Citrus Sinensis ID: 042154

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------
Protein Sequence
MSFPSRLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYNLKFPSEE
Secondary Structure (PSIPRED)
cccHHHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHHHcHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccccccEEEcccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEEEccc
Coil and Loop (DISEMBL)
msfpsrllscsfsttatatgpkfiGSVIRGIYKENNLKRLVDKFkkssdlgrfrtntgiyTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVfdempgrnceQTVLSFNALLGacvnskkfdevdglfkdlphklgiepdlvSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLlgfysngrfadAEKIWETMVNMnvrpnvrsynarldGLAIEKQTKKALELVGEmrskeinpdvFTFYALIKGFVNEGNLEEAKRWYnksgcgmnKAIFKLLVPFVCEKGDLDFAFNLCKrtfserclvdqapLQLVVDRLAKELRVEEAKELVELgktnsycrynlkfpsee
Flexible Loop (DISEMBL)
msfpsrllscsfsttatatgpkfigsVIRGIYKENNLKRLVDkfkkssdlgrfrtntgiytgtvqrLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGemrskeinpdVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSerclvdqaplQLVVDRLAKELRVEEAKelvelgktnsycrynlkfpsee
Low Complexity Region (SEG)
MSFPSRLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYNLKFPSEE
Disordered region (IsUnstruct)
********SCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYNLK*****
Disordered Region (DISOPRED)
**FPSRLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYNLKFP***
Disordered Region (DISEMBL)
MSFPSRLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYNLKFPSEE
Disordered Region (DISPRO)
MSFPSRLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYNLKFPSE*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSFPSRLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYNLKFPSEE
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	377	2.2.26 [Sep-21-2011]
Q9LK57	394	Pentatricopeptide repeat-	yes	no	0.978	0.936	0.52	1e-105
Q9LG23	398	Pentatricopeptide repeat-	no	no	0.989	0.937	0.507	1e-102
Q9LK58	551	Pentatricopeptide repeat-	no	no	0.960	0.656	0.427	2e-78
Q8GW57	397	Pentatricopeptide repeat-	no	no	0.928	0.881	0.301	2e-43
Q8LE47	408	Pentatricopeptide repeat-	no	no	0.862	0.796	0.316	8e-43
Q9ZU67	418	Pentatricopeptide repeat-	no	no	0.782	0.705	0.345	3e-42
Q9M065	412	Pentatricopeptide repeat-	no	no	0.912	0.834	0.292	8e-41
Q9SAB4	405	Pentatricopeptide repeat-	no	no	0.872	0.812	0.297	8e-37
Q9FFE3	535	Pentatricopeptide repeat-	no	no	0.843	0.594	0.257	3e-29
Q9FJE6	907	Putative pentatricopeptid	no	no	0.875	0.363	0.247	1e-28

>sp|Q9LK57|PP226_ARATH Pentatricopeptide repeat-containing protein At3g13160, mitochondrial OS=Arabidopsis thaliana GN=At3g13160 PE=1 SV=1

 Score =  381 bits (978), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 195/375 (52%), Positives = 260/375 (69%), Gaps = 6/375 (1%)

Query: 6   RLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQ 65
           R  S   +  AT + PK   S+I  +  E + K + +KFKK+     FR N  +Y  TV+
Sbjct: 22  RFFSAVTAAAATPSPPK--PSLITLVNDERDPKFITEKFKKACQAEWFRKNIAVYERTVR 79

Query: 66  RLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQ 125
           RLA AK+F W+EEILE Q +Y ++SKEGF AR+I LYG+  MFENA+KVFDEMP RNC++
Sbjct: 80  RLAAAKKFEWVEEILEEQNKYPNMSKEGFVARIINLYGRVGMFENAQKVFDEMPERNCKR 139

Query: 126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTL 185
           T LSFNALL ACVNSKKFD V+G+FK+LP KL IEPD+ SYNT+IK    KGS   A  L
Sbjct: 140 TALSFNALLNACVNSKKFDLVEGIFKELPGKLSIEPDVASYNTLIKGLCGKGSFTEAVAL 199

Query: 186 LYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAI 245
           + E+E KG++ D ITFN LL   Y+ G+F + E+IW  MV  NV+ ++RSYNARL GLA+
Sbjct: 200 IDEIENKGLKPDHITFNILLHESYTKGKFEEGEQIWARMVEKNVKRDIRSYNARLLGLAM 259

Query: 246 EKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWY---NKSGCGMNKAI 302
           E ++++ + L  +++  E+ PDVFTF A+IKGFV+EG L+EA  WY    K+GC   K +
Sbjct: 260 ENKSEEMVSLFDKLKGNELKPDVFTFTAMIKGFVSEGKLDEAITWYKEIEKNGCRPLKFV 319

Query: 303 FKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK 362
           F  L+P +C+ GDL+ A+ LCK  F++R LVD+A LQ VVD L K  + +EA+E+VEL K
Sbjct: 320 FNSLLPAICKAGDLESAYELCKEIFAKRLLVDEAVLQEVVDALVKGSKQDEAEEIVELAK 379

Query: 363 TNSYCRYNLK-FPSE 376
           TN Y +  L+ FP E
Sbjct: 380 TNDYLQCKLRLFPKE 394

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LG23|PPR82_ARATH Pentatricopeptide repeat-containing protein At1g55890, mitochondrial OS=Arabidopsis thaliana GN=At1g55890 PE=1 SV=1

 Score =  372 bits (954), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 193/380 (50%), Positives = 266/380 (70%), Gaps = 7/380 (1%)

Query: 2   SFPSRLLSCSFSTTATATGP-KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIY 60
           S  + ++S   + TA  + P K + S++ G   E N KR+V+KFKK+ +  RFRTN  +Y
Sbjct: 21  SSAATVVSEPTAVTAAISPPQKSLTSLVNG---ERNPKRIVEKFKKACESERFRTNIAVY 77

Query: 61  TGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPG 120
             TV+RL  AKR  ++EEILE QK+Y+D+SKEGF AR+I+LYGKA MFENA+KVF+EMP 
Sbjct: 78  DRTVRRLVAAKRLHYVEEILEEQKKYRDMSKEGFAARIISLYGKAGMFENAQKVFEEMPN 137

Query: 121 RNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLD 180
           R+C+++VLSFNALL A   SKKFD V+ LF +LP KL I+PD+VSYNT+IKA  +K SL 
Sbjct: 138 RDCKRSVLSFNALLSAYRLSKKFDVVEELFNELPGKLSIKPDIVSYNTLIKALCEKDSLP 197

Query: 181 SANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARL 240
            A  LL E+E KG++ D++TFNTLLL  Y  G+F   E+IW  MV  NV  ++R+YNARL
Sbjct: 198 EAVALLDEIENKGLKPDIVTFNTLLLSSYLKGQFELGEEIWAKMVEKNVAIDIRTYNARL 257

Query: 241 DGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCG 297
            GLA E ++K+ + L GE+++  + PDVF+F A+I+G +NEG ++EA+ WY    K G  
Sbjct: 258 LGLANEAKSKELVNLFGELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYR 317

Query: 298 MNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKEL 357
            +KA F LL+P +C+ GD + A  L K TFS+R LV Q  LQ +VD L K  + EEA+E+
Sbjct: 318 PDKATFALLLPAMCKAGDFESAIELFKETFSKRYLVGQTTLQQLVDELVKGSKREEAEEI 377

Query: 358 VELGKTNSYCRYNLKFPSEE 377
           V++ KTN + +  L  PS+E
Sbjct: 378 VKIAKTNDFLKLKLNLPSQE 397

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LK58|PP225_ARATH Pentatricopeptide repeat-containing protein At3g13150 OS=Arabidopsis thaliana GN=At3g13150 PE=2 SV=1

 Score =  293 bits (750), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 158/370 (42%), Positives = 228/370 (61%), Gaps = 8/370 (2%)

Query: 3   FPSRLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTG 62
           FPS+L +   ST +   G +          K + L + V+KFK+S +   FR   G+Y+ 
Sbjct: 38  FPSKLKA---STASVGDGGQSSNDAKDS--KNSKLTQKVEKFKRSCESESFRQVHGLYSA 92

Query: 63  TVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRN 122
            ++RL  AK+F  I+E+L++QK++ DI  E F  R++ LYG + M E+A K+FDEMP  N
Sbjct: 93  FIRRLREAKKFSTIDEVLQYQKKFDDIKSEDFVIRIMLLYGYSGMAEHAHKLFDEMPELN 152

Query: 123 CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSA 182
           CE+TV SFNALL A VNSKK DE    FK+LP KLGI PDLV+YNT+IKA   KGS+D  
Sbjct: 153 CERTVKSFNALLSAYVNSKKLDEAMKTFKELPEKLGITPDLVTYNTMIKALCRKGSMDDI 212

Query: 183 NTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDG 242
            ++  E+EK G   DLI+FNTLL  FY    F + ++IW+ M + N+ PN+RSYN+R+ G
Sbjct: 213 LSIFEELEKNGFEPDLISFNTLLEEFYRRELFVEGDRIWDLMKSKNLSPNIRSYNSRVRG 272

Query: 243 LAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMN 299
           L   K+   AL L+  M+++ I+PDV T+ ALI  +  + NLEE  + YN   + G   +
Sbjct: 273 LTRNKKFTDALNLIDVMKTEGISPDVHTYNALITAYRVDNNLEEVMKCYNEMKEKGLTPD 332

Query: 300 KAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVE 359
              + +L+P +C+KGDLD A  + +     + L      + VV+RL    +++EA +LV+
Sbjct: 333 TVTYCMLIPLLCKKGDLDRAVEVSEEAIKHKLLSRPNMYKPVVERLMGAGKIDEATQLVK 392

Query: 360 LGKTNSYCRY 369
            GK  SY RY
Sbjct: 393 NGKLQSYFRY 402

Arabidopsis thaliana (taxid: 3702)

>sp|Q8GW57|PP134_ARATH Pentatricopeptide repeat-containing protein At1g80150, mitochondrial OS=Arabidopsis thaliana GN=At1g80150 PE=2 SV=2

 Score =  176 bits (447), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 111/368 (30%), Positives = 189/368 (51%), Gaps = 18/368 (4%)

Query: 10  CSFSTTATATGPKFIGS---VIRGIY-----------KENNLKRLVDKFKKSSDLGRFRT 55
           C F ++A ATG  ++ +    I+G+             E + ++L + FK ++       
Sbjct: 11  CHFPSSA-ATGIAYVSTESNQIQGLKPLEEPALVKLKSERDPEKLYNLFKANATNRLVIE 69

Query: 56  NTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVF 115
           N   +  TV RLA A R  +IE++LEHQK      +EGF  R+I LYGKA M + A   F
Sbjct: 70  NRFAFEDTVSRLAGAGRLDFIEDLLEHQKTLPQGRREGFIVRIIMLYGKAGMTKQALDTF 129

Query: 116 DEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVD 175
             M    C+++V SFNA L     +     +     D P K GI+ D VS+N  IK+F +
Sbjct: 130 FNMDLYGCKRSVKSFNAALQVLSFNPDLHTIWEFLHDAPSKYGIDIDAVSFNIAIKSFCE 189

Query: 176 KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRS 235
            G LD A   + EMEK G+  D++T+ TL+   Y + R      +W  MV    +PN+ +
Sbjct: 190 LGILDGAYMAMREMEKSGLTPDVVTYTTLISALYKHERCVIGNGLWNLMVLKGCKPNLTT 249

Query: 236 YNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWY---N 292
           +N R+  L   ++   A +L+  M   ++ PD  T+  +IKGF      + A+R Y   +
Sbjct: 250 FNVRIQFLVNRRRAWDANDLLLLMPKLQVEPDSITYNMVIKGFFLARFPDMAERVYTAMH 309

Query: 293 KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVE 352
             G   N  I++ ++ ++C+ G+ D A+ +CK    ++   +   +++++  L K+ +++
Sbjct: 310 GKGYKPNLKIYQTMIHYLCKAGNFDLAYTMCKDCMRKKWYPNLDTVEMLLKGLVKKGQLD 369

Query: 353 EAKELVEL 360
           +AK ++EL
Sbjct: 370 QAKSIMEL 377

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LE47|PPR87_ARATH Pentatricopeptide repeat-containing protein At1g61870, mitochondrial OS=Arabidopsis thaliana GN=PPR336 PE=2 SV=2

 Score =  174 bits (442), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 104/329 (31%), Positives = 183/329 (55%), Gaps = 4/329 (1%)

Query: 34  ENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILE-HQKQYKDISKE 92
           E +  R+++  + +S     R +   ++  V+ LA  K F  +  +L+   +   D+  E
Sbjct: 57  EKDPDRILEICRAASLTPDCRIDRIAFSAAVENLAEKKHFSAVSNLLDGFIENRPDLKSE 116

Query: 93  GFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKD 152
            F A  I LY +A M +++ +VF ++      +TV S NALL AC+ +K + E   ++ +
Sbjct: 117 RFAAHAIVLYAQANMLDHSLRVFRDLEKFEISRTVKSLNALLFACLVAKDYKEAKRVYIE 176

Query: 153 LPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNG 212
           +P   GIEPDL +YN +IK F + GS  S+ +++ EME+KGI+ +  +F  ++ GFY+  
Sbjct: 177 MPKMYGIEPDLETYNRMIKVFCESGSASSSYSIVAEMERKGIKPNSSSFGLMISGFYAED 236

Query: 213 RFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFY 272
           +  +  K+   M +  V   V +YN R+  L   K++K+A  L+  M S  + P+  T+ 
Sbjct: 237 KSDEVGKVLAMMKDRGVNIGVSTYNIRIQSLCKRKKSKEAKALLDGMLSAGMKPNTVTYS 296

Query: 273 ALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE 329
            LI GF NE + EEAK+ +      GC  +   +  L+ ++C+ GD + A +LCK +  +
Sbjct: 297 HLIHGFCNEDDFEEAKKLFKIMVNRGCKPDSECYFTLIYYLCKGGDFETALSLCKESMEK 356

Query: 330 RCLVDQAPLQLVVDRLAKELRVEEAKELV 358
             +   + ++ +V+ LAK+ +VEEAKEL+
Sbjct: 357 NWVPSFSIMKSLVNGLAKDSKVEEAKELI 385

May be involved in translation through its association with polysomes. Could bind RNA.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZU67|PP162_ARATH Pentatricopeptide repeat-containing protein At2g18520, mitochondrial OS=Arabidopsis thaliana GN=At2g18520 PE=2 SV=1

 Score =  172 bits (437), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 105/304 (34%), Positives = 165/304 (54%), Gaps = 9/304 (2%)

Query: 63  TVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRN 122
           TVQRLA ++RF  IE ++E  K    I  E F + LI  YG+A+MF++A K+F+EM    
Sbjct: 73  TVQRLAKSQRFSDIEALIESHKNNPKIKTETFLSTLIRSYGRASMFDHAMKMFEEMDKLG 132

Query: 123 CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKL-GIEPDLVSYNTIIKAFVDKGSLDS 181
             +TV+SFNALL AC++S  F+ V  LF + P +   I PD +SY  +IK++ D G  + 
Sbjct: 133 TPRTVVSFNALLAACLHSDLFERVPQLFDEFPQRYNNITPDKISYGMLIKSYCDSGKPEK 192

Query: 182 ANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLD 241
           A  ++ +ME KG+ + +I F T+L   Y NG   +AE +W  MVN     +   YN RL 
Sbjct: 193 AMEIMRDMEVKGVEVTIIAFTTILGSLYKNGLVDEAESLWIEMVNKGCDLDNTVYNVRLM 252

Query: 242 GLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGM--- 298
             A E   ++  EL+ EM S  + PD  ++  L+  +  +G + EAK+ Y     G+   
Sbjct: 253 NAAKE-SPERVKELMEEMSSVGLKPDTVSYNYLMTAYCVKGMMSEAKKVYE----GLEQP 307

Query: 299 NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELV 358
           N A F+ L+  +C  G  D    + K++     + D    + + + L K  R+E+A+ + 
Sbjct: 308 NAATFRTLIFHLCINGLYDQGLTVFKKSAIVHKIPDFKTCKHLTEGLVKNNRMEDARGVA 367

Query: 359 ELGK 362
            + K
Sbjct: 368 RIVK 371

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M065|PP352_ARATH Pentatricopeptide repeat-containing protein At4g36680, mitochondrial OS=Arabidopsis thaliana GN=At4g36680 PE=1 SV=1

 Score =  167 bits (424), Expect = 8e-41,   Method: Compositional matrix adjust.
 Identities = 103/352 (29%), Positives = 186/352 (52%), Gaps = 8/352 (2%)

Query: 13  STTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTG-TVQRLANAK 71
           +TTA ++G   +      + KE++  + +  +   SD      ++      TV+RLA  +
Sbjct: 22  TTTAPSSGKISVSKAKSTLRKEHDPDKALKIYANVSDHSASPVSSRYAQELTVRRLAKCR 81

Query: 72  RFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFN 131
           RF  IE ++E  K    I +E F + LI  YG+A+MF +A + F++M      ++ +SFN
Sbjct: 82  RFSDIETLIESHKNDPKIKEEPFYSTLIRSYGQASMFNHAMRTFEQMDQYGTPRSAVSFN 141

Query: 132 ALLGACVNSKKFDEVDGLFKDLPHKLG-IEPDLVSYNTIIKAFVDKGSLDSANTLLYEME 190
           ALL AC++SK FD+V  LF ++P +   I PD +SY  +IK++ D G+ + A  ++ +M+
Sbjct: 142 ALLNACLHSKNFDKVPQLFDEIPQRYNKIIPDKISYGILIKSYCDSGTPEKAIEIMRQMQ 201

Query: 191 KKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQT- 249
            KG+ +  I F T+L   Y  G    A+ +W  MV      +  +YN R+  ++ +K++ 
Sbjct: 202 GKGMEVTTIAFTTILSSLYKKGELEVADNLWNEMVKKGCELDNAAYNVRI--MSAQKESP 259

Query: 250 KKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWY---NKSGCGMNKAIFKLL 306
           ++  EL+ EM S  + PD  ++  L+  +   G L+EAK+ Y     + C  N A F+ L
Sbjct: 260 ERVKELIEEMSSMGLKPDTISYNYLMTAYCERGMLDEAKKVYEGLEGNNCAPNAATFRTL 319

Query: 307 VPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELV 358
           +  +C     +  + + K++     + D   L+ +V  L +  + ++AK L+
Sbjct: 320 IFHLCYSRLYEQGYAIFKKSVYMHKIPDFNTLKHLVVGLVENKKRDDAKGLI 371

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SAB4|PPR33_ARATH Pentatricopeptide repeat-containing protein At1g11630, mitochondrial OS=Arabidopsis thaliana GN=At1g11630 PE=1 SV=1

 Score =  154 bits (390), Expect = 8e-37,   Method: Compositional matrix adjust.
 Identities = 99/333 (29%), Positives = 174/333 (52%), Gaps = 4/333 (1%)

Query: 34  ENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYK-DISKE 92
           ENN  R+++  + +S    +  +  I++  V  LA  K F  + ++L+   Q + D   E
Sbjct: 52  ENNPDRILEICRSTSLSPDYHVDRIIFSVAVVTLAREKHFVAVSQLLDGFIQNQPDPKSE 111

Query: 93  GFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKD 152
            F  R I LYG+A M + + + F  +      +TV S NALL AC+ +K + E + ++ +
Sbjct: 112 SFAVRAIILYGRANMLDRSIQTFRNLEQYEIPRTVKSLNALLFACLMAKDYKEANRVYLE 171

