-------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC-------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHH
Confidence            4444455677888899999999999987754       7888899999999999988886552      66788888999


Q ss_pred             HHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 038109          148 LTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEA  227 (324)
Q Consensus       148 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  227 (324)
                      |.+......+     .+.......+......++..|...|.+++...+++..... -..+...++-++..|++.+ .++.
T Consensus        79 l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~~kl  151 (336)
T d1b89a_          79 CVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-PQKM  151 (336)
T ss_dssp             HHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-HHHH
T ss_pred             HHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-hHHH
Confidence            8887766543     2333334456666778999999999999999999987644 2457888999999999875 3444


Q ss_pred             HHHHHHHHHCCCCcCHH----------HHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHH
Q 038109          228 FVLLRRMVDDGQSVLYS----------TYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEA  297 (324)
Q Consensus       228 ~~~~~~m~~~~~~p~~~----------~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  297 (324)
                      .+.++..   +...|..          .|..++-.|.+.|+++.|..+.-.-     .++..-....++.+.+.++.+..
T Consensus       152 ~e~l~~~---s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~-----~~~~~~~~~f~e~~~k~~N~e~~  223 (336)
T d1b89a_         152 REHLELF---WSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNH-----PTDAWKEGQFKDIITKVANVELY  223 (336)
T ss_dssp             HHHHHHH---STTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHS-----TTTTCCHHHHHHHHHHCSSTHHH
T ss_pred             HHHHHhc---cccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHHc-----chhhhhHHHHHHHHHccCChHHH
Confidence            4444333   1112211          1334445555555555554433111     12222333344455555555555


Q ss_pred             HHHHHHH
Q 038109          298 NFILKEM  304 (324)
Q Consensus       298 ~~~~~~m  304 (324)
                      .++....
T Consensus       224 ~~~i~~y  230 (336)
T d1b89a_         224 YRAIQFY  230 (336)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>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=98.01  E-value=0.00014  Score=51.78  Aligned_cols=85  Identities=9%  Similarity=-0.116  Sum_probs=66.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHH
Q 038109          209 RTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKL  288 (324)
Q Consensus       209 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  288 (324)
                      .+|+.+..+|.+.|++++|+..++...... +-+..++..+..++...|++++|...|+...+..+. +......+....
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~  140 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            467778999999999999999999988764 236788888999999999999999999999886532 566665565555


Q ss_pred             hCcCCHH
Q 038109          289 IGLERFN  295 (324)
Q Consensus       289 ~~~g~~~  295 (324)
                      .+.+...
T Consensus       141 ~~~~~~~  147 (170)
T d1p5qa1         141 QRIRRQL  147 (170)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>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=98.01  E-value=0.00014  Score=52.37  Aligned_cols=123  Identities=15%  Similarity=0.017  Sum_probs=84.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhC--CCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIMAEG--GFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAY  183 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  183 (324)
                      ...........|++++|.+.|.+....  |....            .....+.+...-..+...    ....+..+..++
T Consensus        14 ~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~------------~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~   77 (179)
T d2ff4a2          14 EKTAGVHAAAAGRFEQASRHLSAALREWRGPVLD------------DLRDFQFVEPFATALVED----KVLAHTAKAEAE   77 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTG------------GGTTSTTHHHHHHHHHHH----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccc------------cCcchHHHHHHHHHHHHH----HHHHHHHHHHHH
Confidence            344556778889999999998888763  21100            000001111111112111    235677788889


Q ss_pred             HhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCcCHHH
Q 038109          184 CFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD-----DGQSVLYST  245 (324)
Q Consensus       184 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~  245 (324)
                      .+.|++++|...++.+....+. +...|..++.+|.+.|+.++|++.|+++.+     .|+.|+..+
T Consensus        78 ~~~g~~~~Al~~~~~al~~~P~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          78 IACGRASAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHCCCchHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            9999999999999998887665 888999999999999999999999988743     488888765

>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=98.01  E-value=4.8e-05  Score=51.53  Aligned_cols=92  Identities=13%  Similarity=0.081  Sum_probs=50.6