Query: 153 LPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNG 212
           +P   GIEPDL +YN +I+   + GS  S+ +++ EME+K I+    +F  ++ GFY   
Sbjct: 172 MPKMYGIEPDLETYNRMIRVLCESGSTSSSYSIVAEMERKWIKPTAASFGLMIDGFYKEE 231

Query: 213 RFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFY 272
           +F +  K+   M    V   V +YN  +  L   K++ +A  L+  + S  + P+  T+ 
Sbjct: 232 KFDEVRKVMRMMDEFGVHVGVATYNIMIQCLCKRKKSAEAKALIDGVMSCRMRPNSVTYS 291

Query: 273 ALIKGFVNEGNLEEAKRWYNKSGCGMNKA---IFKLLVPFVCEKGDLDFAFNLCKRTFSE 329
            LI GF +E NL+EA   +    C   K     +  L+  +C+ GD + A  LC+ +  +
Sbjct: 292 LLIHGFCSEENLDEAMNLFEVMVCNGYKPDSECYFTLIHCLCKGGDFETALILCRESMEK 351

Query: 330 RCLVDQAPLQLVVDRLAKELRVEEAKELVELGK 362
             +   + ++ +V+ LA   +V+EAKEL+ + K
Sbjct: 352 NWVPSFSVMKWLVNGLASRSKVDEAKELIAVVK 384

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FFE3|PP388_ARATH Pentatricopeptide repeat-containing protein At5g16420, mitochondrial OS=Arabidopsis thaliana GN=At5g16420 PE=2 SV=1

 Score =  129 bits (325), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 84/326 (25%), Positives = 160/326 (49%), Gaps = 8/326 (2%)

Query: 53  FRTNTGIYTGTVQRLANAKRFRWIEEIL-EHQKQYKDI-SKEGFTARLIALYGKAAMFEN 110
           F  N   Y   + +L+ A+ F  +E ++ + +  Y  I   E     L+  YG A  +E+
Sbjct: 79  FTHNYDTYHSILFKLSRARAFDPVESLMADLRNSYPPIKCGENLFIDLLRNYGLAGRYES 138

Query: 111 ARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTII 170
           + ++F  +P    +++V S N LL   + +++FD V  +FK+     GI P++ + N ++
Sbjct: 139 SMRIFLRIPDFGVKRSVRSLNTLLNVLIQNQRFDLVHAMFKNSKESFGITPNIFTCNLLV 198

Query: 171 KAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVR 230
           KA   K  ++SA  +L E+   G+  +L+T+ T+L G+ + G    A+++ E M++    
Sbjct: 199 KALCKKNDIESAYKVLDEIPSMGLVPNLVTYTTILGGYVARGDMESAKRVLEEMLDRGWY 258

Query: 231 PNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRW 290
           P+  +Y   +DG     +  +A  ++ +M   EI P+  T+  +I+    E    EA+  
Sbjct: 259 PDATTYTVLMDGYCKLGRFSEAATVMDDMEKNEIEPNEVTYGVMIRALCKEKKSGEARNM 318

Query: 291 YN---KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAK 347
           ++   +     + ++   ++  +CE   +D A  L ++     C+ D A L  ++  L K
Sbjct: 319 FDEMLERSFMPDSSLCCKVIDALCEDHKVDEACGLWRKMLKNNCMPDNALLSTLIHWLCK 378

Query: 348 ELRVEEAKEL---VELGKTNSYCRYN 370
           E RV EA++L    E G   S   YN
Sbjct: 379 EGRVTEARKLFDEFEKGSIPSLLTYN 404

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJE6|PP437_ARATH Putative pentatricopeptide repeat-containing protein At5g59900 OS=Arabidopsis thaliana GN=At5g59900 PE=3 SV=1

 Score =  127 bits (319), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 84/340 (24%), Positives = 154/340 (45%), Gaps = 10/340 (2%)

Query: 7   LLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQR 66
           +L   FS +  A     + S++ G+ K   ++  ++  K+  D G    N  +Y   +  
Sbjct: 323 MLCLRFSPSEAA-----VSSLVEGLRKRGKIEEALNLVKRVVDFG-VSPNLFVYNALIDS 376

Query: 67  LANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQT 126
           L   ++F   E + +   +      +   + LI ++ +    + A     EM     + +
Sbjct: 377 LCKGRKFHEAELLFDRMGKIGLRPNDVTYSILIDMFCRRGKLDTALSFLGEMVDTGLKLS 436

Query: 127 VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLL 186
           V  +N+L+            +G   ++ +K  +EP +V+Y +++  +  KG ++ A  L 
Sbjct: 437 VYPYNSLINGHCKFGDISAAEGFMAEMINK-KLEPTVVTYTSLMGGYCSKGKINKALRLY 495

Query: 187 YEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIE 246
           +EM  KGI   + TF TLL G +  G   DA K++  M   NV+PN  +YN  ++G   E
Sbjct: 496 HEMTGKGIAPSIYTFTTLLSGLFRAGLIRDAVKLFNEMAEWNVKPNRVTYNVMIEGYCEE 555

Query: 247 KQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWY---NKSGCGMNKAIF 303
               KA E + EM  K I PD +++  LI G    G   EAK +    +K  C +N+  +
Sbjct: 556 GDMSKAFEFLKEMTEKGIVPDTYSYRPLIHGLCLTGQASEAKVFVDGLHKGNCELNEICY 615

Query: 304 KLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVD 343
             L+   C +G L+ A ++C+        +D     +++D
Sbjct: 616 TGLLHGFCREGKLEEALSVCQEMVQRGVDLDLVCYGVLID 655

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	377
255555097	377	pentatricopeptide repeat-containing prot	0.981	0.981	0.621	1e-124
359496226	382	PREDICTED: pentatricopeptide repeat-cont	1.0	0.986	0.594	1e-118
359496216	383	PREDICTED: pentatricopeptide repeat-cont	1.0	0.984	0.592	1e-118
224076660	381	predicted protein [Populus trichocarpa]	0.994	0.984	0.584	1e-118
388512253	376	unknown [Medicago truncatula]	0.984	0.986	0.568	1e-118
147791424	383	hypothetical protein VITISV_005999 [Viti	1.0	0.984	0.587	1e-116
296090624	379	unnamed protein product [Vitis vinifera]	0.915	0.910	0.602	1e-114
356521277	379	PREDICTED: pentatricopeptide repeat-cont	0.973	0.968	0.566	1e-114
356524760	381	PREDICTED: pentatricopeptide repeat-cont	0.938	0.929	0.571	1e-111
224114227	396	predicted protein [Populus trichocarpa]	0.992	0.944	0.551	1e-109

>gi|255555097|ref|XP_002518586.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223542431|gb|EEF43973.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  449 bits (1156), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 235/378 (62%), Positives = 281/378 (74%), Gaps = 8/378 (2%)

Query: 1   MSFPSRLLS--CSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTG 58
           M+F  RLLS  CS ST  T TG     S ++ +YKE NLKRLV+KFKK S+  RFRT TG
Sbjct: 1   MAFVIRLLSRTCSTSTQLT-TGTAARASSVKVLYKERNLKRLVEKFKKFSENDRFRTKTG 59

Query: 59  IYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEM 118
           IY  T++RLA AKRF WIEEILE QK+YKDI KEG+ ARLI LYGK+ MF+N+RKVFDEM
Sbjct: 60  IYEETIRRLAIAKRFNWIEEILEDQKKYKDIHKEGYNARLIRLYGKSNMFDNSRKVFDEM 119

Query: 119 PGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS 178
           P RNC++TV+SFNALL ACV SKKFDEVDGLF+ LP +L I+PD VSYNT+IK + + G+
Sbjct: 120 PDRNCKRTVVSFNALLAACVTSKKFDEVDGLFRKLPKELEIKPDTVSYNTVIKGYCEMGA 179

Query: 179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNA 238
           LD A +LL EME KG   DLITFNTLL GFYSNG F D E+IW  MV  ++ P++RSYNA
Sbjct: 180 LDKAISLLVEMEMKGNPPDLITFNTLLNGFYSNGLFVDGERIWSQMVQKSIVPDIRSYNA 239

Query: 239 RLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWY----NKS 294
           +L GLA+ K+TK A+ L+ EM+SK I PDV +F ALIKGFV E NLEEAK WY    N  
Sbjct: 240 KLLGLALVKRTKDAVLLLQEMKSKGIKPDVISFNALIKGFVKEENLEEAKYWYCETRNSG 299

Query: 295 G-CGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEE 353
           G CG +K  F  L+PFVCEKGDL FAF L K   S +CLVD A L+ VV+ L KE ++++
Sbjct: 300 GDCGPDKFTFTTLIPFVCEKGDLRFAFELSKDVISRKCLVDMALLKCVVEGLVKESKIQD 359

Query: 354 AKELVELGKTNSYCRYNL 371
           A ELV+LG  N YCRY L
Sbjct: 360 ANELVKLGMNNGYCRYQL 377

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496226|ref|XP_003635182.1| PREDICTED: pentatricopeptide repeat-containing protein At3g13160, mitochondrial-like [Vitis vinifera]

 Score =  432 bits (1110), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 227/382 (59%), Positives = 279/382 (73%), Gaps = 5/382 (1%)

Query: 1   MSFPSRLLSCSFSTTATATGPKF--IGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTG 58
           MSF SR L  +FST+  AT      + SV + IY+E NLKRLV KFKKSS+L RFRT TG
Sbjct: 1   MSFLSRRLYRAFSTSTAATAQATGNLESVFKDIYRERNLKRLVQKFKKSSELDRFRTKTG 60

Query: 59  IYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEM 118
           IY  TV+RLA+AKRFRWIEEILE QK+YKDIS+EGF  RLI LYGK+ MF++A KVFDEM
Sbjct: 61  IYEETVRRLASAKRFRWIEEILEEQKKYKDISREGFAVRLITLYGKSGMFDHAFKVFDEM 120

Query: 119 PGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS 178
           P + CE++VLSFNALLGACVNSKKFD+V+G F +LP KL +EPDLVSYN +I    D GS
Sbjct: 121 PDQKCERSVLSFNALLGACVNSKKFDKVEGFFSELPSKLSVEPDLVSYNIVINGLCDMGS 180

Query: 179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNA 238
           +DSA  +L EMEKK +  DLITFNTLL G Y++GRF D EKIW  M   N+ P++RSYNA
Sbjct: 181 MDSAVGMLDEMEKKSLEPDLITFNTLLNGCYTSGRFLDGEKIWGRMEKKNILPDIRSYNA 240

Query: 239 RLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNK---SG 295
           +L GL  EK+  + + LV EM++K I PD ++F ALIKGF N+G ++EA  WY K   + 
Sbjct: 241 KLVGLVSEKRMLEGIGLVEEMQTKGIKPDGYSFNALIKGFCNDGKVDEATNWYGKMREND 300

Query: 296 CGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAK 355
           C  +K  F  LVP  CEKG  D AF LCK  F+ +CLVD+  LQ  VD L K  +V EAK
Sbjct: 301 CLPDKLTFATLVPLYCEKGSFDQAFELCKEIFNRKCLVDEVLLQNAVDGLVKGGKVVEAK 360

Query: 356 ELVELGKTNSYCRYNLKFPSEE 377
           +LV+LG +NSY RYNLK P+++
Sbjct: 361 KLVQLGNSNSYRRYNLKIPTDK 382

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496216|ref|XP_002268636.2| PREDICTED: pentatricopeptide repeat-containing protein At3g13160, mitochondrial [Vitis vinifera]

 Score =  431 bits (1107), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 227/383 (59%), Positives = 282/383 (73%), Gaps = 6/383 (1%)

Query: 1   MSFPSRLLSCSFSTTATATGPKF--IGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTG 58
           MSF SR L  +FST+  AT      + SV + IY+E NLKRLV KFKKSS+L RFRT TG
Sbjct: 1   MSFLSRRLYRAFSTSTAATAQATGNLESVFKDIYRERNLKRLVQKFKKSSELDRFRTKTG 60

Query: 59  IYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEM 118
           IY  TV+RLA+AKRFRWIEEILE QK+YKDIS+EGF  RLI+LYGK+ MF++A KVFDEM
Sbjct: 61  IYEETVRRLASAKRFRWIEEILEEQKKYKDISREGFAVRLISLYGKSGMFDHAFKVFDEM 120

Query: 119 PGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS 178
           P + CE++VLSFNALLGACV+SKKFD+V+G F +LP KL +EPDLVSYN +IK   D GS
Sbjct: 121 PDQKCERSVLSFNALLGACVHSKKFDKVEGFFSELPSKLSVEPDLVSYNIVIKGLCDMGS 180

Query: 179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNA 238
           +DSA  +L EMEKK +  DLITFNTLL G Y++GRF D EKIW  M   N+ P++RSYNA
Sbjct: 181 MDSAVGMLDEMEKKSLEPDLITFNTLLNGCYTSGRFLDGEKIWGRMEKKNILPDIRSYNA 240

Query: 239 RLDGL-AIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNK---S 294
           +L GL + EK+  + + LV EM++K I PD ++F ALIKGF N+G ++EA  WY K   +
Sbjct: 241 KLVGLVSSEKRMLEGIGLVEEMQTKGIKPDGYSFNALIKGFCNDGKVDEATNWYGKMREN 300

Query: 295 GCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEA 354
            C  +K  F  LVP  CEKG  D AF LCK  F+ +CLVD+  LQ  VD L K  +V EA
Sbjct: 301 DCSPDKLTFATLVPLYCEKGSFDQAFELCKEIFNRKCLVDEVLLQNAVDGLVKGGKVVEA 360

Query: 355 KELVELGKTNSYCRYNLKFPSEE 377
           K+LV+LG +NSY RYNLK P+++
Sbjct: 361 KKLVQLGNSNSYRRYNLKIPTDK 383

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224076660|ref|XP_002304977.1| predicted protein [Populus trichocarpa] gi|222847941|gb|EEE85488.1| predicted protein [Populus trichocarpa]

 Score =  430 bits (1106), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 222/380 (58%), Positives = 282/380 (74%), Gaps = 5/380 (1%)

Query: 1   MSFPSRLLSCSFST--TATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTG 58
           MS  SRL   +FST  +A AT    + S+   +++E +LKRLV+KFKK+S+  RFRT + 
Sbjct: 1   MSALSRLFRSTFSTATSAAATENTIVRSLSNEVFRERSLKRLVEKFKKASENERFRTKSA 60

Query: 59  IYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEM 118
           IY  T++RLA AK+FR++EEILE+QKQY+D+SKEGF ARLI+LYG + MF+NARKVFDEM
Sbjct: 61  IYKDTIRRLAAAKKFRYVEEILENQKQYQDMSKEGFNARLISLYGSSGMFDNARKVFDEM 120

Query: 119 PGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS 178
             R C +TVLSFNALLGACVNSKKFDEV GLF+ L  +L IEPDLVSYNT++KAF + GS
Sbjct: 121 LERKCARTVLSFNALLGACVNSKKFDEVGGLFRGLSEELEIEPDLVSYNTVMKAFCEMGS 180

Query: 179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNA 238
           LDSA +LL E+EKKG++ DLITFNTLL G Y+NGRF   E+IW+ M   NV+P+ RSYN 
Sbjct: 181 LDSAVSLLDEIEKKGLKPDLITFNTLLNGLYANGRFDAGERIWQRMKEKNVKPDGRSYNE 240

Query: 239 RLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSG 295
           +L GLA+EK+ K A ++V EM+S+ I  D+F++ ALI+GFVNEG+LEEAK WY    KS 
Sbjct: 241 KLLGLALEKRMKDATKVVEEMKSEGIEFDIFSYNALIRGFVNEGDLEEAKGWYGEIRKSD 300

Query: 296 CGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAK 355
              +K  FK L+PFV EKGD+ FAF+LCK   S +  V +A +Q V+D LAKE ++ EAK
Sbjct: 301 IKPDKLTFKTLIPFVVEKGDVAFAFDLCKDALSSKLAVKEALIQPVLDALAKESKINEAK 360

Query: 356 ELVELGKTNSYCRYNLKFPS 375
           ELVEL K        L  PS
Sbjct: 361 ELVELSKARRSDSLKLTLPS 380

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388512253|gb|AFK44188.1| unknown [Medicago truncatula]

 Score =  429 bits (1104), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 213/375 (56%), Positives = 272/375 (72%), Gaps = 4/375 (1%)

Query: 6   RLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQ 65
           R+L  S  T  T   P  I S+ + +YKE NLK LV+KFKK+SD+ RFR   GIY  TV+
Sbjct: 3   RILQRSVHTI-TEKSPNNIKSISQDLYKEQNLKTLVEKFKKASDIDRFRKKNGIYEDTVR 61

Query: 66  RLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQ 125
           RLA AKRFRW+ +I+EHQK Y DIS EGF+ARLI LYGK+ M  +A+K+FDEMP RNCE+
Sbjct: 62  RLAGAKRFRWVRDIIEHQKSYADISNEGFSARLITLYGKSNMHRHAQKLFDEMPQRNCER 121

Query: 126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTL 185
           +VLS NALL A ++SK++D V+ LFK LP +L ++PDLVSYNT IKA ++KGS DSA ++
Sbjct: 122 SVLSLNALLAAYLHSKQYDVVERLFKKLPVQLSVKPDLVSYNTYIKALLEKGSFDSAVSV 181

Query: 186 LYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAI 245
           L EMEK G+  DLITFNTLL G YS GRF D EK+WE +   NV PN+R+YNARL GLA+
Sbjct: 182 LEEMEKDGVESDLITFNTLLDGLYSKGRFEDGEKLWEKLGEKNVVPNIRTYNARLLGLAV 241

Query: 246 EKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWY---NKSGCGMNKAI 302
            K+  +A+E   EM  K + PD+F+F ALIKGF NEGNL+EAK+W+    KS    +K  
Sbjct: 242 AKRAGEAVEFYEEMEKKGVKPDLFSFNALIKGFANEGNLDEAKKWFGEIEKSEHDPSKRT 301

Query: 303 FKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK 362
           + ++VPF+CEKGDL  A  + K+ F  RC VD + L++VV +L  E  V EAKE+VE GK
Sbjct: 302 YAIIVPFLCEKGDLKTAIEMVKQIFLTRCRVDVSLLRIVVGKLVSESMVSEAKEIVERGK 361

Query: 363 TNSYCRYNLKFPSEE 377
            NSYCRY L FP++E
Sbjct: 362 NNSYCRYKLNFPADE 376

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147791424|emb|CAN76851.1| hypothetical protein VITISV_005999 [Vitis vinifera]

 Score =  425 bits (1092), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 225/383 (58%), Positives = 279/383 (72%), Gaps = 6/383 (1%)

Query: 1   MSFPSRLLSCSFSTTATATGPKF--IGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTG 58
           MSF SR L  +FST+  AT      + SV + IY+E NLKRLV KFKKSS+L RFRT TG
Sbjct: 1   MSFLSRRLYRAFSTSTAATAQATGNLESVFKDIYRERNLKRLVQKFKKSSELDRFRTKTG 60

Query: 59  IYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEM 118
           IY  TV+RLA+AKRFRWIEEILE QK+YKDIS+EGF  RLI+LYGK+ MF++A KVFDEM
Sbjct: 61  IYEETVRRLASAKRFRWIEEILEEQKKYKDISREGFAVRLISLYGKSGMFDHAFKVFDEM 120

Query: 119 PGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS 178
           P + CE++VLSFN LLGACV SKKFD+V+G F +LP KL +EPDLVSYN +IK   D GS
Sbjct: 121 PDQKCERSVLSFNXLLGACVXSKKFDKVEGFFSELPSKLSVEPDLVSYNIVIKGLCDMGS 180