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---C--cC-HHHHHHHHH
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQ---S--VL-YSTYAHVMG  251 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---~--p~-~~~~~~li~  251 (324)
                      .+...+.+.|++++|...|++..+.++. +...+..+..+|.+.|++++|.+.+++..+...   .  +. ..+|..+-.
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            3445566666666666666666655443 556666666666666666666666666543210   0  00 124444555


Q ss_pred             HHHhcCCHHHHHHHHHHhC
Q 038109          252 ALLRLGYYAQAVKFVMVCG  270 (324)
Q Consensus       252 ~~~~~g~~~~a~~~~~~~~  270 (324)
                      .+...+++++|...+....
T Consensus        88 ~~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHH
Confidence            5556666666666655443

>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=97.94  E-value=4.1e-05  Score=64.91  Aligned_cols=112  Identities=7%  Similarity=0.005  Sum_probs=50.2

Q ss_pred             hhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 038109          139 ITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGA  218 (324)
Q Consensus       139 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  218 (324)
                      ..+..+...+.+.|+.++|...+....+..  | ..++..+...+...|++++|...|++..+..+. +...|+.+...+
T Consensus       121 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~~~  196 (497)
T d1ya0a1         121 VKSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAILA  196 (497)
T ss_dssp             ----------------------CCHHHHHH--H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHHHH
T ss_pred             HHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHHHH
Confidence            334444444445555555554444433211  1 234555566666666666666666666655443 456666666666


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 038109          219 CRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLR  255 (324)
Q Consensus       219 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  255 (324)
                      ...|+..+|...|.+..... .|...++..|...+.+
T Consensus       197 ~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         197 SSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            66666666666666655433 2445555555555543

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.92  E-value=0.00022  Score=49.77  Aligned_cols=111  Identities=14%  Similarity=0.003  Sum_probs=70.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 038109          106 YDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF  185 (324)
Q Consensus       106 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  185 (324)
                      +..-...+.+.|++.+|+..|.+..+.-.....             .......   .....    ....+|+.+..+|.+
T Consensus        20 ~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~-------------~~~~~~~---~~~~~----~~~~~~~Nla~~~~~   79 (153)
T d2fbna1          20 IKEEGNEFFKKNEINEAIVKYKEALDFFIHTEE-------------WDDQILL---DKKKN----IEISCNLNLATCYNK   79 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTT-------------CCCHHHH---HHHHH----HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhh-------------hhhHHHH---Hhhhh----HHHHHHhhHHHHHHH
Confidence            444556777888888888888887753111000             0000000   00000    123466777778888


Q ss_pred             cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 038109          186 KGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDD  237 (324)
Q Consensus       186 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  237 (324)
                      .|++++|++.++...+.++. +..+|..+..++...|++++|...|+...+.
T Consensus        80 l~~~~~Al~~~~~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          80 NKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hcccchhhhhhhccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            88888888888887776544 6778888888888888888888888877754

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.90  E-value=0.00031  Score=49.03  Aligned_cols=78  Identities=8%  Similarity=-0.030  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHH
Q 038109          208 ARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSK  287 (324)
Q Consensus       208 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  287 (324)
                      ..+|+.+..+|.+.|++++|++.++...+.. +.+..+|..+..++...|++++|...|+...+..+. +..+...+-.+
T Consensus        67 ~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~-n~~~~~~l~~~  144 (153)
T d2fbna1          67 ISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELC  144 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            3578889999999999999999999988754 346789999999999999999999999999886432 45555444333

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.86  E-value=0.00014  Score=49.10  Aligned_cols=92  Identities=14%  Similarity=0.165  Sum_probs=48.4

Q ss_pred             HHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-CC-----HHHHHHHHHH
Q 038109          144 ILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLG-AD-----ARTYDALVLG  217 (324)
Q Consensus       144 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~-----~~~~~~li~~  217 (324)
                      +...+.+.|++++|...|.+..+.+. .+...+..+..+|.+.|++++|...++++.+.... +.     ..+|..+...
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            34445555556666655555555432 24555555566666666666666666554432111 00     1344555555


Q ss_pred             HHhcCCHHHHHHHHHHHHH
Q 038109          218 ACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       218 ~~~~g~~~~a~~~~~~m~~  236 (324)
                      +...+++++|.+.|+....
T Consensus        89 ~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            5666666666666655543