Query: 179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNA 238
           +DSA  +L EMEKK +  DLITFNTLL   Y++GRF D EKIW  M   N+ P++RSYNA
Sbjct: 181 MDSAVGMLDEMEKKSLEPDLITFNTLLNRXYTSGRFLDGEKIWGRMEKKNILPDIRSYNA 240

Query: 239 RLDGL-AIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNK---S 294
           +L GL + EK+  + + LV EM++K I PD ++F ALIKGF N+G ++EA  WY K   +
Sbjct: 241 KLVGLVSSEKRMLEGIGLVEEMQTKGIKPDGYSFNALIKGFCNDGKVDEATNWYGKMREN 300

Query: 295 GCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEA 354
            C  +K  F  LVP  CEKG  D AF LCK  F+ +CLVD+  LQ  VD L K  +V EA
Sbjct: 301 DCSPDKLTFATLVPLYCEKGSFDQAFELCKEIFNRKCLVDEVLLQNAVDGLVKGGKVVEA 360

Query: 355 KELVELGKTNSYCRYNLKFPSEE 377
           K+LV+LG +NSY RYNLK P+++
Sbjct: 361 KKLVQLGNSNSYRRYNLKIPTDK 383

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296090624|emb|CBI41008.3| unnamed protein product [Vitis vinifera]

 Score =  417 bits (1073), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 211/350 (60%), Positives = 263/350 (75%), Gaps = 5/350 (1%)

Query: 11  SFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANA 70
           S S TA ATG   + SV + IY+E NLKRLV KFKKSS+L RFRT TGIY  TV+RLA+A
Sbjct: 23  SPSATAQATGN--LESVFKDIYRERNLKRLVQKFKKSSELDRFRTKTGIYEETVRRLASA 80

Query: 71  KRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSF 130
           KRFRWIEEILE QK+YKDIS+EGF  RLI+LYGK+ MF++A KVFDEMP + CE++VLSF
Sbjct: 81  KRFRWIEEILEEQKKYKDISREGFAVRLISLYGKSGMFDHAFKVFDEMPDQKCERSVLSF 140

Query: 131 NALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEME 190
           NALLGACV+SKKFD++DG F++LP  LG+ PD+VSYN I+ AF + GSLDSA ++L EME
Sbjct: 141 NALLGACVHSKKFDKIDGFFQELPGNLGVVPDVVSYNIIVNAFCEMGSLDSALSVLDEME 200

Query: 191 KKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTK 250
           K G+  DLITFNTLL  FY NG +AD EKIW+ M   NV PNVRSYNA+L G+  E +  
Sbjct: 201 KVGLEPDLITFNTLLNAFYQNGSYADGEKIWDLMKKNNVAPNVRSYNAKLRGVISENRMS 260

Query: 251 KALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLV 307
           +A+EL+ EM++  I PDVFT  +L+KGF N GNLEEAKRWY+   ++     +A +  L+
Sbjct: 261 EAVELIDEMKTSGIKPDVFTLNSLMKGFCNAGNLEEAKRWYSEIARNELPPVRATYMTLI 320

Query: 308 PFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKEL 357
           PF+ EKGD D A  LCK   S R L++ A LQ V++ L KE ++EEA EL
Sbjct: 321 PFLVEKGDFDMATELCKEVCSRRWLIEPALLQQVLEGLVKESKIEEATEL 370

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356521277|ref|XP_003529283.1| PREDICTED: pentatricopeptide repeat-containing protein At1g55890, mitochondrial-like [Glycine max]

 Score =  417 bits (1072), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 210/371 (56%), Positives = 266/371 (71%), Gaps = 4/371 (1%)

Query: 10  CSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLAN 69
           C+ +  AT      I S+   +YKE  LK +V+KFKK+SD  RFR  TGIY  TV+RLA 
Sbjct: 10  CTATEPATTIAAS-IRSISEDLYKEVKLKNVVEKFKKASDNDRFRKKTGIYEDTVRRLAG 68

Query: 70  AKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLS 129
           A+RFRW+ +ILEHQKQY DIS EGF+ARLI+LYGK+ M ++ARKVFDEMP RNC +TVLS
Sbjct: 69  ARRFRWVRDILEHQKQYSDISNEGFSARLISLYGKSGMTKHARKVFDEMPQRNCSRTVLS 128

Query: 130 FNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEM 189
            NALL A ++S K+D V  LF+DLP +L I+PDLV+YNTIIKAF +KGS DSA ++L E+
Sbjct: 129 LNALLAAYLHSHKYDVVQELFRDLPTQLSIKPDLVTYNTIIKAFCEKGSFDSALSVLREI 188

Query: 190 EKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQT 249
           E+KG+  D ITFNTLL G YS GRF + EK+WE M   NV P VRSY ++L GLA  K+ 
Sbjct: 189 EEKGLSPDSITFNTLLDGLYSKGRFEEGEKVWEQMSVNNVAPGVRSYCSKLVGLAEVKKA 248

Query: 250 KKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLL 306
            +A+EL  EM    + PD+F   A+IKGFVNEGNL+EAK+W+    KS    +K  + ++
Sbjct: 249 GEAVELFREMEKVGVKPDLFCINAVIKGFVNEGNLDEAKKWFGEIAKSEYDPDKNTYSII 308

Query: 307 VPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSY 366
           VPF+CEKGD   A  +CK  F+ RC VD   LQ VVD+LA E  + EAKE+VE+GKTN Y
Sbjct: 309 VPFLCEKGDFKTAIEMCKEIFNNRCRVDATLLQGVVDKLASEGMITEAKEIVEIGKTNRY 368

Query: 367 CRYNLKFPSEE 377
           CRY L  P++E
Sbjct: 369 CRYRLDLPAKE 379

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524760|ref|XP_003530996.1| PREDICTED: pentatricopeptide repeat-containing protein At1g55890, mitochondrial-like [Glycine max]

 Score =  407 bits (1045), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 204/357 (57%), Positives = 260/357 (72%), Gaps = 3/357 (0%)

Query: 24  IGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQ 83
           I S+   +YKE  LK +V+KFKK+SD+ RFR  TGIY  TV+RLA A+RFRWI +ILEHQ
Sbjct: 25  IKSISEDLYKEVKLKNVVEKFKKASDIDRFRKKTGIYEDTVRRLAGARRFRWIRDILEHQ 84

Query: 84  KQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKF 143
           KQY DIS EGF+ARLI+LYGK+ M ++ARKVFDEMP RNC +TVLS NALL A ++S+K+
Sbjct: 85  KQYSDISNEGFSARLISLYGKSGMTKHARKVFDEMPQRNCSRTVLSLNALLAAYLHSRKY 144

Query: 144 DEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNT 203
           D V  LF+DLP +L I+PDLV+YNTIIKAF +KGS DSA ++  E+E+KG+  D ITFNT
Sbjct: 145 DIVGELFRDLPTQLSIKPDLVTYNTIIKAFCEKGSFDSALSVFQEIEEKGLSPDSITFNT 204

Query: 204 LLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKE 263
           LL G YS GRF + EK+WE M   NV P VRSY ++L GLA  K+  +A+ L  EM    
Sbjct: 205 LLDGLYSKGRFEEGEKVWEQMGVKNVAPGVRSYCSKLVGLAEVKKMGEAVVLFREMEKLG 264

Query: 264 INPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEKGDLDFAF 320
           + PD+F   A+IKGFVNEGNL+EAK+W+    K     ++  + ++VPF+CEKGD   A 
Sbjct: 265 VKPDLFCINAVIKGFVNEGNLDEAKKWFGEIAKFEYDPDRNTYSIIVPFLCEKGDFKTAI 324

Query: 321 NLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYNLKFPSEE 377
           ++CK  F+ RC VD   LQ VVD+LA E    EAKE+VE+GKTN YCRY L  P+E+
Sbjct: 325 DMCKEIFNNRCRVDATLLQGVVDKLASEGMDTEAKEIVEIGKTNRYCRYRLDLPAEK 381

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114227|ref|XP_002316702.1| predicted protein [Populus trichocarpa] gi|222859767|gb|EEE97314.1| predicted protein [Populus trichocarpa]

 Score =  401 bits (1031), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 209/379 (55%), Positives = 269/379 (70%), Gaps = 5/379 (1%)

Query: 1   MSFPSRLLSCSF--STTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTG 58
           MS   RLL  +   ST+A A+      S    I KE NL+ LV+KFK +S    FRT T 
Sbjct: 1   MSSLLRLLGRALPASTSAAASDTIKAKSYWTEIIKERNLEHLVEKFKNASVDEDFRTKTF 60

Query: 59  IYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEM 118
           +Y  ++ RLA A++F ++EEILE QKQY+DI KEGF ARLI+LYG A MF+NARKVFDEM
Sbjct: 61  VYKNSIHRLAAARKFNYVEEILEDQKQYEDIYKEGFNARLISLYGVAGMFDNARKVFDEM 120

Query: 119 PGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS 178
             R C +TV+SFNALLGACVNSKKFDE +GLFK L  +L IEPDLVSYNT++KAF + GS
Sbjct: 121 FERKCARTVVSFNALLGACVNSKKFDEAEGLFKGLSKELEIEPDLVSYNTVLKAFCEMGS 180

Query: 179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNA 238
           +DSA TLL EMEKKG+  DLITFNTLL GFY+ GRF D E+IWE M   NV P++RSYNA
Sbjct: 181 MDSAATLLDEMEKKGLEPDLITFNTLLHGFYAKGRFVDGERIWEQMKEKNVEPDIRSYNA 240

Query: 239 RLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSG 295
           +L GL +EK+ +  +++V EM+S+ I  D F++  LI+GFVNEG+L++AK WY+   +SG
Sbjct: 241 KLLGLTLEKRMEDVVKVVEEMKSEGIQLDTFSYSTLIRGFVNEGDLKKAKHWYHEIGRSG 300

Query: 296 CGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAK 355
           C  +K   + L+PF  +KGD  FA+ +CK     + LV  A +Q VVD LAK+ R+EEAK
Sbjct: 301 CKRDKLTLEGLIPFALQKGDFMFAYGICKDVLCSKLLVQNALIQSVVDALAKDSRLEEAK 360

Query: 356 ELVELGKTNSYCRYNLKFP 374
           +LV LG++     Y L+ P
Sbjct: 361 KLVGLGESCRAHSYKLELP 379

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	377
TAIR|locus:2090034	394	AT3G13160 [Arabidopsis thalian	0.978	0.936	0.52	5.8e-98
TAIR|locus:2012120	398	AT1G55890 [Arabidopsis thalian	0.960	0.909	0.517	5.3e-95
TAIR|locus:2090014	551	AT3G13150 "AT3G13150" [Arabido	0.960	0.656	0.427	1.7e-73
TAIR|locus:2036833	408	PPR336 "pentatricopeptide repe	0.944	0.872	0.303	2.4e-44
TAIR|locus:2016249	397	AT1G80150 "AT1G80150" [Arabido	0.867	0.823	0.315	5.2e-42
TAIR|locus:2046288	418	AT2G18520 [Arabidopsis thalian	0.787	0.710	0.347	8.4e-42
TAIR|locus:2115375	412	AT4G36680 [Arabidopsis thalian	0.923	0.844	0.292	1.2e-40
TAIR|locus:2027387	405	AT1G11630 [Arabidopsis thalian	0.872	0.812	0.297	6.1e-39
TAIR|locus:2171352	535	AT5G16420 "AT5G16420" [Arabido	0.843	0.594	0.257	3.4e-30
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.692	0.349	0.283	1.2e-29

TAIR|locus:2090034 AT3G13160 [Arabidopsis thaliana (taxid:3702)]

 Score = 973 (347.6 bits), Expect = 5.8e-98, P = 5.8e-98
 Identities = 195/375 (52%), Positives = 260/375 (69%)

Query:     6 RLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQ 65
             R  S   +  AT + PK   S+I  +  E + K + +KFKK+     FR N  +Y  TV+
Sbjct:    22 RFFSAVTAAAATPSPPK--PSLITLVNDERDPKFITEKFKKACQAEWFRKNIAVYERTVR 79

Query:    66 RLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQ 125
             RLA AK+F W+EEILE Q +Y ++SKEGF AR+I LYG+  MFENA+KVFDEMP RNC++
Sbjct:    80 RLAAAKKFEWVEEILEEQNKYPNMSKEGFVARIINLYGRVGMFENAQKVFDEMPERNCKR 139

Query:   126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTL 185
             T LSFNALL ACVNSKKFD V+G+FK+LP KL IEPD+ SYNT+IK    KGS   A  L
Sbjct:   140 TALSFNALLNACVNSKKFDLVEGIFKELPGKLSIEPDVASYNTLIKGLCGKGSFTEAVAL 199

Query:   186 LYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAI 245
             + E+E KG++ D ITFN LL   Y+ G+F + E+IW  MV  NV+ ++RSYNARL GLA+
Sbjct:   200 IDEIENKGLKPDHITFNILLHESYTKGKFEEGEQIWARMVEKNVKRDIRSYNARLLGLAM 259

Query:   246 EKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAI 302
             E ++++ + L  +++  E+ PDVFTF A+IKGFV+EG L+EA  WY    K+GC   K +
Sbjct:   260 ENKSEEMVSLFDKLKGNELKPDVFTFTAMIKGFVSEGKLDEAITWYKEIEKNGCRPLKFV 319

Query:   303 FKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK 362
             F  L+P +C+ GDL+ A+ LCK  F++R LVD+A LQ VVD L K  + +EA+E+VEL K
Sbjct:   320 FNSLLPAICKAGDLESAYELCKEIFAKRLLVDEAVLQEVVDALVKGSKQDEAEEIVELAK 379

Query:   363 TNSYCRYNLK-FPSE 376
             TN Y +  L+ FP E
Sbjct:   380 TNDYLQCKLRLFPKE 394

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0034968 "histone lysine methylation" evidence=RCA

TAIR|locus:2012120 AT1G55890 [Arabidopsis thaliana (taxid:3702)]

 Score = 945 (337.7 bits), Expect = 5.3e-95, P = 5.3e-95
 Identities = 191/369 (51%), Positives = 261/369 (70%)

Query:    13 STTATATGP-KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAK 71
             + TA  + P K + S++ G   E N KR+V+KFKK+ +  RFRTN  +Y  TV+RL  AK
Sbjct:    32 AVTAAISPPQKSLTSLVNG---ERNPKRIVEKFKKACESERFRTNIAVYDRTVRRLVAAK 88

Query:    72 RFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFN 131
             R  ++EEILE QK+Y+D+SKEGF AR+I+LYGKA MFENA+KVF+EMP R+C+++VLSFN
Sbjct:    89 RLHYVEEILEEQKKYRDMSKEGFAARIISLYGKAGMFENAQKVFEEMPNRDCKRSVLSFN 148

Query:   132 ALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEK 191
             ALL A   SKKFD V+ LF +LP KL I+PD+VSYNT+IKA  +K SL  A  LL E+E 
Sbjct:   149 ALLSAYRLSKKFDVVEELFNELPGKLSIKPDIVSYNTLIKALCEKDSLPEAVALLDEIEN 208

Query:   192 KGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKK 251
             KG++ D++TFNTLLL  Y  G+F   E+IW  MV  NV  ++R+YNARL GLA E ++K+
Sbjct:   209 KGLKPDIVTFNTLLLSSYLKGQFELGEEIWAKMVEKNVAIDIRTYNARLLGLANEAKSKE 268

Query:   252 ALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVP 308
              + L GE+++  + PDVF+F A+I+G +NEG ++EA+ WY    K G   +KA F LL+P
Sbjct:   269 LVNLFGELKASGLKPDVFSFNAMIRGSINEGKMDEAEAWYKEIVKHGYRPDKATFALLLP 328

Query:   309 FVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCR 368
              +C+ GD + A  L K TFS+R LV Q  LQ +VD L K  + EEA+E+V++ KTN + +
Sbjct:   329 AMCKAGDFESAIELFKETFSKRYLVGQTTLQQLVDELVKGSKREEAEEIVKIAKTNDFLK 388

Query:   369 YNLKFPSEE 377
               L  PS+E
Sbjct:   389 LKLNLPSQE 397

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2090014 AT3G13150 "AT3G13150" [Arabidopsis thaliana (taxid:3702)]

 Score = 742 (266.3 bits), Expect = 1.7e-73, P = 1.7e-73
 Identities = 158/370 (42%), Positives = 228/370 (61%)

Query:     3 FPSRLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTG 62
             FPS+L +   ST +   G +          K + L + V+KFK+S +   FR   G+Y+ 
Sbjct:    38 FPSKLKA---STASVGDGGQSSNDAKDS--KNSKLTQKVEKFKRSCESESFRQVHGLYSA 92

Query:    63 TVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRN 122
              ++RL  AK+F  I+E+L++QK++ DI  E F  R++ LYG + M E+A K+FDEMP  N
Sbjct:    93 FIRRLREAKKFSTIDEVLQYQKKFDDIKSEDFVIRIMLLYGYSGMAEHAHKLFDEMPELN 152

Query:   123 CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSA 182
             CE+TV SFNALL A VNSKK DE    FK+LP KLGI PDLV+YNT+IKA   KGS+D  
Sbjct:   153 CERTVKSFNALLSAYVNSKKLDEAMKTFKELPEKLGITPDLVTYNTMIKALCRKGSMDDI 212

Query:   183 NTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDG 242
              ++  E+EK G   DLI+FNTLL  FY    F + ++IW+ M + N+ PN+RSYN+R+ G
Sbjct:   213 LSIFEELEKNGFEPDLISFNTLLEEFYRRELFVEGDRIWDLMKSKNLSPNIRSYNSRVRG 272

Query:   243 LAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNK---SGCGMN 299
             L   K+   AL L+  M+++ I+PDV T+ ALI  +  + NLEE  + YN+    G   +
Sbjct:   273 LTRNKKFTDALNLIDVMKTEGISPDVHTYNALITAYRVDNNLEEVMKCYNEMKEKGLTPD 332

Query:   300 KAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVE 359
                + +L+P +C+KGDLD A  + +     + L      + VV+RL    +++EA +LV+
Sbjct:   333 TVTYCMLIPLLCKKGDLDRAVEVSEEAIKHKLLSRPNMYKPVVERLMGAGKIDEATQLVK 392

Query:   360 LGKTNSYCRY 369
              GK  SY RY
Sbjct:   393 NGKLQSYFRY 402

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2036833 PPR336 "pentatricopeptide repeat 336" [Arabidopsis thaliana (taxid:3702)]

 Score = 467 (169.5 bits), Expect = 2.4e-44, P = 2.4e-44
 Identities = 110/362 (30%), Positives = 196/362 (54%)

Query:     1 MSFPSRLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIY 60
             +S  S +LS    T  T+       + +  +  E +  R+++  + +S     R +   +
Sbjct:    26 LSSASTILSPDSKTPLTSKEKS--KAALSLLKSEKDPDRILEICRAASLTPDCRIDRIAF 83

Query:    61 TGTVQRLANAKRFRWIEEILEHQKQYK-DISKEGFTARLIALYGKAAMFENARKVFDEMP 119
             +  V+ LA  K F  +  +L+   + + D+  E F A  I LY +A M +++ +VF ++ 
Sbjct:    84 SAAVENLAEKKHFSAVSNLLDGFIENRPDLKSERFAAHAIVLYAQANMLDHSLRVFRDLE 143

Query:   120 GRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSL 179
                  +TV S NALL AC+ +K + E   ++ ++P   GIEPDL +YN +IK F + GS 
Sbjct:   144 KFEISRTVKSLNALLFACLVAKDYKEAKRVYIEMPKMYGIEPDLETYNRMIKVFCESGSA 203