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.85  E-value=0.0002  Score=50.93  Aligned_cols=126  Identities=6%  Similarity=-0.041  Sum_probs=76.6

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 038109          107 DTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFK  186 (324)
Q Consensus       107 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  186 (324)
                      ......+.+.|++++|+..|.+..+.            ..............       .. -+.....|..+..++.+.
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~~~-------~~-~~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDADGA-------KL-QPVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHHHG-------GG-HHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHHHH-------Hh-ChhhHHHHHHHHHHHHhh
Confidence            34456677788888888888776531            00000000000000       00 012345666677788888


Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 038109          187 GNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALL  254 (324)
Q Consensus       187 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  254 (324)
                      |++++|+..++...+..+. +...|..+..+|.+.|++++|.+.|+...+... .+......+.....
T Consensus        91 ~~~~~Ai~~~~~al~~~p~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p-~n~~~~~~l~~~~~  156 (169)
T d1ihga1          91 SDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKVKQ  156 (169)
T ss_dssp             TCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhhhhhhh-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            8888888888888776554 677888888888888888888888888776431 23444444444433

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.80  E-value=0.00037  Score=49.48  Aligned_cols=89  Identities=8%  Similarity=-0.094  Sum_probs=69.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHH
Q 038109          207 DARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGS  286 (324)
Q Consensus       207 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  286 (324)
                      ....|..+..++.+.|++++|+..+++..+.. +.+...|..+..++...|++++|...|+...+..+. +......+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~-n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            45677888899999999999999999998754 245778888999999999999999999999886533 6666666666


Q ss_pred             HHhCcCCHHHH
Q 038109          287 KLIGLERFNEA  297 (324)
Q Consensus       287 ~~~~~g~~~~a  297 (324)
                      +..+.....+.
T Consensus       154 ~~~~l~~~~~~  164 (169)
T d1ihga1         154 VKQKIKAQKDK  164 (169)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            65554444443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.74  E-value=0.00048  Score=48.82  Aligned_cols=61  Identities=11%  Similarity=-0.013  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      .|+.+..+|.+.|++++|+..++...+..+. +...|..+..++...|++++|...|++..+
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~  126 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLE  126 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4455556666666666666666666655443 566666666666666666666666666654

>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=97.73  E-value=6e-05  Score=57.94  Aligned_cols=120  Identities=9%  Similarity=-0.037  Sum_probs=59.7

Q ss_pred             HhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH-HHHHHHHHHHHhcCCHHHH
Q 038109          184 CFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLY-STYAHVMGALLRLGYYAQA  262 (324)
Q Consensus       184 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a  262 (324)
                      .+.|++++|...+++..+..+. |...+..+...|+..|++++|.+.|+...+.  .|+. ..+..+...+...+..+++
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 LSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            3456677777777766666554 6666777777777777777777777666643  2332 2222222222222222222


Q ss_pred             HHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHh
Q 038109          263 VKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNK  306 (324)
Q Consensus       263 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  306 (324)
                      ..-...-...+-+++...+......+.+.|+.++|.+.+++..+
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            11111101111112222333334455566777777777766543

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.64  E-value=0.00031  Score=48.49  Aligned_cols=70  Identities=14%  Similarity=0.050  Sum_probs=36.0

Q ss_pred             hhhhhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHcc----------CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 038109           80 ENSLSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLCKL----------KKIDEALRVVDIMAEGGFGLSAITFHPILSVL  148 (324)
Q Consensus        80 ~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  148 (324)
                      |-+.+.+++|...++...+..| +..++..+..++...          +.+++|+..|++..+.... +..+|..+..+|
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y   85 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHHH
Confidence            4455666666666666655555 344555555555433          2335555555555543221 344455444444


Q ss_pred             Hc
Q 038109          149 TR  150 (324)
Q Consensus       149 ~~  150 (324)
                      ..
T Consensus        86 ~~   87 (145)
T d1zu2a1          86 TS   87 (145)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=97.63  E-value=8.5e-05  Score=57.09  Aligned_cols=52  Identities=12%  Similarity=0.185  Sum_probs=30.0

Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          150 RGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       150 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      +.|++++|...+++..+... .|...+..+...++..|++++|...|+...+.
T Consensus         8 ~~G~l~eAl~~l~~al~~~P-~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            44566666666666555432 25555666666666666666666666655554

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.62  E-value=0.0021  Score=45.33  Aligned_cols=80  Identities=8%  Similarity=-0.162  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHh
Q 038109          210 TYDALVLGACRAGRVEEAFVLLRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLI  289 (324)
Q Consensus       210 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  289 (324)
                      .|+.+..+|.+.|++++|+..++...+.. +.+...|..+..++...|++++|...|..+....+ .+......+-....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P-~n~~~~~~l~~~~~  143 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQIFMCQK  143 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            45556666777777777777777766542 23455666666677777777777777777665432 24444444433333


Q ss_pred             Cc
Q 038109          290 GL  291 (324)
Q Consensus       290 ~~  291 (324)
                      +.
T Consensus       144 ~~  145 (168)
T d1kt1a1         144 KA  145 (168)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.58  E-value=0.00021  Score=49.39  Aligned_cols=85  Identities=8%  Similarity=-0.048  Sum_probs=60.5

Q ss_pred             hcCCCHHHHHHHHHHHHhcCCCCCchhhHhhhhchhh----------hhhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHH
Q 038109           46 GHERDLETVRYLLNKRARDCCFNTANTFNFITNTENS----------LSVLSDLCRTLARLDKGFP-RKSAYDTLIGRLC  114 (324)
Q Consensus        46 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----------~~~~~~a~~~~~~~~~~~p-~~~~~~~li~~~~  114 (324)
                      -+.+.+++|.+.|+...+.. |.++..+..+..++..          .+.+++|...|++..+..| +..+|..+..+|.
T Consensus         8 ~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHH
Confidence            34456899999999998863 5666778788777764          3556789999988887777 5668888888887


Q ss_pred             ccCC-----------HHHHHHHHHHHHh
Q 038109          115 KLKK-----------IDEALRVVDIMAE  131 (324)
Q Consensus       115 ~~~~-----------~~~a~~~~~~m~~  131 (324)
                      ..|+           +++|.+.|++..+
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~  114 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVD  114 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhcccc
Confidence            6543           3555555555554

>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=97.20  E-value=0.0037  Score=43.38  Aligned_cols=62  Identities=21%  Similarity=0.014  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhCCC-----CCCc-----CHhHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 038109          244 STYAHVMGALLRLGYYAQAVKFVMVCGGR-----DIKL-----DTELFGSLGSKLIGLERFNEANFILKEMN  305 (324)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~-----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  305 (324)
                      .+|+.+..+|...|++++|...++.....     ...+     ....+..+..+|...|++++|...|++..
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555666666666665555444321     0011     12245556777777777777777777654

>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=97.16  E-value=0.0054  Score=42.49  Aligned_cols=62  Identities=18%  Similarity=0.061  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHC-----CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038109          174 TAYNYLLTAYCFKGNLTATSGVLKKMEEE-----KLGAD-----ARTYDALVLGACRAGRVEEAFVLLRRMV  235 (324)
Q Consensus       174 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~  235 (324)
                      ..|+.+..+|.+.|++++|...+++..+.     ...++     ...++.+..+|...|++++|.+.|++..
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            44555666666666666666666554421     11111     1234555566666666666666666544

>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=97.04  E-value=0.0032  Score=52.91  Aligned_cols=109  Identities=10%  Similarity=-0.071  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 038109          105 AYDTLIGRLCKLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYC  184 (324)
Q Consensus       105 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  184 (324)
                      .+..+...+.+.|+.++|...+.+..+..   ...++..+...+...|++++|...|++..+.. +-+...|+.+...+.
T Consensus       122 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~  197 (497)
T d1ya0a1         122 KSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILAS  197 (497)
T ss_dssp             ---------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHH
T ss_pred             HHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            44555555555555555555544433210   11334444555555556666666655555542 123455555555555