Query:   180 DSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNAR 239
              S+ +++ EME+KGI+ +  +F  ++ GFY+  +  +  K+   M +  V   V +YN R
Sbjct:   204 SSSYSIVAEMERKGIKPNSSSFGLMISGFYAEDKSDEVGKVLAMMKDRGVNIGVSTYNIR 263

Query:   240 LDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGC 296
             +  L   K++K+A  L+  M S  + P+  T+  LI GF NE + EEAK+ +      GC
Sbjct:   264 IQSLCKRKKSKEAKALLDGMLSAGMKPNTVTYSHLIHGFCNEDDFEEAKKLFKIMVNRGC 323

Query:   297 GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKE 356
               +   +  L+ ++C+ GD + A +LCK +  +  +   + ++ +V+ LAK+ +VEEAKE
Sbjct:   324 KPDSECYFTLIYYLCKGGDFETALSLCKESMEKNWVPSFSIMKSLVNGLAKDSKVEEAKE 383

Query:   357 LV 358
             L+
Sbjct:   384 LI 385

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0016020 "membrane" evidence=IDA

GO:0006333 "chromatin assembly or disassembly" evidence=RCA

TAIR|locus:2016249 AT1G80150 "AT1G80150" [Arabidopsis thaliana (taxid:3702)]

 Score = 445 (161.7 bits), Expect = 5.2e-42, P = 5.2e-42
 Identities = 104/330 (31%), Positives = 174/330 (52%)

Query:    34 ENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEG 93
             E + ++L + FK ++       N   +  TV RLA A R  +IE++LEHQK      +EG
Sbjct:    48 ERDPEKLYNLFKANATNRLVIENRFAFEDTVSRLAGAGRLDFIEDLLEHQKTLPQGRREG 107

Query:    94 FTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDL 153
             F  R+I LYGKA M + A   F  M    C+++V SFNA L     +     +     D 
Sbjct:   108 FIVRIIMLYGKAGMTKQALDTFFNMDLYGCKRSVKSFNAALQVLSFNPDLHTIWEFLHDA 167

Query:   154 PHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR 213
             P K GI+ D VS+N  IK+F + G LD A   + EMEK G+  D++T+ TL+   Y + R
Sbjct:   168 PSKYGIDIDAVSFNIAIKSFCELGILDGAYMAMREMEKSGLTPDVVTYTTLISALYKHER 227

Query:   214 FADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYA 273
                   +W  MV    +PN+ ++N R+  L   ++   A +L+  M   ++ PD  T+  
Sbjct:   228 CVIGNGLWNLMVLKGCKPNLTTFNVRIQFLVNRRRAWDANDLLLLMPKLQVEPDSITYNM 287

Query:   274 LIKGFVNEGNLEEAKRWYNKS-GCGM--NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER 330
             +IKGF      + A+R Y    G G   N  I++ ++ ++C+ G+ D A+ +CK    ++
Sbjct:   288 VIKGFFLARFPDMAERVYTAMHGKGYKPNLKIYQTMIHYLCKAGNFDLAYTMCKDCMRKK 347

Query:   331 CLVDQAPLQLVVDRLAKELRVEEAKELVEL 360
                +   +++++  L K+ ++++AK ++EL
Sbjct:   348 WYPNLDTVEMLLKGLVKKGQLDQAKSIMEL 377

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2046288 AT2G18520 [Arabidopsis thaliana (taxid:3702)]

 Score = 443 (161.0 bits), Expect = 8.4e-42, P = 8.4e-42
 Identities = 105/302 (34%), Positives = 164/302 (54%)

Query:    63 TVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRN 122
             TVQRLA ++RF  IE ++E  K    I  E F + LI  YG+A+MF++A K+F+EM    
Sbjct:    73 TVQRLAKSQRFSDIEALIESHKNNPKIKTETFLSTLIRSYGRASMFDHAMKMFEEMDKLG 132

Query:   123 CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLG-IEPDLVSYNTIIKAFVDKGSLDS 181
               +TV+SFNALL AC++S  F+ V  LF + P +   I PD +SY  +IK++ D G  + 
Sbjct:   133 TPRTVVSFNALLAACLHSDLFERVPQLFDEFPQRYNNITPDKISYGMLIKSYCDSGKPEK 192

Query:   182 ANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLD 241
             A  ++ +ME KG+ + +I F T+L   Y NG   +AE +W  MVN     +   YN RL 
Sbjct:   193 AMEIMRDMEVKGVEVTIIAFTTILGSLYKNGLVDEAESLWIEMVNKGCDLDNTVYNVRLM 252

Query:   242 GLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGM-NK 300
               A E   ++  EL+ EM S  + PD  ++  L+  +  +G + EAK+ Y   G    N 
Sbjct:   253 NAAKESP-ERVKELMEEMSSVGLKPDTVSYNYLMTAYCVKGMMSEAKKVYE--GLEQPNA 309

Query:   301 AIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVEL 360
             A F+ L+  +C  G  D    + K++     + D    + + + L K  R+E+A+ +  +
Sbjct:   310 ATFRTLIFHLCINGLYDQGLTVFKKSAIVHKIPDFKTCKHLTEGLVKNNRMEDARGVARI 369

Query:   361 GK 362
              K
Sbjct:   370 VK 371

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2115375 AT4G36680 [Arabidopsis thaliana (taxid:3702)]

 Score = 432 (157.1 bits), Expect = 1.2e-40, P = 1.2e-40
 Identities = 104/356 (29%), Positives = 187/356 (52%)

Query:    13 STTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTG-TVQRLANAK 71
             +TTA ++G   +      + KE++  + +  +   SD      ++      TV+RLA  +
Sbjct:    22 TTTAPSSGKISVSKAKSTLRKEHDPDKALKIYANVSDHSASPVSSRYAQELTVRRLAKCR 81

Query:    72 RFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFN 131
             RF  IE ++E  K    I +E F + LI  YG+A+MF +A + F++M      ++ +SFN
Sbjct:    82 RFSDIETLIESHKNDPKIKEEPFYSTLIRSYGQASMFNHAMRTFEQMDQYGTPRSAVSFN 141

Query:   132 ALLGACVNSKKFDEVDGLFKDLPHKLG-IEPDLVSYNTIIKAFVDKGSLDSANTLLYEME 190
             ALL AC++SK FD+V  LF ++P +   I PD +SY  +IK++ D G+ + A  ++ +M+
Sbjct:   142 ALLNACLHSKNFDKVPQLFDEIPQRYNKIIPDKISYGILIKSYCDSGTPEKAIEIMRQMQ 201

Query:   191 KKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQT- 249
              KG+ +  I F T+L   Y  G    A+ +W  MV      +  +YN R+  ++ +K++ 
Sbjct:   202 GKGMEVTTIAFTTILSSLYKKGELEVADNLWNEMVKKGCELDNAAYNVRI--MSAQKESP 259

Query:   250 KKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNK---SGCGMNKAIFKLL 306
             ++  EL+ EM S  + PD  ++  L+  +   G L+EAK+ Y     + C  N A F+ L
Sbjct:   260 ERVKELIEEMSSMGLKPDTISYNYLMTAYCERGMLDEAKKVYEGLEGNNCAPNAATFRTL 319

Query:   307 VPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK 362
             +  +C     +  + + K++     + D   L+ +V  L +  + ++AK L+   K
Sbjct:   320 IFHLCYSRLYEQGYAIFKKSVYMHKIPDFNTLKHLVVGLVENKKRDDAKGLIRTVK 375

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

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

TAIR|locus:2027387 AT1G11630 [Arabidopsis thaliana (taxid:3702)]

 Score = 416 (151.5 bits), Expect = 6.1e-39, P = 6.1e-39
 Identities = 99/333 (29%), Positives = 174/333 (52%)

Query:    34 ENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYK-DISKE 92
             ENN  R+++  + +S    +  +  I++  V  LA  K F  + ++L+   Q + D   E
Sbjct:    52 ENNPDRILEICRSTSLSPDYHVDRIIFSVAVVTLAREKHFVAVSQLLDGFIQNQPDPKSE 111

Query:    93 GFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKD 152
              F  R I LYG+A M + + + F  +      +TV S NALL AC+ +K + E + ++ +
Sbjct:   112 SFAVRAIILYGRANMLDRSIQTFRNLEQYEIPRTVKSLNALLFACLMAKDYKEANRVYLE 171

Query:   153 LPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNG 212
             +P   GIEPDL +YN +I+   + GS  S+ +++ EME+K I+    +F  ++ GFY   
Sbjct:   172 MPKMYGIEPDLETYNRMIRVLCESGSTSSSYSIVAEMERKWIKPTAASFGLMIDGFYKEE 231

Query:   213 RFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFY 272
             +F +  K+   M    V   V +YN  +  L   K++ +A  L+  + S  + P+  T+ 
Sbjct:   232 KFDEVRKVMRMMDEFGVHVGVATYNIMIQCLCKRKKSAEAKALIDGVMSCRMRPNSVTYS 291

Query:   273 ALIKGFVNEGNLEEAKRWYNKSGCGMNKA---IFKLLVPFVCEKGDLDFAFNLCKRTFSE 329
              LI GF +E NL+EA   +    C   K     +  L+  +C+ GD + A  LC+ +  +
Sbjct:   292 LLIHGFCSEENLDEAMNLFEVMVCNGYKPDSECYFTLIHCLCKGGDFETALILCRESMEK 351

Query:   330 RCLVDQAPLQLVVDRLAKELRVEEAKELVELGK 362
               +   + ++ +V+ LA   +V+EAKEL+ + K
Sbjct:   352 NWVPSFSVMKWLVNGLASRSKVDEAKELIAVVK 384

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2171352 AT5G16420 "AT5G16420" [Arabidopsis thaliana (taxid:3702)]

 Score = 337 (123.7 bits), Expect = 3.4e-30, P = 3.4e-30
 Identities = 84/326 (25%), Positives = 160/326 (49%)

Query:    53 FRTNTGIYTGTVQRLANAKRFRWIEEIL-EHQKQYKDIS-KEGFTARLIALYGKAAMFEN 110
             F  N   Y   + +L+ A+ F  +E ++ + +  Y  I   E     L+  YG A  +E+
Sbjct:    79 FTHNYDTYHSILFKLSRARAFDPVESLMADLRNSYPPIKCGENLFIDLLRNYGLAGRYES 138

Query:   111 ARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTII 170
             + ++F  +P    +++V S N LL   + +++FD V  +FK+     GI P++ + N ++
Sbjct:   139 SMRIFLRIPDFGVKRSVRSLNTLLNVLIQNQRFDLVHAMFKNSKESFGITPNIFTCNLLV 198

Query:   171 KAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVR 230
             KA   K  ++SA  +L E+   G+  +L+T+ T+L G+ + G    A+++ E M++    
Sbjct:   199 KALCKKNDIESAYKVLDEIPSMGLVPNLVTYTTILGGYVARGDMESAKRVLEEMLDRGWY 258

Query:   231 PNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRW 290
             P+  +Y   +DG     +  +A  ++ +M   EI P+  T+  +I+    E    EA+  
Sbjct:   259 PDATTYTVLMDGYCKLGRFSEAATVMDDMEKNEIEPNEVTYGVMIRALCKEKKSGEARNM 318

Query:   291 YNKS---GCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAK 347
             +++        + ++   ++  +CE   +D A  L ++     C+ D A L  ++  L K
Sbjct:   319 FDEMLERSFMPDSSLCCKVIDALCEDHKVDEACGLWRKMLKNNCMPDNALLSTLIHWLCK 378

Query:   348 ELRVEEAKELV---ELGKTNSYCRYN 370
             E RV EA++L    E G   S   YN
Sbjct:   379 EGRVTEARKLFDEFEKGSIPSLLTYN 404

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 288 (106.4 bits), Expect = 1.2e-29, Sum P(2) = 1.2e-29
 Identities = 75/265 (28%), Positives = 128/265 (48%)

Query:    26 SVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQ 85
             ++I+G  KE N  + +    +    G    +   YT  +  +  A       E L+  + 
Sbjct:   315 TLIKGYCKEGNFHQALVMHAEMLRHG-LTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRV 373

Query:    86 YKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALL-GACVNSKKFD 144
                   E     L+  + +      A +V  EM       +V+++NAL+ G CV  K  D
Sbjct:   374 RGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMED 433

Query:   145 EVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTL 204
              +  + +D+  K G+ PD+VSY+T++  F     +D A  +  EM +KGI+ D IT+++L
Sbjct:   434 AI-AVLEDMKEK-GLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSL 491

Query:   205 LLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEI 264
             + GF    R  +A  ++E M+ + + P+  +Y A ++   +E   +KAL+L  EM  K +
Sbjct:   492 IQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMVEKGV 551

Query:   265 NPDVFTFYALIKGFVNEGNLEEAKR 289
              PDV T+  LI G   +    EAKR
Sbjct:   552 LPDVVTYSVLINGLNKQSRTREAKR 576

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

---

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)
Q9LK57	PP226_ARATH	No assigned EC number	0.52	0.9787	0.9365	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

Your Input: GSVIVG00008258001 SubName- Full=Chromosome undetermined scaffold_1327, whole genome shotgun sequence; (382 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

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	377
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	9e-16
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-14
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-09
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-07
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	7e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	3e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-04
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.001
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.001
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001

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

 Score = 78.8 bits (194), Expect = 9e-16
 Identities = 58/246 (23%), Positives = 111/246 (45%), Gaps = 6/246 (2%)

Query: 126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTL 185
           T+ +FN L+  C +S+  D    + + L  + G++ D   Y T+I      G +D+   +
Sbjct: 436 TLSTFNMLMSVCASSQDIDGALRVLR-LVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 186 LYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAI 245
            +EM   G+  ++ TF  L+ G    G+ A A   +  M + NV+P+   +NA +     
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 246 EKQTKKALELVGEMR--SKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNK 300
                +A +++ EM+  +  I+PD  T  AL+K   N G ++ AK  Y    +       
Sbjct: 555 SGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTP 614

Query: 301 AIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVEL 360
            ++ + V    +KGD DFA ++      +    D+     +VD       +++A E+++ 
Sbjct: 615 EVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD 674

Query: 361 GKTNSY 366
            +    
Sbjct: 675 ARKQGI 680

Length = 1060

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

 Score = 74.5 bits (183), Expect = 2e-14
 Identities = 53/193 (27%), Positives = 93/193 (48%), Gaps = 11/193 (5%)

Query: 98  LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKL 157
           LI +Y K    E+AR VFD MP    E+T +++N++L         +E   L+ ++    
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEM-RDS 319

Query: 158 GIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN-GRFAD 216
           G+  D  +++ +I+ F     L+ A      + + G  LD++  NT L+  YS  GR  D
Sbjct: 320 GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVA-NTALVDLYSKWGRMED 378

Query: 217 AEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIK 276
           A  +++ M     R N+ S+NA + G     +  KA+E+   M ++ + P+  TF A++ 
Sbjct: 379 ARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLS 434

Query: 277 GFVNEGNLEEAKR 289
                G  E+   
Sbjct: 435 ACRYSGLSEQGWE 447

Length = 697

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

 Score = 71.4 bits (175), Expect = 2e-13
 Identities = 61/234 (26%), Positives = 114/234 (48%), Gaps = 16/234 (6%)

Query: 97  RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK 156
           R++ ++ K  M  +AR++FDEMP RN    + S+  ++G  V++  + E   LF+++   
Sbjct: 163 RVLLMHVKCGMLIDARRLFDEMPERN----LASWGTIIGGLVDAGNYREAFALFREMWED 218

Query: 157 LGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITF-NTLLLGFYSN-GRF 214
              + +  ++  +++A    GS  +   L   + K G+  D  TF +  L+  YS  G  
Sbjct: 219 GS-DAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGD--TFVSCALIDMYSKCGDI 275

Query: 215 ADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYAL 274
            DA  +++ M          ++N+ L G A+   +++AL L  EMR   ++ D FTF  +
Sbjct: 276 EDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIM 331

Query: 275 IKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKR 325
           I+ F     LE AK+ +    ++G  ++      LV    + G ++ A N+  R
Sbjct: 332 IRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDR 385

Length = 697

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

 Score = 65.7 bits (160), Expect = 2e-11
 Identities = 45/189 (23%), Positives = 95/189 (50%), Gaps = 3/189 (1%)

Query: 98  LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKL 157
           L+     A   + A++V+  +   N + T   +   + +C     +D    ++ D+  K 
Sbjct: 585 LMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK- 643

Query: 158 GIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN-GRFAD 216
           G++PD V ++ ++      G LD A  +L +  K+GI+L  +++++L+ G  SN   +  
Sbjct: 644 GVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM-GACSNAKNWKK 702

Query: 217 AEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIK 276
           A +++E + ++ +RP V + NA +  L    Q  KALE++ EM+   + P+  T+  L+ 
Sbjct: 703 ALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV 762

Query: 277 GFVNEGNLE 285
               + + +
Sbjct: 763 ASERKDDAD 771

Length = 1060

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

 Score = 57.0 bits (139), Expect = 4e-11
 Identities = 18/50 (36%), Positives = 31/50 (62%)

Query: 231 PNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVN 280
           P+V +YN  +DG   + + ++AL+L  EM+ + I P+V+T+  LI G   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 57.0 bits (139), Expect = 5e-11
 Identities = 19/48 (39%), Positives = 33/48 (68%)

Query: 161 PDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGF 208
           PD+V+YNT+I  +  KG ++ A  L  EM+K+GI+ ++ T++ L+ G 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 53.9 bits (131), Expect = 6e-10
 Identities = 17/48 (35%), Positives = 31/48 (64%)

Query: 197 DLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLA 244
           D++T+NTL+ G+   G+  +A K++  M    ++PNV +Y+  +DGL 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 57.2 bits (138), Expect = 7e-09
 Identities = 34/154 (22%), Positives = 74/154 (48%), Gaps = 7/154 (4%)

Query: 86  YKDISKEG------FTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN 139
           Y D+ K+G      F + L+ + G A   + A ++  +   +  +   +S+++L+GAC N
Sbjct: 637 YDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSN 696

Query: 140 SKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLI 199
           +K + +   L++D+   + + P + + N +I A  +   L  A  +L EM++ G+  + I
Sbjct: 697 AKNWKKALELYEDI-KSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTI 755

Query: 200 TFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNV 233
           T++ LL+             +        ++PN+
Sbjct: 756 TYSILLVASERKDDADVGLDLLSQAKEDGIKPNL 789

Length = 1060

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

 Score = 54.5 bits (131), Expect = 6e-08
 Identities = 53/192 (27%), Positives = 89/192 (46%), Gaps = 17/192 (8%)

Query: 98  LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKL 157
           LI +Y K     +AR VFD MP R+C    +S+NA++     + +  E   LF  +  +L
Sbjct: 228 LITMYVKCGDVVSARLVFDRMPRRDC----ISWNAMISGYFENGECLEGLELFFTM-REL 282

Query: 158 GIEPDLVSYNTIIKAFVDKGSLDSANTLLYEME----KKGIRLDLITFNTLLLGFYSNGR 213
            ++PDL++  ++I A      L     L  EM     K G  +D+   N+L+  + S G 
Sbjct: 283 SVDPDLMTITSVISA----CELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS 338

Query: 214 FADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYA 273
           + +AEK++  M       +  S+ A + G        KALE    M    ++PD  T  +
Sbjct: 339 WGEAEKVFSRM----ETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIAS 394

Query: 274 LIKGFVNEGNLE 285
           ++      G+L+
Sbjct: 395 VLSACACLGDLD 406

Length = 857

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

 Score = 54.1 bits (130), Expect = 7e-08
 Identities = 52/188 (27%), Positives = 90/188 (47%), Gaps = 8/188 (4%)

Query: 103 GKA-AMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP 161
           GK  AMFE    VF EM     E  V +F AL+  C  + +  +  G +  +  K  ++P
Sbjct: 486 GKVDAMFE----VFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSK-NVKP 540

Query: 162 DLVSYNTIIKAFVDKGSLDSANTLLYEM--EKKGIRLDLITFNTLLLGFYSNGRFADAEK 219
           D V +N +I A    G++D A  +L EM  E   I  D IT   L+    + G+   A++
Sbjct: 541 DRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKE 600

Query: 220 IWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFV 279
           +++ +   N++     Y   ++  + +     AL +  +M+ K + PD   F AL+    
Sbjct: 601 VYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAG 660

Query: 280 NEGNLEEA 287
           + G+L++A
Sbjct: 661 HAGDLDKA 668

Length = 1060

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

 Score = 47.8 bits (115), Expect = 8e-08
 Identities = 13/47 (27%), Positives = 26/47 (55%), Gaps = 1/47 (2%)

Query: 127 VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAF 173
           V+++N L+       K +E   LF ++  K GI+P++ +Y+ +I   
Sbjct: 3   VVTYNTLIDGYCKKGKVEEALKLFNEM-KKRGIKPNVYTYSILIDGL 48

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

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

 Score = 52.9 bits (127), Expect = 2e-07
 Identities = 30/119 (25%), Positives = 54/119 (45%), Gaps = 4/119 (3%)

Query: 160 EPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEK 219
           E D+VS+N ++  +V  G    A  L   M + G+  D +TF +LL     +G      +
Sbjct: 551 EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLE 610

Query: 220 IWETM-VNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKG 277
            + +M    ++ PN++ Y   +D L    +  +A   + +M    I PD   + AL+  
Sbjct: 611 YFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNA 666

Length = 857

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

 Score = 50.6 bits (121), Expect = 7e-07
 Identities = 33/111 (29%), Positives = 57/111 (51%), Gaps = 19/111 (17%)

Query: 80  LEHQKQ-YKDISKEGF-------TARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFN 131
           LEH KQ +  + + GF       TA L+ LY K    E+AR VFD MP +N    ++S+N
Sbjct: 341 LEHAKQAHAGLIRTGFPLDIVANTA-LVDLYSKWGRMEDARNVFDRMPRKN----LISWN 395

Query: 132 ALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKA-----FVDKG 177
           AL+    N  +  +   +F+ +  + G+ P+ V++  ++ A       ++G
Sbjct: 396 ALIAGYGNHGRGTKAVEMFERMIAE-GVAPNHVTFLAVLSACRYSGLSEQG 445

Length = 697

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

 Score = 41.6 bits (99), Expect = 1e-05
 Identities = 16/33 (48%), Positives = 22/33 (66%)

Query: 158 GIEPDLVSYNTIIKAFVDKGSLDSANTLLYEME 190
           G++PD+V+YNT+I      G +D A  LL EME
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 46.0 bits (109), Expect = 3e-05
 Identities = 37/166 (22%), Positives = 74/166 (44%), Gaps = 3/166 (1%)

Query: 130 FNALLGACVNSKKFDEVDGLFKDLPHKLG-IEPDLVSYNTIIKAFVDKGSLDSANTLLYE 188
           FNAL+ AC  S   D    +  ++  +   I+PD ++   ++KA  + G +D A  +   
Sbjct: 545 FNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQM 604

Query: 189 MEKKGIRLDLITFNTLLLGFYS-NGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEK 247
           + +  I+     + T+ +   S  G +  A  I++ M    V+P+   ++A +D      
Sbjct: 605 IHEYNIKGTPEVY-TIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAG 663

Query: 248 QTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNK 293
              KA E++ + R + I     ++ +L+    N  N ++A   Y  
Sbjct: 664 DLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYED 709

Length = 1060

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

 Score = 39.7 bits (94), Expect = 7e-05
 Identities = 13/42 (30%), Positives = 20/42 (47%)

Query: 98  LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN 139
           LI  Y K    E A K+F+EM  R  +  V +++ L+     
Sbjct: 9   LIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 44.5 bits (105), Expect = 7e-05
 Identities = 41/169 (24%), Positives = 76/169 (44%), Gaps = 15/169 (8%)

Query: 110 NARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKL---GIEPDLVSY 166
           +A  VF +MP R+    + S+N L+G    +  FDE       L H++   G+ PD+ ++
Sbjct: 139 HAWYVFGKMPERD----LFSWNVLVGGYAKAGYFDEA----LCLYHRMLWAGVRPDVYTF 190

Query: 167 NTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVN 226
             +++       L     +   + + G  LD+   N L+  +   G    A  +++ M  
Sbjct: 191 PCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRM-- 248

Query: 227 MNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALI 275
              R +  S+NA + G     +  + LEL   MR   ++PD+ T  ++I
Sbjct: 249 --PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVI 295

Length = 857

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

 Score = 39.3 bits (93), Expect = 7e-05
 Identities = 12/34 (35%), Positives = 22/34 (64%)

Query: 192 KGIRLDLITFNTLLLGFYSNGRFADAEKIWETMV 225
           KG++ D++T+NTL+ G    GR  +A ++ + M 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 38.7 bits (91), Expect = 1e-04
 Identities = 11/33 (33%), Positives = 18/33 (54%)

Query: 163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIR 195
           L +YN ++ A    G  D A  +L EM+  G++
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLK 33

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

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

 Score = 37.8 bits (89), Expect = 2e-04
 Identities = 13/34 (38%), Positives = 20/34 (58%)

Query: 164 VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLD 197
           V+YNT+I      G ++ A  L  EM+++GI  D
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 37.4 bits (88), Expect = 3e-04
 Identities = 12/31 (38%), Positives = 20/31 (64%)

Query: 164 VSYNTIIKAFVDKGSLDSANTLLYEMEKKGI 194
           V+YN++I  +   G L+ A  L  EM++KG+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 37.0 bits (87), Expect = 6e-04
 Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 3/34 (8%)

Query: 266 PDVFTFYALIKGFVNEGNLEEAKRWYN---KSGC 296
           PDV T+  LI G+  +G +EEA + +N   K G 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGI 34

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

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

 Score = 36.3 bits (85), Expect = 8e-04
 Identities = 15/35 (42%), Positives = 22/35 (62%)

Query: 234 RSYNARLDGLAIEKQTKKALELVGEMRSKEINPDV 268
            +YN  +DGL    + ++ALEL  EM+ + I PDV
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 41.0 bits (96), Expect = 0.001
 Identities = 23/89 (25%), Positives = 41/89 (46%)

Query: 98  LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKL 157
           LIA YG       A ++F+ M         ++F A+L AC  S   ++   +F+ +    
Sbjct: 397 LIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENH 456

Query: 158 GIEPDLVSYNTIIKAFVDKGSLDSANTLL 186
            I+P  + Y  +I+    +G LD A  ++
Sbjct: 457 RIKPRAMHYACMIELLGREGLLDEAYAMI 485

Length = 697

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

 Score = 40.6 bits (95), Expect = 0.001
 Identities = 47/236 (19%), Positives = 90/236 (38%), Gaps = 28/236 (11%)

Query: 114 VFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDL----PHKLGIEPDLVSYNTI 169
             D+   R    ++ S    L AC    +  E   LF+ L    P  L       +Y+ +
Sbjct: 77  RLDDTQIRKSGVSLCSQIEKLVAC---GRHREALELFEILEAGCPFTLPAS----TYDAL 129

Query: 170 IKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNV 229
           ++A +   S+     + + +E  G   D    N +LL     G   DA ++++ M     
Sbjct: 130 VEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER-- 187

Query: 230 RPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKR 289
             N+ S+   + GL      ++A  L  EM     + +  TF  +++     G+    ++
Sbjct: 188 --NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQ 245

Query: 290 WYN---KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVV 342
            +    K+G   +  +   L+    + GD++ A          RC+ D  P +  V
Sbjct: 246 LHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDA----------RCVFDGMPEKTTV 291

Length = 697

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

 Score = 40.6 bits (95), Expect = 0.001
 Identities = 49/245 (20%), Positives = 100/245 (40%), Gaps = 21/245 (8%)

Query: 88  DISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVD 147
           D+S       LI +Y     +  A KVF  M  ++     +S+ A++     +   D+  
Sbjct: 322 DVS---VCNSLIQMYLSLGSWGEAEKVFSRMETKD----AVSWTAMISGYEKNGLPDKAL 374

Query: 148 GLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLG 207
             +  +     + PD ++  +++ A    G LD    L    E+KG+   ++  N L+  
Sbjct: 375 ETYALMEQD-NVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALI-E 432

Query: 208 FYSNGRFAD-AEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINP 266
            YS  +  D A +++  +       +V S+ + + GL +  +  +AL    +M    + P
Sbjct: 433 MYSKCKCIDKALEVFHNI----PEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKP 487

Query: 267 DVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEKGDLDFA---F 320
           +  T  A +      G L   K  +    ++G G +  +   L+      G +++A   F
Sbjct: 488 NSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF 547

Query: 321 NLCKR 325
           N  ++
Sbjct: 548 NSHEK 552

Length = 857

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

 Score = 35.9 bits (84), Expect = 0.001
 Identities = 11/35 (31%), Positives = 21/35 (60%)

Query: 199 ITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNV 233
           +T+NTL+ G    GR  +A ++++ M    + P+V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	377
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
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.96
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.95
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.95
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.93
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.91
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.89
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.88
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.88
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.87
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.87
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.86
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
PRK14574	822	hmsH outer membrane protein; Provisional	99.82
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.81
PRK14574	822	hmsH outer membrane protein; Provisional	99.78
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.77
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.76
KOG2076	895	consensus RNA polymerase III transcription factor	99.75
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.75
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.75
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.75
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.74
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.74
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.72
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.71
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.7
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.69
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.69
KOG2076	895	consensus RNA polymerase III transcription factor	99.67
KOG1126	638	consensus DNA-binding cell division cycle control	99.66
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.64
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.63
KOG1126	638	consensus DNA-binding cell division cycle control	99.62
KOG2003	840	consensus TPR repeat-containing protein [General f	99.62
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.61
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.6
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.6
KOG1129	478	consensus TPR repeat-containing protein [General f	99.59
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.58
KOG2003	840	consensus TPR repeat-containing protein [General f	99.57
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.57
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.55
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.55
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.54
PRK12370	553	invasion protein regulator; Provisional	99.53
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.52
PRK12370	553	invasion protein regulator; Provisional	99.52
KOG1129	478	consensus TPR repeat-containing protein [General f	99.51
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.48
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.44
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.43
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.43
PF13041	50	PPR_2: PPR repeat family	99.42
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.42
PF13041	50	PPR_2: PPR repeat family	99.41
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.38
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.38
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.37
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.36
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.36
PRK11189	296	lipoprotein NlpI; Provisional	99.35
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.33
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.33
PRK11189	296	lipoprotein NlpI; Provisional	99.32
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.28
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.25
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.24
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.24
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.22
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.17
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.17
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.17
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.16
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.15
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.14
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.13
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.13
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.12
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.1
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.09
PRK04841	903	transcriptional regulator MalT; Provisional	99.06
KOG1125	579	consensus TPR repeat-containing protein [General f	99.01
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.98
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.98
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.94
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.92
KOG1125	579	consensus TPR repeat-containing protein [General f	98.92
PRK04841	903	transcriptional regulator MalT; Provisional	98.91
PLN02789	320	farnesyltranstransferase	98.9
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.88
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.87
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.87
PF12854	34	PPR_1: PPR repeat	98.86
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.86
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.82
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.82
PF12854	34	PPR_1: PPR repeat	98.82
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.81
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.8
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.8
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.79
PLN02789	320	farnesyltranstransferase	98.78
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.78
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.77
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.76
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.71
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.7
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.69
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.69
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.67
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.67
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.67
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.64
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.63
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.61
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.61
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.61
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.6
PRK15359	144	type III secretion system chaperone protein SscB;	98.59
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.57
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.54
PRK15359	144	type III secretion system chaperone protein SscB;	98.54
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.53
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.51
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.48
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.48
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.43
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.43
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.42
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.39
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.38
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.34
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.32
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.31
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.3
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.28
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.25
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.25
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.24
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.23
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.21
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.15
COG3898	531	Uncharacterized membrane-bound protein [Function u	98.14
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.1
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.09
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.09
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.07
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.05
KOG2041	1189	consensus WD40 repeat protein [General function pr	98.04
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.04
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.99
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.98
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.98
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.97
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.95
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.94
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.93
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.93
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.91
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.91
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.9
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.88
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.88
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.86
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.85
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.85
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.84
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.84
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.83
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.82
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.81
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.78
KOG0553	304	consensus TPR repeat-containing protein [General f	97.77
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.75
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.69
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.67
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.61
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.6
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.59
KOG0553	304	consensus TPR repeat-containing protein [General f	97.59
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.59
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.58
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.56
PF12688	120	TPR_5: Tetratrico peptide repeat	97.56
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.55
PRK15331	165	chaperone protein SicA; Provisional	97.54
PF12688	120	TPR_5: Tetratrico peptide repeat	97.51
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.47
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.44
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.43
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.4
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.39
PF13371	73	TPR_9: Tetratricopeptide repeat	97.39
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.32
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.29
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.28
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.28
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.26
PRK10803	263	tol-pal system protein YbgF; Provisional	97.19
PRK10803	263	tol-pal system protein YbgF; Provisional	97.17
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.16
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.14
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.13
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.1
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	97.1
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.1
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	97.04
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.02
PF13371	73	TPR_9: Tetratricopeptide repeat	97.02
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.95
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.92
PRK15331	165	chaperone protein SicA; Provisional	96.91
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.88
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.85
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.82
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.8
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.79
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.7
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.65
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.63
KOG3941	406	consensus Intermediate in Toll signal transduction	96.55
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.53
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.52
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.45
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.43
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.39
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	96.37
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.36
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.23
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.23
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.11
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.11
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.11
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.1
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.04
PF13428	44	TPR_14: Tetratricopeptide repeat	96.04
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.03
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.0
PF13428	44	TPR_14: Tetratricopeptide repeat	95.98
KOG4555	175	consensus TPR repeat-containing protein [Function	95.96
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.93
COG1747	711	Uncharacterized N-terminal domain of the transcrip	95.9
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.89
KOG1585	308	consensus Protein required for fusion of vesicles	95.86
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.86
KOG3941	406	consensus Intermediate in Toll signal transduction	95.8
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.79
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.75
KOG1585	308	consensus Protein required for fusion of vesicles	95.71
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.68
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.61
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	95.58
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.55
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.54
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.49
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.41
KOG4555	175	consensus TPR repeat-containing protein [Function	95.27
PRK11906	458	transcriptional regulator; Provisional	95.27
PF13512	142	TPR_18: Tetratricopeptide repeat	95.2
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.06
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.99
PF13431	34	TPR_17: Tetratricopeptide repeat	94.83
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.78
PF13512	142	TPR_18: Tetratricopeptide repeat	94.64
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.49
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.47
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	94.46
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.44
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.3
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.29
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.28
PRK11906	458	transcriptional regulator; Provisional	94.23
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.18
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.17
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.16
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.1
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.08
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.03
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.02
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.71
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.67
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.58
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	93.46
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.39
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	93.12
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.12
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.99
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.89
KOG1258	577	consensus mRNA processing protein [RNA processing	92.83
PF13929	292	mRNA_stabil: mRNA stabilisation	92.57
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.57
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.48
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.39
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.38
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.35
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.21
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	92.17
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.15
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.97
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.96
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	91.69
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	91.62
PF13431	34	TPR_17: Tetratricopeptide repeat	91.56
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.51
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.4
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.99
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.84
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	90.83
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.49
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	90.26
KOG4234	271	consensus TPR repeat-containing protein [General f	90.24
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	90.21
KOG1258	577	consensus mRNA processing protein [RNA processing	90.17
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.06
KOG2582	422	consensus COP9 signalosome, subunit CSN3 [Posttran	89.64
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.46
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.31
PF13929	292	mRNA_stabil: mRNA stabilisation	89.25
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	89.07
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	88.71
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	88.69
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.67
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.39
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	88.19
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.02
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	87.93
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	87.77
PRK09687	280	putative lyase; Provisional	87.26
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.69
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	86.43
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	86.42
COG5159	421	RPN6 26S proteasome regulatory complex component [	86.39
PF08311	126	Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro	86.36
KOG0687	393	consensus 26S proteasome regulatory complex, subun	86.32
KOG4279	1226	consensus Serine/threonine protein kinase [Signal	85.62
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	85.31
KOG1586	288	consensus Protein required for fusion of vesicles	84.97
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	84.6
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	83.63
COG1747	711	Uncharacterized N-terminal domain of the transcrip	83.58
COG3947	361	Response regulator containing CheY-like receiver a	83.44
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	82.98
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	82.93
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	81.98
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	81.61
KOG4234	271	consensus TPR repeat-containing protein [General f	81.43
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	81.37
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	81.23
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	81.02
PRK11619	644	lytic murein transglycosylase; Provisional	80.93
KOG4507	886	consensus Uncharacterized conserved protein, conta	80.73
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	80.63
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	80.29

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.7e-59  Score=438.02  Aligned_cols=351  Identities=15%  Similarity=0.214  Sum_probs=341.9

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      |+..+|+.++.+|++.|+++.|.++|+.|.+.| +.||..+|+.+|.+|++.|++++|.++|++|.+.+..|+..+|+.+
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~G-l~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaL  513 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAG-LKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL  513 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            899999999999999999999999999999887 8999999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhh-cCCCcCHHHHHHHHHHHHHcC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK-LGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      +.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|... .|+.||..+|+.++.+|++.|
T Consensus       514 I~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G  593 (1060)
T PLN03218        514 IDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAG  593 (1060)
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCC
Confidence            9999999999999999999999999999999999999999999999999999999753 488999999999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      ++++|.++|+.|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++++
T Consensus       594 ~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~  673 (1060)
T PLN03218        594 QVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQ  673 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 042154          258 EMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVD  334 (377)
Q Consensus       258 ~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  334 (377)
                      +|.+.|+.||..+|+.|+.+|++.|++++|.++|+   ..++.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus       674 eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd  753 (1060)
T PLN03218        674 DARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN  753 (1060)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            99999999999999999999999999999999999   678999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhhccCCceeee
Q 042154          335 QAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYN  370 (377)
Q Consensus       335 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  370 (377)
                      ..||+.++.+|++.|++++|.+++++|.+.|+.+..
T Consensus       754 ~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~  789 (1060)
T PLN03218        754 TITYSILLVASERKDDADVGLDLLSQAKEDGIKPNL  789 (1060)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCH
Confidence            999999999999999999999999999999986643

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.2e-57  Score=426.11  Aligned_cols=349  Identities=18%  Similarity=0.258  Sum_probs=327.2

Q ss_pred             CCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhH
Q 042154           17 TATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTA   96 (377)
Q Consensus        17 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   96 (377)
                      .+++...++.++.+|.+.|.+++|+.+|+.|.     .|+..+|+.++.+|++.|+++.|.++++.|.+.+..|+..+|+
T Consensus       402 v~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~-----~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tyn  476 (1060)
T PLN03218        402 LDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR-----NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYT  476 (1060)
T ss_pred             CCchHHHHHHHHHHHHHCCCHHHHHHHHHHcC-----CCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            34555556666666666666666666666664     2788999999999999999999999999999999999999999


Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHc
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDK  176 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  176 (377)
                      .++.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|... |+.||..+|+.+|.+|++.
T Consensus       477 sLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~-Gv~PD~vTYnsLI~a~~k~  555 (1060)
T PLN03218        477 TLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSK-NVKPDRVVFNALISACGQS  555 (1060)
T ss_pred             HHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHC
Confidence            999999999999999999999999999999999999999999999999999999999776 9999999999999999999