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 038109          185 FKGNLTATSGVLKKMEEEKLGADARTYDALVLGA  218 (324)
Q Consensus       185 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  218 (324)
                      ..|+..+|...|.+...... |...++..|...+
T Consensus       198 ~~~~~~~A~~~y~ral~~~~-~~~~a~~nL~~~~  230 (497)
T d1ya0a1         198 SKGDHLTTIFYYCRSIAVKF-PFPAASTNLQKAL  230 (497)
T ss_dssp             HTTCHHHHHHHHHHHHSSSB-CCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhCCC-CCHHHHHHHHHHH
Confidence            56666666555555544332 3444444444444

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.81  E-value=0.027  Score=36.60  Aligned_cols=139  Identities=12%  Similarity=0.071  Sum_probs=84.9

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 038109          151 GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVL  230 (324)
Q Consensus       151 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  230 (324)
                      .|..++..++..+....   .+..-||.+|--....-+-+...++++..-+.   .|.          ...++.......
T Consensus        15 dG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~vv~C   78 (161)
T d1wy6a1          15 DGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVEC   78 (161)
T ss_dssp             TTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHHH
T ss_pred             hhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHHHHH
Confidence            35555555555555543   24444555554444444444444444444321   111          122233332222


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHhCCCCCCcCHhHHHHHHHHHhCcCCHHHHHHHHHHHHhCCCc
Q 038109          231 LRRMVDDGQSVLYSTYAHVMGALLRLGYYAQAVKFVMVCGGRDIKLDTELFGSLGSKLIGLERFNEANFILKEMNKRDLK  310 (324)
Q Consensus       231 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  310 (324)
                      +-.+     .-+...++..++....+|.-++-.++++.+.+.+ +|++...-.+..+|-+.|...++-+++.+.-++|++
T Consensus        79 ~~~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          79 GVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            2211     1234556778888999999999999999877754 678888888999999999999999999999888886


Q ss_pred             h
Q 038109          311 M  311 (324)
Q Consensus       311 ~  311 (324)
                      -
T Consensus       153 e  153 (161)
T d1wy6a1         153 E  153 (161)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.79  E-value=0.0053  Score=38.44  Aligned_cols=28  Identities=29%  Similarity=0.287  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          175 AYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       175 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      +++.+..+|.+.|++++|...+++..+.
T Consensus        48 ~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          48 VLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3444444444444444444444444443

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.49  E-value=0.014  Score=36.36  Aligned_cols=60  Identities=13%  Similarity=0.164  Sum_probs=28.4

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCC-----CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 038109          177 NYLLTAYCFKGNLTATSGVLKKMEEEK-----LGAD-ARTYDALVLGACRAGRVEEAFVLLRRMVD  236 (324)
Q Consensus       177 ~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  236 (324)
                      -.+...+.+.|++++|...|++..+..     ..++ ..+++.+..++.+.|++++|.+.+++..+
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            344455555555555555555443210     1111 33445555555555555555555555443

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.67  E-value=0.15  Score=33.67  Aligned_cols=110  Identities=11%  Similarity=0.030  Sum_probs=48.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhhHH
Q 038109          118 KIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF----KGNLTATS  193 (324)
Q Consensus       118 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~  193 (324)
                      |+++|++.|++..+.|..   ..+..+.  .....+.++|...+++..+.|   +...+..+-..|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            445555555555554422   1122221  122344555555555555544   22333333333332    23445555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCC
Q 038109          194 GVLKKMEEEKLGADARTYDALVLGACR----AGRVEEAFVLLRRMVDDG  238 (324)
Q Consensus       194 ~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~  238 (324)
                      ++|++..+.|   +......|-..|..    ..+.++|.++|+...+.|
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            5555555443   22333333333333    234555555555544444

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.79  E-value=0.29  Score=32.10  Aligned_cols=81  Identities=9%  Similarity=-0.089  Sum_probs=39.2

Q ss_pred             CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCC
Q 038109          117 KKIDEALRVVDIMAEGGFGLSAITFHPILSVLTR----GKRMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCF----KGN  188 (324)
Q Consensus       117 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~  188 (324)
                      .+.++|++.+++..+.|.   ...+..|-..|..    ..+.++|.++|++..+.|   ++.....|-..|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g~---~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELNS---GNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhcccc---hhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            345555555555555442   2223333333322    234566666666666554   22333344444443    235