Q ss_pred             CCHHHHHHHHHHHHH--CCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 042154          177 GSLDSANTLLYEMEK--KGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALE  254 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  254 (377)
                      |++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|+.+|.+|++.|++++|.+
T Consensus       556 G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~  635 (1060)
T PLN03218        556 GAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS  635 (1060)
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHH
Confidence            999999999999986  678999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 042154          255 LVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERC  331 (377)
Q Consensus       255 ~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  331 (377)
                      +|++|.+.|+.||..+|+.++.+|++.|++++|.++++   +.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+
T Consensus       636 lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~  715 (1060)
T PLN03218        636 IYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL  715 (1060)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999   889999999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCceeeec
Q 042154          332 LVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYNL  371 (377)
Q Consensus       332 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  371 (377)
                      .||..+|+.||.+|++.|++++|.++|++|.+.|..+...
T Consensus       716 ~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~  755 (1060)
T PLN03218        716 RPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTI  755 (1060)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            9999999999999999999999999999999998766543

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

Probab=100.00  E-value=4.1e-52  Score=387.37  Aligned_cols=336  Identities=19%  Similarity=0.288  Sum_probs=193.7

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      ||..+|+.++.+|++.|++++|+++|++|.+.+ +.|+..+|..++.+|++.|+.+.+.+++..+.+.+..++..+++.|
T Consensus       187 ~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g-~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~L  265 (697)
T PLN03081        187 RNLASWGTIIGGLVDAGNYREAFALFREMWEDG-SDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCAL  265 (697)
T ss_pred             CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHH
Confidence            344455555555555555555555555554433 3333333333333333333333333333333333444455556667


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      +.+|++.|++++|.++|++|..    +|..+|+.++.+|++.|++++|+++|++|.+. |+.||..||+.++.+|++.|+
T Consensus       266 i~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~-g~~pd~~t~~~ll~a~~~~g~  340 (697)
T PLN03081        266 IDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDS-GVSIDQFTFSIMIRIFSRLAL  340 (697)
T ss_pred             HHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhccc
Confidence            7777777777777777777754    46677777777777777777777777777554 777777777777777777777


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGE  258 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (377)
                      +++|.+++..|.+.|+.||..+|+.|+++|++.|++++|.++|++|.+    ||..+||.+|.+|++.|+.++|.++|++
T Consensus       341 ~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~  416 (697)
T PLN03081        341 LEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFER  416 (697)
T ss_pred             hHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHH
Confidence            777777777777766666666666666666655555555555555532    3445555555555555555555555555


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH----hcCCCCCHHHHHHHHHHHHhcCChHHHHHH------------
Q 042154          259 MRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN----KSGCGMNKAIFKLLVPFVCEKGDLDFAFNL------------  322 (377)
Q Consensus       259 ~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~------------  322 (377)
                      |.+.|+.||..||+.++.+|++.|..++|.++|+    ..++.|+..+|+.++++|++.|++++|.++            
T Consensus       417 M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~  496 (697)
T PLN03081        417 MIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNM  496 (697)
T ss_pred             HHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHH
Confidence            5555555555555555555555555555555555    234445555555555555555555555444            


Q ss_pred             --------------------HHHHHhcCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          323 --------------------CKRTFSERCLV-DQAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       323 --------------------~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                                          ++++.+.  .| +..+|..|+..|++.|++++|.++++.|.+.|.
T Consensus       497 ~~~Ll~a~~~~g~~~~a~~~~~~l~~~--~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~  559 (697)
T PLN03081        497 WAALLTACRIHKNLELGRLAAEKLYGM--GPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGL  559 (697)
T ss_pred             HHHHHHHHHHcCCcHHHHHHHHHHhCC--CCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence                                4444332  22 344666666667777777777777777777665

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

Probab=100.00  E-value=9.3e-52  Score=384.96  Aligned_cols=341  Identities=16%  Similarity=0.217  Sum_probs=256.8

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      ..+..+|+.+|.++.+.|++++|+++|++|...+++.|+..+|+.++.+|++.++++.+.+++..+.+.|..|+..+++.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            34555677777777777777777777777766554667777777777777777777777777777777777777777777


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCC-----------------
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIE-----------------  160 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------------  160 (377)
                      ++..|++.|++++|.++|++|.+    ||..+|+.++.+|++.|++++|+++|++|.+. |+.                 
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~-g~~p~~~t~~~ll~a~~~~~  238 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWED-GSDAEPRTFVVMLRASAGLG  238 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHh-CCCCChhhHHHHHHHHhcCC
Confidence            77777777777777777777754    56777777777777777777777777777543 443                 


Q ss_pred             ------------------cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHH
Q 042154          161 ------------------PDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWE  222 (377)
Q Consensus       161 ------------------p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  222 (377)
                                        ||..+|+.++.+|++.|++++|.++|++|..    +|..+|+.++.+|++.|++++|.++|+
T Consensus       239 ~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~  314 (697)
T PLN03081        239 SARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYY  314 (697)
T ss_pred             cHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHH
Confidence                              4444556677777777777777777777753    477788888888888888888888888


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHH
Q 042154          223 TMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAI  302 (377)
Q Consensus       223 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  302 (377)
                      +|.+.|+.||..||+.++.+|++.|++++|.+++.+|.+.|+.||..+|+.|+.+|++.|++++|.++|+... .||..+
T Consensus       315 ~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~-~~d~~t  393 (697)
T PLN03081        315 EMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP-RKNLIS  393 (697)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC-CCCeee
Confidence            8888888888888888888888888888888888888888888888888888888888888888888887443 467788


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc-CCcee
Q 042154          303 FKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKT-NSYCR  368 (377)
Q Consensus       303 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~  368 (377)
                      |+.+|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|.+ .|+.+
T Consensus       394 ~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p  460 (697)
T PLN03081        394 WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKP  460 (697)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC
Confidence            8888888888888888888888888888888888888888888888888888888888865 34443

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.9e-51  Score=390.26  Aligned_cols=338  Identities=16%  Similarity=0.186  Sum_probs=274.2

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      .||..+||.+|.+|++.|++++|+++|++|.+.| +.||..||+.++.+|++.|+.+.+.+++..+.+.|..++..+|+.
T Consensus       250 ~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g-~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~  328 (857)
T PLN03077        250 RRDCISWNAMISGYFENGECLEGLELFFTMRELS-VDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNS  328 (857)
T ss_pred             CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHH
Confidence            4688899999999999999999999999998877 899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      ++.+|++.|++++|.++|++|..    ||..+|+.++.+|++.|++++|+++|++|.+. |+.||..||+.++.+|++.|
T Consensus       329 Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~-g~~Pd~~t~~~ll~a~~~~g  403 (857)
T PLN03077        329 LIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYALMEQD-NVSPDEITIASVLSACACLG  403 (857)
T ss_pred             HHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHh-CCCCCceeHHHHHHHHhccc
Confidence            99999999999999999999975    67889999999999999999999999999766 89999999999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      +++.|.++++.|.+.|+.|+..+|+.|+++|++.|++++|.++|++|.+    +|..+|+.++.+|++.|+.++|+.+|+
T Consensus       404 ~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~  479 (857)
T PLN03077        404 DLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFR  479 (857)
T ss_pred             hHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999998888888888764    455667777777777777777777777


Q ss_pred             HHHhCCCCCCHHHHHHHH-----------------------------------HHHHhcCCHHHHHHHHHhcCCCCCHHH
Q 042154          258 EMRSKEINPDVFTFYALI-----------------------------------KGFVNEGNLEEAKRWYNKSGCGMNKAI  302 (377)
Q Consensus       258 ~~~~~g~~p~~~~~~~l~-----------------------------------~~~~~~~~~~~a~~~~~~~~~~~~~~~  302 (377)
                      +|.. ++.||..||+.++                                   .+|++.|++++|.++|+..  .||..+
T Consensus       480 ~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s  556 (857)
T PLN03077        480 QMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVS  556 (857)
T ss_pred             HHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhh
Confidence            7654 3556555554444                                   4445555555555555533  567777


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhc-cCCcee
Q 042154          303 FKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK-TNSYCR  368 (377)
Q Consensus       303 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~  368 (377)
                      |+++|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|. +.|..+
T Consensus       557 ~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P  623 (857)
T PLN03077        557 WNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITP  623 (857)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCC
Confidence            777777777777777777777777777777777777777777777777777777777776 445433

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=5.2e-51  Score=388.52  Aligned_cols=299  Identities=19%  Similarity=0.259  Sum_probs=231.1

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      +||..+|+.+|.+|++.|++++|+++|+.|...| +.||..||+.++++|+..+++..+.+++..+.+.|..++..+++.
T Consensus       149 ~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g-~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~  227 (857)
T PLN03077        149 ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAG-VRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNA  227 (857)
T ss_pred             CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhH
Confidence            4788999999999999999999999999998776 889999998888888888888888888888888888888888888


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      ++.+|++.|++++|.++|++|..    ||..+|+.+|.+|++.|++++|+++|++|... |+.||..||+.++.+|++.|
T Consensus       228 Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~-g~~Pd~~ty~~ll~a~~~~g  302 (857)
T PLN03077        228 LITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMREL-SVDPDLMTITSVISACELLG  302 (857)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCChhHHHHHHHHHHhcC
Confidence            88888888988888888888875    57788888888888888888888888888665 88888888888888888888


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      +.+.+.+++..|.+.|+.||..+|+.++.+|++.|++++|.++|++|..    ||..+|+.++.+|++.|++++|+++|+
T Consensus       303 ~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf~  378 (857)
T PLN03077        303 DERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYA  378 (857)
T ss_pred             ChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHH
Confidence            8888888888888888777877777777777777777777777776643    566667777777777777777777777


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042154          258 EMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRT  326 (377)
Q Consensus       258 ~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  326 (377)
                      +|.+.|+.||..||+.++.+|++.|++++|.++++   +.|+.|+..+|+.|+.+|++.|++++|.++|++|
T Consensus       379 ~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m  450 (857)
T PLN03077        379 LMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNI  450 (857)
T ss_pred             HHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhC
Confidence            66666666666666666666666666666666555   5555555555555555555555555555555544

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

Probab=99.96  E-value=1.1e-24  Score=211.79  Aligned_cols=332  Identities=12%  Similarity=0.038  Sum_probs=228.0

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      .+...+..++..+...|++++|+..++.+.+..  +.+...|..+...+...|++++|.+.++++.+..+. +...+..+
T Consensus       565 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l  641 (899)
T TIGR02917       565 QEIEPALALAQYYLGKGQLKKALAILNEAADAA--PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPD-SALALLLL  641 (899)
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHH
Confidence            344555666666666666666666666665443  455566666777777777777777777766654322 23334456


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      ...+.+.|++++|..+|+++.+.. +.+..++..++..+...|++++|.++++.+...  .+.+...+..+...+...|+
T Consensus       642 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~  718 (899)
T TIGR02917       642 ADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQ--HPKAALGFELEGDLYLRQKD  718 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCChHHHHHHHHHHHHCCC
Confidence            666777777777777777766543 344666667777777777777777777776543  23455566667777777777


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGE  258 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (377)
                      +++|.+.|+.+...+  |+..++..+..++.+.|++++|.+.++++.+.. +.+...+..+...|...|++++|...|++
T Consensus       719 ~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~  795 (899)
T TIGR02917       719 YPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRT  795 (899)
T ss_pred             HHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            777777777777653  333566667777777777777777777777654 35666777777777778888888888888


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChh
Q 042154          259 MRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQA  336 (377)
Q Consensus       259 ~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  336 (377)
                      +.+.. +.+...+..+...+...|+ .+|+.+++ .....| +..++..+...+...|++++|.++++++++.++. ++.
T Consensus       796 ~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~  872 (899)
T TIGR02917       796 VVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAA  872 (899)
T ss_pred             HHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChH
Confidence            77753 4466677777777777777 66777777 222233 4456667777788888888888888888887654 777


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          337 PLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       337 ~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      ++..+..++.+.|+.++|.+++++|.
T Consensus       873 ~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       873 IRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            88888888888888888888888775

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=99.95  E-value=2.5e-24  Score=209.25  Aligned_cols=340  Identities=10%  Similarity=0.011  Sum_probs=226.9

Q ss_pred             CCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhH
Q 042154           17 TATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTA   96 (377)
Q Consensus        17 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   96 (377)
                      .|+++..+..+...+...|++++|...|+++.+..  +.+...+..+...+...|++++|.+.++++....+. +...+.
T Consensus       461 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~  537 (899)
T TIGR02917       461 QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE--PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPK-NLRAIL  537 (899)
T ss_pred             CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHH
Confidence            34566777777778888888888888887776654  445556667777777777777777777777665432 334444


Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHc
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDK  176 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  176 (377)
                      .+...+.+.|+.++|...++++...+ +.+...+..++..+.+.|++++|..+++.+..  ..+.+..+|..+..++...
T Consensus       538 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~  614 (899)
T TIGR02917       538 ALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAAD--AAPDSPEAWLMLGRAQLAA  614 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHc
Confidence            56777777777777777777776554 34555666677777777777777777777654  2344556677777777777


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          177 GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELV  256 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  256 (377)
                      |++++|...++.+.+.. +.+...+..+..++...|++++|..+|+++.+.. +.+..++..++..+...|++++|..++
T Consensus       615 ~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  692 (899)
T TIGR02917       615 GDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIA  692 (899)
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            77777777777776653 2355566677777777777777777777776654 334566666777777777777777777


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCh
Q 042154          257 GEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQ  335 (377)
Q Consensus       257 ~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  335 (377)
                      +.+.+.+ +.+...+..+...+...|++++|.+.++ .....|+..++..++.++.+.|++++|.+.++++.+.... +.
T Consensus       693 ~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~-~~  770 (899)
T TIGR02917       693 KSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPN-DA  770 (899)
T ss_pred             HHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CH
Confidence            7776653 3455566666667777777777777777 3333454455666666677777777777777776665332 55


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          336 APLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       336 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      ..+..+...|.+.|++++|.+.++++.+..+
T Consensus       771 ~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p  801 (899)
T TIGR02917       771 VLRTALAELYLAQKDYDKAIKHYRTVVKKAP  801 (899)
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHhCC
Confidence            5666666677777777777777777665543

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

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.95  E-value=5e-24  Score=187.07  Aligned_cols=302  Identities=13%  Similarity=0.079  Sum_probs=231.9

Q ss_pred             HHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCc---cchhHHHHHHHHc
Q 042154           28 IRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISK---EGFTARLIALYGK  104 (377)
Q Consensus        28 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~  104 (377)
                      ...+...|++++|+..|+++.+.+  +.+..++..+...+...|++++|..+++.+...+..+.   ...+..++..|.+
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~  119 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVD--PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLK  119 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            344567788999999999998765  55677888888888899999999999988876532221   1345567888888


Q ss_pred             cCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC----HHHHHHHHHHHHHcCCHH
Q 042154          105 AAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD----LVSYNTIIKAFVDKGSLD  180 (377)
Q Consensus       105 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~  180 (377)
                      .|++++|..+|+++.+.. +.+..++..++..+.+.|++++|.+.++.+.+. +..+.    ...+..+...+.+.|+++
T Consensus       120 ~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~la~~~~~~~~~~  197 (389)
T PRK11788        120 AGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKL-GGDSLRVEIAHFYCELAQQALARGDLD  197 (389)
T ss_pred             CCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHh-cCCcchHHHHHHHHHHHHHHHhCCCHH
Confidence            999999999999988754 456778888888999999999999999888654 22221    124556677778889999


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 042154          181 SANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMR  260 (377)
Q Consensus       181 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  260 (377)
                      +|.+.++++.+.. +.+...+..+...+.+.|++++|.++|+++.+.+......+++.++.+|...|++++|...++++.
T Consensus       198 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~  276 (389)
T PRK11788        198 AARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRAL  276 (389)
T ss_pred             HHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999888763 235667777888888899999999999988876422224567788888889999999999999888


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHhcCCCCChh
Q 042154          261 SKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCE---KGDLDFAFNLCKRTFSERCLVDQA  336 (377)
Q Consensus       261 ~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~  336 (377)
                      +.  .|+...+..++..+.+.|++++|..+++ .....|+...+..++..+..   .|+.++++.++++|.+.++.|++.
T Consensus       277 ~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        277 EE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             Hh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            75  4566666788888888999999999888 44557888888877776664   458888999999888877777665

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=1.2e-22  Score=178.38  Aligned_cols=301  Identities=12%  Similarity=0.061  Sum_probs=246.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCcc---HHHHHHHHHHHH
Q 042154           62 GTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQT---VLSFNALLGACV  138 (377)
Q Consensus        62 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~  138 (377)
                      .....+...|++++|++.|+++.+..+ .+...+..+...+...|++++|..+++.+...+..++   ...+..+...|.
T Consensus        40 ~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~  118 (389)
T PRK11788         40 FKGLNFLLNEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYL  118 (389)
T ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            334456778999999999999998753 3445566799999999999999999999987542221   356788899999


Q ss_pred             hCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHhHHHHHHHHHcCCCH
Q 042154          139 NSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLD----LITFNTLLLGFYSNGRF  214 (377)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~  214 (377)
                      +.|++++|..+|+++.+.  .+++..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++
T Consensus       119 ~~g~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  196 (389)
T PRK11788        119 KAGLLDRAEELFLQLVDE--GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDL  196 (389)
T ss_pred             HCCCHHHHHHHHHHHHcC--CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCH
Confidence            999999999999999753  244667899999999999999999999999988654332    22456677888999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-h
Q 042154          215 ADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-K  293 (377)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~  293 (377)
                      ++|...|+++.+.. +.+...+..+...+.+.|++++|.++++++...+......++..++.+|...|++++|...++ .
T Consensus       197 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  275 (389)
T PRK11788        197 DAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRA  275 (389)
T ss_pred             HHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999999765 345667888889999999999999999999976322224678889999999999999999999 3


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh---cCCHHHHHHHHHhhccCCcee
Q 042154          294 SGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAK---ELRVEEAKELVELGKTNSYCR  368 (377)
Q Consensus       294 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~  368 (377)
                      ....|+...+..++..+.+.|++++|..+++++.+.  .|+...+..++..+..   .|+.+++..+++++.+.++.+
T Consensus       276 ~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~  351 (389)
T PRK11788        276 LEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKR  351 (389)
T ss_pred             HHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhC
Confidence            444677777788999999999999999999999885  6788888888887765   568999999999998766543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.92  E-value=4.6e-21  Score=176.56  Aligned_cols=337  Identities=9%  Similarity=-0.033  Sum_probs=271.6

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLI   99 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   99 (377)
                      +..-...++..+.+.|++++|+.+++......  +-+...+..++.+....|++++|++.++++....+.. ...+..+.
T Consensus        41 ~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~--p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~-~~a~~~la  117 (656)
T PRK15174         41 NEQNIILFAIACLRKDETDVGLTLLSDRVLTA--KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQ-PEDVLLVA  117 (656)
T ss_pred             cccCHHHHHHHHHhcCCcchhHHHhHHHHHhC--CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCC-hHHHHHHH
Confidence            34456677788889999999999999998765  5556677778888888999999999999999875444 34445688


Q ss_pred             HHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHHHHHcCC
Q 042154          100 ALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKAFVDKGS  178 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~  178 (377)
                      ..+...|++++|...+++..+.. +.+...+..+...+...|++++|...++.+...   .|+ ...+..+ ..+...|+
T Consensus       118 ~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~---~P~~~~a~~~~-~~l~~~g~  192 (656)
T PRK15174        118 SVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQE---VPPRGDMIATC-LSFLNKSR  192 (656)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh---CCCCHHHHHHH-HHHHHcCC
Confidence            99999999999999999998864 456778888999999999999999999987643   333 3333333 34788999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH----HHH
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKK----ALE  254 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~  254 (377)
                      +++|...++.+.+....++...+..+...+.+.|++++|...+++..+.. +.+...+..+...+...|++++    |..
T Consensus       193 ~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~  271 (656)
T PRK15174        193 LPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAE  271 (656)
T ss_pred             HHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHH
Confidence            99999999998876544455556666788999999999999999999875 4467788889999999999986    899


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 042154          255 LVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCL  332 (377)
Q Consensus       255 ~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  332 (377)
                      .|++..+.. +.+...+..+...+...|++++|...++ .....| +...+..+..++.+.|++++|++.++++...+..
T Consensus       272 ~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~  350 (656)
T PRK15174        272 HWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGV  350 (656)
T ss_pred             HHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc
Confidence            999998863 3356788999999999999999999999 333445 4567778889999999999999999999886432


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          333 VDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       333 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                       +...+..+..++...|+.++|.+.++++.+..+.
T Consensus       351 -~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        351 -TSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             -chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence             2234444677899999999999999998877554

>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=99.91  E-value=4.7e-20  Score=170.29  Aligned_cols=338  Identities=12%  Similarity=0.058  Sum_probs=238.8

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCC---------
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDI---------   89 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---------   89 (377)
                      |++..|..+..+|.+.|++++|++.++...+.+  +.+...|..+..++...|++++|+..+......+..         
T Consensus       158 p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~--p~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~  235 (615)
T TIGR00990       158 PDPVYYSNRAACHNALGDWEKVVEDTTAALELD--PDYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQAV  235 (615)
T ss_pred             CchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHHHH
Confidence            455667777777777777777777777776654  445666777777777777777776544332211000         


Q ss_pred             --------------------CccchhHHH------------------------------HHHH------HccCCHHHHHH
Q 042154           90 --------------------SKEGFTARL------------------------------IALY------GKAAMFENARK  113 (377)
Q Consensus        90 --------------------~~~~~~~~l------------------------------~~~~------~~~~~~~~A~~  113 (377)
                                          ........+                              +...      ...+++++|.+
T Consensus       236 ~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~  315 (615)
T TIGR00990       236 ERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAAR  315 (615)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHHHH
Confidence                                000000000                              0000      11246777777


Q ss_pred             HHHhcCCCC--CCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 042154          114 VFDEMPGRN--CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKAFVDKGSLDSANTLLYEME  190 (377)
Q Consensus       114 ~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  190 (377)
                      .|++..+.+  .+.....|..+...+...|++++|+..|++....   .|+ ...|..+...+...|++++|...|+++.
T Consensus       316 ~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l---~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al  392 (615)
T TIGR00990       316 AFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL---DPRVTQSYIKRASMNLELGDPDKAEEDFDKAL  392 (615)
T ss_pred             HHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            777776543  1234556777788888899999999999988743   454 4578888888899999999999999988


Q ss_pred             HCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 042154          191 KKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFT  270 (377)
Q Consensus       191 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~  270 (377)
                      +... .+..++..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|+..|++..+. .+.+...
T Consensus       393 ~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~  469 (615)
T TIGR00990       393 KLNS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-FPEAPDV  469 (615)
T ss_pred             HhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCChHH
Confidence            7643 367788889999999999999999999998875 345677778888899999999999999998875 2335678


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHH-hcCCCCCH-H-------HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHH
Q 042154          271 FYALIKGFVNEGNLEEAKRWYN-KSGCGMNK-A-------IFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLV  341 (377)
Q Consensus       271 ~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~-~-------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  341 (377)
                      ++.+...+...|++++|.+.++ .....|+. .       .++..+..+...|++++|.+++++.+..... +...+..+
T Consensus       470 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~-~~~a~~~l  548 (615)
T TIGR00990       470 YNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPE-CDIAVATM  548 (615)
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC-cHHHHHHH
Confidence            8889999999999999999998 33333321 1       1122222334468999999999998886533 44578889


Q ss_pred             HHHHHhcCCHHHHHHHHHhhccCC
Q 042154          342 VDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       342 ~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      ..++.+.|++++|.+.++++.+..
T Consensus       549 a~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       549 AQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHh
Confidence            999999999999999999886653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.89  E-value=4.1e-19  Score=163.75  Aligned_cols=306  Identities=12%  Similarity=0.046  Sum_probs=246.4

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      |-++..+..++.+....|++++|+..|+++.+..  |.+...+..+...+...|++++|+..++++....+. +...+..
T Consensus        73 p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~--P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~-~~~a~~~  149 (656)
T PRK15174         73 KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN--VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSG-NSQIFAL  149 (656)
T ss_pred             CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHH
Confidence            3456667777788888999999999999998875  667788999999999999999999999999887433 3445557


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      ++..+...|++++|...++.+.... +.+...+..+ ..+...|++++|...++.+... ...++...+..+..++...|
T Consensus       150 la~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~-~~~~~~~~~~~l~~~l~~~g  226 (656)
T PRK15174        150 HLRTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHDLARALLPF-FALERQESAGLAVDTLCAVG  226 (656)
T ss_pred             HHHHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhc-CCCcchhHHHHHHHHHHHCC
Confidence            8999999999999999999887654 2233344333 3488899999999999998654 22233445556678889999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHH----HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFAD----AEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKAL  253 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  253 (377)
                      ++++|+..++++..... .+...+..+...+...|++++    |...|++..+.. +.+...+..+...+...|++++|.
T Consensus       227 ~~~eA~~~~~~al~~~p-~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~  304 (656)
T PRK15174        227 KYQEAIQTGESALARGL-DGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAI  304 (656)
T ss_pred             CHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999998753 367788889999999999985    899999999865 346778999999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 042154          254 ELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKA-IFKLLVPFVCEKGDLDFAFNLCKRTFSERC  331 (377)
Q Consensus       254 ~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  331 (377)
                      ..+++..+.. +.+...+..+..++...|++++|...++ .....|+.. .+..+..++...|+.++|.+.|+++.+...
T Consensus       305 ~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        305 PLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            9999999863 3345677788999999999999999999 333455543 344456788999999999999999988643


Q ss_pred             C
Q 042154          332 L  332 (377)
Q Consensus       332 ~  332 (377)
                      .
T Consensus       384 ~  384 (656)
T PRK15174        384 S  384 (656)
T ss_pred             h
Confidence            3

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

Probab=99.88  E-value=2.4e-20  Score=158.88  Aligned_cols=336  Identities=12%  Similarity=0.071  Sum_probs=257.7

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCc--------
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISK--------   91 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------   91 (377)
                      -..+|..+.+.+...|+++.|+..++.+.+..  +..+..|..+..++...|+.+.|.+.|.+..+..+..-        
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~--p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgn  192 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELK--PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC--chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhH
Confidence            46789999999999999999999999999875  55788899999999999998888888877766432110        


Q ss_pred             -------------------------cchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCcc-HHHHHHHHHHHHhCCChhH
Q 042154           92 -------------------------EGFTARLIALYGKAAMFENARKVFDEMPGRNCEQT-VLSFNALLGACVNSKKFDE  145 (377)
Q Consensus        92 -------------------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~  145 (377)
                                               ...|+.|...+-..|+...|++.|++..+.+  |+ ..+|..|...|...+.+++
T Consensus       193 Llka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld--P~f~dAYiNLGnV~ke~~~~d~  270 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD--PNFLDAYINLGNVYKEARIFDR  270 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCC--CcchHHHhhHHHHHHHHhcchH
Confidence                                     0112234455556677777777777776654  33 5567777777777778888


Q ss_pred             HHHHHHhchhhcCCCcCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHH
Q 042154          146 VDGLFKDLPHKLGIEPDL-VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETM  224 (377)
Q Consensus       146 a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  224 (377)
                      |+..|.+..   ...|+. .++..+...|..+|+++.|+..+++..+.... -...|+.|..++-..|++.+|.+.|.+.
T Consensus       271 Avs~Y~rAl---~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnka  346 (966)
T KOG4626|consen  271 AVSCYLRAL---NLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKA  346 (966)
T ss_pred             HHHHHHHHH---hcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHH
Confidence            887777665   345553 46777777778888888888888888876322 3567888888888889999999998888


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCH-H
Q 042154          225 VNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD-VFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNK-A  301 (377)
Q Consensus       225 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~-~  301 (377)
                      +... +-.....+.|...|...|.+++|..+|....+  +.|. ....+.|...|-.+|++++|+..++ ...+.|+. .
T Consensus       347 L~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAd  423 (966)
T KOG4626|consen  347 LRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFAD  423 (966)
T ss_pred             HHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHH
Confidence            8764 23456777888888888999999999888877  3555 3567888888889999999999998 77778865 4


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      .|+.+...|-..|+.+.|++.+.+++..++. -.+.++.|...|-.+|++.+|..-++.+.+..+.
T Consensus       424 a~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt-~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPD  488 (966)
T KOG4626|consen  424 ALSNMGNTYKEMGDVSAAIQCYTRAIQINPT-FAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPD  488 (966)
T ss_pred             HHHhcchHHHHhhhHHHHHHHHHHHHhcCcH-HHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCC
Confidence            7888888999999999999999888875433 3447788999999999999999999998876653

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

Probab=99.88  E-value=4.3e-20  Score=157.37  Aligned_cols=301  Identities=13%  Similarity=0.111  Sum_probs=247.3

Q ss_pred             hcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHH
Q 042154           33 KENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENAR  112 (377)
Q Consensus        33 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  112 (377)
                      ..|+..+|...|.+..+..  +.-+..|+.|.-.+-..|+...|++.|++..+..+..-..++| |...|...+.+++|.
T Consensus       196 a~Grl~ea~~cYlkAi~~q--p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiN-LGnV~ke~~~~d~Av  272 (966)
T KOG4626|consen  196 AEGRLEEAKACYLKAIETQ--PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYIN-LGNVYKEARIFDRAV  272 (966)
T ss_pred             hhcccchhHHHHHHHHhhC--CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhh-HHHHHHHHhcchHHH
Confidence            3555555555555554432  2335567777778888899999999999998887666666664 999999999999999


Q ss_pred             HHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 042154          113 KVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKAFVDKGSLDSANTLLYEMEK  191 (377)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  191 (377)
                      ..|.+..... +-...++..+...|..+|+.|-|++.|++.++   ..|+ ...|+.+..++-..|++.+|.+.+.+...
T Consensus       273 s~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~---~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  273 SCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALE---LQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHh---cCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            9999987764 34677888888899999999999999999874   4666 45899999999999999999999999998


Q ss_pred             CCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-H
Q 042154          192 KGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPN-VRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDV-F  269 (377)
Q Consensus       192 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~  269 (377)
                      ... ......+.|...|...|.++.|..+|....+-.  |. ...++.|...|-+.|++++|+..|++.++  +.|+. .
T Consensus       349 l~p-~hadam~NLgni~~E~~~~e~A~~ly~~al~v~--p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAd  423 (966)
T KOG4626|consen  349 LCP-NHADAMNNLGNIYREQGKIEEATRLYLKALEVF--PEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFAD  423 (966)
T ss_pred             hCC-ccHHHHHHHHHHHHHhccchHHHHHHHHHHhhC--hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHH
Confidence            743 367788999999999999999999999998753  44 46789999999999999999999999998  57774 6


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 042154          270 TFYALIKGFVNEGNLEEAKRWYN-KSGCGMNK-AIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLA  346 (377)
Q Consensus       270 ~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  346 (377)
                      .|+.+...|-..|+.+.|.+.+. ...+.|.. ..++.|...|-..|+..+|++-|++.++..+. -+..|..++.++-
T Consensus       424 a~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPD-fpdA~cNllh~lq  501 (966)
T KOG4626|consen  424 ALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPD-FPDAYCNLLHCLQ  501 (966)
T ss_pred             HHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCC-CchhhhHHHHHHH
Confidence            89999999999999999999999 77777754 57899999999999999999999999985433 2345666665543

>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=99.88  E-value=3e-18  Score=158.35  Aligned_cols=336  Identities=10%  Similarity=0.024  Sum_probs=253.4

Q ss_pred             HHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHH
Q 042154           24 IGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYG  103 (377)
Q Consensus        24 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  103 (377)
                      +......+.+.|++++|+..|++..+.   .|+...|..+..++...|++++|++.++...+..+.....++ .+..+|.
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~---~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~-~~a~a~~  205 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC---KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALN-RRANAYD  205 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHH-HHHHHHH
Confidence            456678889999999999999998864   467888999999999999999999999999887654444444 6899999


Q ss_pred             ccCCHHHHHHHHHhcCCCCC-----------------------------CccHHHHHHHHH-------------------
Q 042154          104 KAAMFENARKVFDEMPGRNC-----------------------------EQTVLSFNALLG-------------------  135 (377)
Q Consensus       104 ~~~~~~~A~~~~~~~~~~~~-----------------------------~~~~~~~~~l~~-------------------  135 (377)
                      ..|++++|...|......+-                             +++...+..+..                   
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  285 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNE  285 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccc
Confidence            99999999876544321110                             000000000000                   


Q ss_pred             -----------H------HHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 042154          136 -----------A------CVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLD  197 (377)
Q Consensus       136 -----------~------~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  197 (377)
                                 .      ....+++++|...|++........| ....+..+...+...|++++|+..+++..+... ..
T Consensus       286 ~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P-~~  364 (615)
T TIGR00990       286 LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDP-RV  364 (615)
T ss_pred             cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-Cc
Confidence                       0      0112568889999988875422334 345788888889999999999999999988632 24


Q ss_pred             HHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042154          198 LITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKG  277 (377)
Q Consensus       198 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~  277 (377)
                      ...|..+...+...|++++|...|++..+.. +.+...|..+...+...|++++|...|++..+.. +.+...+..+..+
T Consensus       365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~  442 (615)
T TIGR00990       365 TQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVT  442 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHH
Confidence            6688889999999999999999999998865 3467888899999999999999999999998863 3356778888899


Q ss_pred             HHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhh------HHHHHHHHHhcC
Q 042154          278 FVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAP------LQLVVDRLAKEL  349 (377)
Q Consensus       278 ~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~------~~~l~~~~~~~g  349 (377)
                      +.+.|++++|+..++ .....| +...++.+...+...|++++|++.|++.+......+...      ++.....+...|
T Consensus       443 ~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~  522 (615)
T TIGR00990       443 QYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQ  522 (615)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhh
Confidence            999999999999999 333344 567888999999999999999999999988643311111      122222344479


Q ss_pred             CHHHHHHHHHhhccCCc
Q 042154          350 RVEEAKELVELGKTNSY  366 (377)
Q Consensus       350 ~~~~A~~~~~~~~~~~~  366 (377)
                      ++++|.++++++.+.++
T Consensus       523 ~~~eA~~~~~kAl~l~p  539 (615)
T TIGR00990       523 DFIEAENLCEKALIIDP  539 (615)
T ss_pred             hHHHHHHHHHHHHhcCC
Confidence            99999999999877654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.87  E-value=4.5e-18  Score=167.18  Aligned_cols=328  Identities=10%  Similarity=0.021  Sum_probs=205.5

Q ss_pred             HHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCcc-c----------hh-
Q 042154           28 IRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKE-G----------FT-   95 (377)
Q Consensus        28 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~----------~~-   95 (377)
                      ...+...|++++|+..|++..+..  |.+..++..+...+.+.|++++|+..|++..+..+.... .          ++ 
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~--P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~  353 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRAN--PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWL  353 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHH
Confidence            455677899999999999988765  567788889999999999999999999988876443221 1          11 


Q ss_pred             -HHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHH-----
Q 042154           96 -ARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNT-----  168 (377)
Q Consensus        96 -~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~-----  168 (377)
                       ......+.+.|++++|+..|+++.+.. +.+...+..+...+...|++++|++.|++..+.   .|+ ...+..     
T Consensus       354 ~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~---~p~~~~a~~~L~~l~  429 (1157)
T PRK11447        354 LIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRM---DPGNTNAVRGLANLY  429 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHH
Confidence             123456778899999999999988765 445677778888899999999999999888653   232 222222     


Q ss_pred             -------------------------------------HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC
Q 042154          169 -------------------------------------IIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN  211 (377)
Q Consensus       169 -------------------------------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  211 (377)
                                                           +...+...|++++|++.++++.+.... +...+..+...|.+.
T Consensus       430 ~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~  508 (1157)
T PRK11447        430 RQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQA  508 (1157)
T ss_pred             HhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence                                                 233455678888899988888876433 566777888889999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----------------------------
Q 042154          212 GRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK-----------------------------  262 (377)
Q Consensus       212 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------------------------  262 (377)
                      |++++|...++++.+... .+...+..+...+...++.++|...++.+...                             
T Consensus       509 G~~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G  587 (1157)
T PRK11447        509 GQRSQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSG  587 (1157)
T ss_pred             CCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCC
Confidence            999999999988876431 22222222222222233333333332221100                             


Q ss_pred             ----------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          263 ----------EINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       263 ----------g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                                ..+.+...+..+...+.+.|++++|++.++ .....| +...+..++..|...|++++|++.++.+.+..
T Consensus       588 ~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~  667 (1157)
T PRK11447        588 KEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATA  667 (1157)
T ss_pred             CHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC
Confidence                      012233344455555566666666666666 222222 44555556666666666666666666555432


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccC
Q 042154          331 CLVDQAPLQLVVDRLAKELRVEEAKELVELGKTN  364 (377)
Q Consensus       331 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  364 (377)
                      .. +..++..+..++...|++++|.++++++.+.
T Consensus       668 p~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        668 ND-SLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             CC-ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            11 3334445555566666666666666665543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.87  E-value=5.6e-18  Score=166.56  Aligned_cols=339  Identities=13%  Similarity=0.067  Sum_probs=247.2

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhH------------HHHHHHHHhcCChHHHHHHHHHhhh
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIY------------TGTVQRLANAKRFRWIEEILEHQKQ   85 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~------------~~l~~~~~~~~~~~~a~~~~~~~~~   85 (377)
                      |.++..+..+..++.+.|++++|+..|++..+...-.+....+            ......+.+.|++++|++.++++..
T Consensus       300 P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~  379 (1157)
T PRK11447        300 PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQ  379 (1157)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4567889999999999999999999999988654212221112            1224566788999999999999988


Q ss_pred             hcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHH---------------------------------
Q 042154           86 YKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNA---------------------------------  132 (377)
Q Consensus        86 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~---------------------------------  132 (377)
                      ..+.. ...+..+...+...|++++|++.|++..+.. +.+...+..                                 
T Consensus       380 ~~P~~-~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~  457 (1157)
T PRK11447        380 VDNTD-SYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIER  457 (1157)
T ss_pred             hCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            75433 3344468899999999999999999987654 222333322                                 


Q ss_pred             ---------HHHHHHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHH
Q 042154          133 ---------LLGACVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFN  202 (377)
Q Consensus       133 ---------l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  202 (377)
                               +...+...|++++|+..|++..+.   .| +...+..+...+.+.|++++|...++++.+.... +...+.
T Consensus       458 ~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~---~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~  533 (1157)
T PRK11447        458 SLQNDRLAQQAEALENQGKWAQAAELQRQRLAL---DPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPN-DPEQVY  533 (1157)
T ss_pred             HhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHH
Confidence                     223455678899999999888753   44 4557778889999999999999999998875332 333333