Q ss_pred             hhhHHHHHHHHHHCC
Q 038109          189 LTATSGVLKKMEEEK  203 (324)
Q Consensus       189 ~~~a~~~~~~m~~~~  203 (324)
                      .++|.++|+...+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            566666666655554

>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=94.65  E-value=0.3  Score=31.60  Aligned_cols=121  Identities=13%  Similarity=0.126  Sum_probs=53.2

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCcHHHHHHHHHHHHhCC-C----------------CCCHHHHH
Q 038109          115 KLKKIDEALRVVDIMAEGGFGLSAITFHPILSVLTRGKRMEEAWGLMEVMKEIR-V----------------SPDLTAYN  177 (324)
Q Consensus       115 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~----------------~~~~~~~~  177 (324)
                      -.|..++..+++.+....   .+..-||-+|--....-+-+....+++..-+.- +                .-+...++
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~vd   90 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHVN   90 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHHH
T ss_pred             HhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHHHH
Confidence            345556666666655543   133334444444444444444444444332210 0                01223334


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 038109          178 YLLTAYCFKGNLTATSGVLKKMEEEKLGADARTYDALVLGACRAGRVEEAFVLLRRMVDDGQ  239 (324)
Q Consensus       178 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  239 (324)
                      ..++.....|+-++-.++++.+.+. -+|++...-.+..+|.+.|...++-+++.+..+.|.
T Consensus        91 lALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          91 KALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            4444444455555555554444332 233444444455555555555555555555444443

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.00  E-value=0.14  Score=33.27  Aligned_cols=66  Identities=12%  Similarity=0.087  Sum_probs=31.8

Q ss_pred             CCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHhCCC
Q 038109          206 ADARTYDALVLGACRAGR---VEEAFVLLRRMVDDGQSVL-YSTYAHVMGALLRLGYYAQAVKFVMVCGGR  272 (324)
Q Consensus       206 ~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (324)
                      |...+--....+++++.+   .++++.++++..+.+ +.+ ...+-.|.-+|.+.|++++|.+.++.+.+.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            344444444444444432   345566666555432 112 123333444555666666666666665553

>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=92.70  E-value=0.59  Score=28.53  Aligned_cols=50  Identities=12%  Similarity=0.116  Sum_probs=31.4

Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 038109          153 RMEEAWGLMEVMKEIRVSPDLTAYNYLLTAYCFKGNLTATSGVLKKMEEE  202 (324)
Q Consensus       153 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  202 (324)
                      +.-++.+-+..+....+.|++....+.+++|-+.+++..|.++|+..+.+
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            44455555666666666666666666666666666666666666665543

>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=92.51  E-value=0.39  Score=29.33  Aligned_cols=50  Identities=10%  Similarity=0.114  Sum_probs=30.9

Q ss_pred             hHHHHHHHHhhhcCCCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHhc
Q 038109           15 QSVLVTRSFTKSGAFPDEPTSAYYDDLVNAAGHERDLETVRYLLNKRARD   64 (324)
Q Consensus        15 ~a~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   64 (324)
                      +.+.+-+-|........-|++....+.+++|.+.+++..|.++++-.+.+
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34444455555555556666666666677776667777776666655543

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.64  E-value=1.3  Score=28.69  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=11.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHH
Q 038109          212 DALVLGACRAGRVEEAFVLLRRM  234 (324)
Q Consensus       212 ~~li~~~~~~g~~~~a~~~~~~m  234 (324)
                      ..++.-|..+|+.++|...++++
T Consensus        11 ~~ll~EY~~~~D~~Ea~~~l~eL   33 (129)
T d2nsza1          11 DMLLKEYLLSGDISEAEHCLKEL   33 (129)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHc
Confidence            34444444455555555444444

>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=89.94  E-value=1.5  Score=28.11  Aligned_cols=23  Identities=13%  Similarity=0.118  Sum_probs=10.9

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHH
Q 038109          179 LLTAYCFKGNLTATSGVLKKMEE  201 (324)
Q Consensus       179 li~~~~~~~~~~~a~~~~~~m~~  201 (324)
                      +.-+|.+.|++++|.+.++.+.+
T Consensus        79 Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          79 LTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHc
Confidence            33344445555555555544444