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhC---------------------------------------CCCCCHHHHHHHHHHH
Q 042154          203 TLLLGFYSNGRFADAEKIWETMVNM---------------------------------------NVRPNVRSYNARLDGL  243 (377)
Q Consensus       203 ~l~~~~~~~~~~~~a~~~~~~~~~~---------------------------------------~~~~~~~~~~~l~~~~  243 (377)
                      .+...+...++.++|...++.+...                                       ..+.+...+..+...+
T Consensus       534 a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~  613 (1157)
T PRK11447        534 AYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWA  613 (1157)
T ss_pred             HHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHH
Confidence            3333344444555544444332110                                       1234555677788889


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHH
Q 042154          244 AIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFN  321 (377)
Q Consensus       244 ~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~  321 (377)
                      .+.|++++|+..|++..+.. +.+...+..+...+...|++++|++.++ .....| +...+..+..++...|++++|.+
T Consensus       614 ~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~  692 (1157)
T PRK11447        614 QQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQR  692 (1157)
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHH
Confidence            99999999999999999863 3467888999999999999999999999 333444 45567778889999999999999


Q ss_pred             HHHHHHhcCCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          322 LCKRTFSERCLVD-----QAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       322 ~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      ++++++.......     ...+..+...+...|+.++|.+.|+++..
T Consensus       693 ~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        693 TFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             HHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999987643221     24566678889999999999999999864

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.86  E-value=1.3e-17  Score=157.10  Aligned_cols=343  Identities=11%  Similarity=-0.010  Sum_probs=241.0

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      |.+...+..+...+...|++++|+.+|+...+..  |.+...+..++..+...|++++|+..++++.+..+....  +..
T Consensus        46 ~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~--~~~  121 (765)
T PRK10049         46 QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE--PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKAN--LLA  121 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH--HHH
Confidence            4455568888889999999999999999987764  556777778888888999999999999998877544334  556


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHH--------------------------
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFK--------------------------  151 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~--------------------------  151 (377)
                      +..++...|+.++|+..++++.+.. |.+...+..+...+...+..+.|+..++                          
T Consensus       122 la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~  200 (765)
T PRK10049        122 LAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFM  200 (765)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcc
Confidence            8888889999999999999988865 3345555666666666666665554444                          


Q ss_pred             --------------------hchhhcCCCcCHH-HHH----HHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHhHHHHH
Q 042154          152 --------------------DLPHKLGIEPDLV-SYN----TIIKAFVDKGSLDSANTLLYEMEKKGIR-LDLITFNTLL  205 (377)
Q Consensus       152 --------------------~~~~~~~~~p~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~  205 (377)
                                          .+.+.....|+.. .+.    ..+.++...|++++|+..|+.+.+.+.+ |+. ....+.
T Consensus       201 ~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la  279 (765)
T PRK10049        201 PTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVA  279 (765)
T ss_pred             cccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHH
Confidence                                2222111122211 111    1123445678888999999988876532 222 222256


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----------CCC---H
Q 042154          206 LGFYSNGRFADAEKIWETMVNMNVRP---NVRSYNARLDGLAIEKQTKKALELVGEMRSKEI-----------NPD---V  268 (377)
Q Consensus       206 ~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~-----------~p~---~  268 (377)
                      .+|...|++++|+..|+++.+.....   .......+..++...|++++|..+++.+.....           .|+   .
T Consensus       280 ~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~  359 (765)
T PRK10049        280 SAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWL  359 (765)
T ss_pred             HHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHH
Confidence            78888899999999998887643111   124455666678888999999999888876521           123   1


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 042154          269 FTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLA  346 (377)
Q Consensus       269 ~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  346 (377)
                      ..+..+...+...|+.++|++.++  ....+.+...+..+...+...|++++|++.+++++...+. +...+..++..+.
T Consensus       360 ~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd-~~~l~~~~a~~al  438 (765)
T PRK10049        360 QGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPR-NINLEVEQAWTAL  438 (765)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHH
Confidence            244566777888899999999988  3333446677888888888999999999999988885432 4556667777888


Q ss_pred             hcCCHHHHHHHHHhhccCCce
Q 042154          347 KELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       347 ~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      +.|++++|..+++++.+..+.
T Consensus       439 ~~~~~~~A~~~~~~ll~~~Pd  459 (765)
T PRK10049        439 DLQEWRQMDVLTDDVVAREPQ  459 (765)
T ss_pred             HhCCHHHHHHHHHHHHHhCCC
Confidence            899999999999888765543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=8.4e-17  Score=151.60  Aligned_cols=343  Identities=10%  Similarity=-0.001  Sum_probs=253.3

Q ss_pred             CCCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh
Q 042154           16 ATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT   95 (377)
Q Consensus        16 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   95 (377)
                      ..+-++.-..-.+......|+.++|++++.......  +.+...+..+...+...|++++|.+++++.....+.. ....
T Consensus        10 ~~~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~--~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~-~~a~   86 (765)
T PRK10049         10 KSALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM--QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQN-DDYQ   86 (765)
T ss_pred             ccCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC-HHHH
Confidence            345566677778888889999999999999997533  4566678999999999999999999999988875433 3444


Q ss_pred             HHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHHHH
Q 042154           96 ARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKAFV  174 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~  174 (377)
                      ..++.++...|++++|...++++.+.. |.+.. +..+...+...|+.++|+..++++.+.   .|+ ...+..+..++.
T Consensus        87 ~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~---~P~~~~~~~~la~~l~  161 (765)
T PRK10049         87 RGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPR---APQTQQYPTEYVQALR  161 (765)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHH
Confidence            478889999999999999999998874 44566 888899999999999999999999764   444 345555666666


Q ss_pred             HcCCHHHHHHHH----------------------------------------------HHHHHC-CCCCCHH-hHH----
Q 042154          175 DKGSLDSANTLL----------------------------------------------YEMEKK-GIRLDLI-TFN----  202 (377)
Q Consensus       175 ~~~~~~~a~~~~----------------------------------------------~~~~~~-~~~~~~~-~~~----  202 (377)
                      ..+..+.|++.+                                              +.+.+. ...|+.. .+.    
T Consensus       162 ~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~  241 (765)
T PRK10049        162 NNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARI  241 (765)
T ss_pred             HCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHH
Confidence            666655444333                                              333322 1112211 111    


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHH
Q 042154          203 TLLLGFYSNGRFADAEKIWETMVNMNVR-PNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINP---DVFTFYALIKGF  278 (377)
Q Consensus       203 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p---~~~~~~~l~~~~  278 (377)
                      ..+..+...|++++|+..|+.+.+.+.+ |+. ....+..+|...|++++|+..|+++.+.....   .......+..++
T Consensus       242 d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~  320 (765)
T PRK10049        242 DRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSL  320 (765)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHH
Confidence            1133456778999999999999987632 332 22225778999999999999999987653111   134566677788


Q ss_pred             HhcCCHHHHHHHHH-hcCCC-------------CC---HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHH
Q 042154          279 VNEGNLEEAKRWYN-KSGCG-------------MN---KAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLV  341 (377)
Q Consensus       279 ~~~~~~~~a~~~~~-~~~~~-------------~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  341 (377)
                      ...|++++|.++++ .....             |+   ...+..+...+...|++++|+++++++....+. +...+..+
T Consensus       321 ~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~-n~~l~~~l  399 (765)
T PRK10049        321 LESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPG-NQGLRIDY  399 (765)
T ss_pred             HhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            99999999999988 11111             23   234556777889999999999999999887544 67788889


Q ss_pred             HHHHHhcCCHHHHHHHHHhhccCCcee
Q 042154          342 VDRLAKELRVEEAKELVELGKTNSYCR  368 (377)
Q Consensus       342 ~~~~~~~g~~~~A~~~~~~~~~~~~~~  368 (377)
                      ...+...|++++|++.++++.+..+..
T Consensus       400 A~l~~~~g~~~~A~~~l~~al~l~Pd~  426 (765)
T PRK10049        400 ASVLQARGWPRAAENELKKAEVLEPRN  426 (765)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHhhCCCC
Confidence            999999999999999999998877544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.82  E-value=1.3e-15  Score=141.47  Aligned_cols=155  Identities=11%  Similarity=0.052  Sum_probs=92.1

Q ss_pred             HHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH--HHHHHHccC
Q 042154           29 RGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR--LIALYGKAA  106 (377)
Q Consensus        29 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~  106 (377)
                      -...+.|+++.|++.|+++.+..  |-+......++..+...|+.++|+.++++...   +.+...+..  ++..+...|
T Consensus        42 ii~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~dll~l~~~~G~~~~A~~~~eka~~---p~n~~~~~llalA~ly~~~g  116 (822)
T PRK14574         42 IIRARAGDTAPVLDYLQEESKAG--PLQSGQVDDWLQIAGWAGRDQEVIDVYERYQS---SMNISSRGLASAARAYRNEK  116 (822)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhhC--ccchhhHHHHHHHHHHcCCcHHHHHHHHHhcc---CCCCCHHHHHHHHHHHHHcC
Confidence            34456777888888887777654  22211222666666777777777777777661   112222222  355677777


Q ss_pred             CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHH
Q 042154          107 MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLL  186 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  186 (377)
                      ++++|.++|+++.+.. |-++..+..++..+.+.++.++|++.++++...   .|+...+..++..+...++..+|++.+
T Consensus       117 dyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~---dp~~~~~l~layL~~~~~~~~~AL~~~  192 (822)
T PRK14574        117 RWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER---DPTVQNYMTLSYLNRATDRNYDALQAS  192 (822)
T ss_pred             CHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc---CcchHHHHHHHHHHHhcchHHHHHHHH
Confidence            7777777777777665 334555666666777777777777777777543   445444433333333344444466666


Q ss_pred             HHHHHC
Q 042154          187 YEMEKK  192 (377)
Q Consensus       187 ~~~~~~  192 (377)
                      +++.+.
T Consensus       193 ekll~~  198 (822)
T PRK14574        193 SEAVRL  198 (822)
T ss_pred             HHHHHh
Confidence            666654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.81  E-value=3.3e-16  Score=128.32  Aligned_cols=350  Identities=11%  Similarity=0.093  Sum_probs=265.8

Q ss_pred             CCCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh
Q 042154           16 ATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT   95 (377)
Q Consensus        16 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   95 (377)
                      ..|-++.++..+|.++|+-...+.|.+++++..... .+.+..+||.+|.+-.-...    .+++.+|......|+..++
T Consensus       202 ~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k-~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~Tf  276 (625)
T KOG4422|consen  202 TLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAK-GKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTF  276 (625)
T ss_pred             hcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhh-heeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhH
Confidence            345678899999999999999999999999987665 57888899999886654433    7788899999999999999


Q ss_pred             HHHHHHHHccCCHHH----HHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhH-HHHHHHhchhhc---CCC---c-CH
Q 042154           96 ARLIALYGKAAMFEN----ARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDE-VDGLFKDLPHKL---GIE---P-DL  163 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~----A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~---~~~---p-~~  163 (377)
                      |+++.+..+.|+++.    |.+++.+|++.|+.|+..+|..+|..+.+.++..+ +..+..++....   .++   | |.
T Consensus       277 NalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~  356 (625)
T KOG4422|consen  277 NALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDN  356 (625)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchh
Confidence            999999999998876    45778889999999999999999999999888644 444554443221   222   2 44


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCC----CCCC---HHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHH
Q 042154          164 VSYNTIIKAFVDKGSLDSANTLLYEMEKKG----IRLD---LITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSY  236 (377)
Q Consensus       164 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  236 (377)
                      ..|...+..|.+..|.+.|.++..-+....    +.|+   ..-|..+..+.|+....+.-...|+.|.-.-+-|+..+.
T Consensus       357 ~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m  436 (625)
T KOG4422|consen  357 KFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTM  436 (625)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhH
Confidence            577888999999999999998877665321    2222   234667788888888999999999999987777899999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CH--------HH-----HHHHHH--------hc
Q 042154          237 NARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEG-NL--------EE-----AKRWYN--------KS  294 (377)
Q Consensus       237 ~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~-~~--------~~-----a~~~~~--------~~  294 (377)
                      ..++++..-.|.++-.-++|.++...|.......-..++..+++.. +.        ..     |..+++        ..
T Consensus       437 ~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r  516 (625)
T KOG4422|consen  437 IHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQR  516 (625)
T ss_pred             HHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            9999999999999999999999998886555555555555555443 11        11     112222        22


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC-C---CCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCceeee
Q 042154          295 GCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER-C---LVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYN  370 (377)
Q Consensus       295 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  370 (377)
                      .........+.+.-.+.+.|+.++|.+++.-+.+.+ -   .|......-+++.-.+......|..+++-|...+.+..+
T Consensus       517 ~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~~~E  596 (625)
T KOG4422|consen  517 AQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLPICE  596 (625)
T ss_pred             hccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCchhhh
Confidence            344556677777778999999999999999996654 2   223333446677777888999999999999887776544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.78  E-value=1.4e-14  Score=134.66  Aligned_cols=189  Identities=12%  Similarity=-0.016  Sum_probs=84.8

Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhcC
Q 042154          173 FVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN-----VRPNVRSYNARLDGLAIEK  247 (377)
Q Consensus       173 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~  247 (377)
                      +...++..++++.++.+...+.+....+-..+.++|...+++++|..+|+.+....     ..++......|.-+|...+
T Consensus       302 L~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e  381 (822)
T PRK14574        302 LLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESE  381 (822)
T ss_pred             HHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcc
Confidence            33444455555555555544443334444445555555555555555555543321     1112222344455555555


Q ss_pred             CHHHHHHHHHHHHhCCC-------------CCCH-HHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHH
Q 042154          248 QTKKALELVGEMRSKEI-------------NPDV-FTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVC  311 (377)
Q Consensus       248 ~~~~a~~~~~~~~~~g~-------------~p~~-~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~  311 (377)
                      ++++|..+++.+.+...             .||- ..+..++..+...|++.+|++.++  ...-+-|......+...+.
T Consensus       382 ~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~  461 (822)
T PRK14574        382 QLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYL  461 (822)
T ss_pred             cHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            55555555555544200             0111 112233444445555555555555  2222234445555555555


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          312 EKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       312 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      ..|.+.+|.+.++.+....+. +..+....+.++...|++++|..+.+...
T Consensus       462 ~Rg~p~~A~~~~k~a~~l~P~-~~~~~~~~~~~al~l~e~~~A~~~~~~l~  511 (822)
T PRK14574        462 ARDLPRKAEQELKAVESLAPR-SLILERAQAETAMALQEWHQMELLTDDVI  511 (822)
T ss_pred             hcCCHHHHHHHHHHHhhhCCc-cHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            555555555555444433211 33344444455555555555555544443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.77  E-value=2.2e-14  Score=136.03  Aligned_cols=321  Identities=11%  Similarity=-0.005  Sum_probs=179.8

Q ss_pred             cccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhh-c-CCCccchhHHHHHHHHccCC---H
Q 042154           34 ENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQY-K-DISKEGFTARLIALYGKAAM---F  108 (377)
Q Consensus        34 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~---~  108 (377)
                      .+...++...++.|-+..  +-+......+.-...+.|+.++|.++++..... + ...+..+...++..|.+.+.   .
T Consensus       355 ~~~~~~~~~~~~~~y~~~--~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~  432 (987)
T PRK09782        355 TRNKAEALRLARLLYQQE--PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATP  432 (987)
T ss_pred             cCchhHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccch
Confidence            344555555555554432  334455555555566666666666666665542 1 11122333345555555544   2


Q ss_pred             HHHHHH-------------------------HHhcCCCCCCc--cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCc
Q 042154          109 ENARKV-------------------------FDEMPGRNCEQ--TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP  161 (377)
Q Consensus       109 ~~A~~~-------------------------~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p  161 (377)
                      .++..+                         +....... ++  +...|..+..++.. ++.++|+..+.+....   .|
T Consensus       433 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~-p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~---~P  507 (987)
T PRK09782        433 AKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDM-SPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR---QP  507 (987)
T ss_pred             HHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccC-CCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh---CC
Confidence            222222                         11111111 23  45566666665555 5666677766655433   35


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 042154          162 DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLD  241 (377)
Q Consensus       162 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  241 (377)
                      +......+...+...|++++|...++++...  +|+...+..+..++.+.|++++|...+++..+.+ +.+...+..+..
T Consensus       508 d~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~  584 (987)
T PRK09782        508 DAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHA  584 (987)
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHH
Confidence            5443333344445677777777777766543  2333344555666666777777777777766654 222223333333


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHH
Q 042154          242 GLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFA  319 (377)
Q Consensus       242 ~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a  319 (377)
                      .....|++++|...+++..+.  .|+...+..+..++.+.|++++|...++ .....| +...+..+..++...|++++|
T Consensus       585 ~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeA  662 (987)
T PRK09782        585 QRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQS  662 (987)
T ss_pred             HHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            334457777777777777664  4556666667777777777777777777 333344 444566666667777777777


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          320 FNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      +..+++.++..+. ++..+..+..++...|++++|...++++.+..+.
T Consensus       663 i~~l~~AL~l~P~-~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~  709 (987)
T PRK09782        663 REMLERAHKGLPD-DPALIRQLAYVNQRLDDMAATQHYARLVIDDIDN  709 (987)
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            7777777665433 5556666777777777777777777777665543

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

Probab=99.76  E-value=5.8e-18  Score=141.21  Aligned_cols=259  Identities=17%  Similarity=0.167  Sum_probs=92.4

Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCC-CCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHH
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRN-CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVD  175 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  175 (377)
                      .+...+.+.|++++|.+++++..... .+.+...|..+.......++++.|...|+++... + +-+...+..++.. ..
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~-~-~~~~~~~~~l~~l-~~   89 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLAS-D-KANPQDYERLIQL-LQ   89 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-c-ccccccccccccc-cc
Confidence            35666777777777777775443332 1234444555555566677777777777777643 1 1133455555555 57


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHH
Q 042154          176 KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN-VRPNVRSYNARLDGLAIEKQTKKALE  254 (377)
Q Consensus       176 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~  254 (377)
                      .+++++|.+++....+..  ++...+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|+.++|++
T Consensus        90 ~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~  167 (280)
T PF13429_consen   90 DGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALR  167 (280)
T ss_dssp             ------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHH
T ss_pred             cccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            777777777776665442  355556667777777777877777777766432 33566667777777777888888888


Q ss_pred             HHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 042154          255 LVGEMRSKEINP-DVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERC  331 (377)
Q Consensus       255 ~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  331 (377)
                      .+++..+.  .| |......++..+...|+.+++.++++  ....+.|+..+..+..+|...|+.++|+..|++..+...
T Consensus       168 ~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p  245 (280)
T PF13429_consen  168 DYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNP  245 (280)
T ss_dssp             HHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccc
Confidence            88887775  34 45667777777777888877777776  222244555667777788888888888888888777543


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          332 LVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       332 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      . |+.+...+.+++...|+.++|.++.+++.+
T Consensus       246 ~-d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  246 D-DPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             T--HHHHHHHHHHHT-----------------
T ss_pred             c-cccccccccccccccccccccccccccccc
Confidence            3 777777788888888888888887776643

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

Probab=99.75  E-value=1.8e-14  Score=128.48  Aligned_cols=341  Identities=13%  Similarity=0.032  Sum_probs=257.8

Q ss_pred             CCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhH
Q 042154           17 TATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTA   96 (377)
Q Consensus        17 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   96 (377)
                      .+|.........+.+...|++++|.+++.++.+..  |-+...|.+|...|-..|+.+++...+-.+.-.. +.+..+|.
T Consensus       135 l~~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqd--p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~  211 (895)
T KOG2076|consen  135 LAPELRQLLGEANNLFARGDLEEAEEILMEVIKQD--PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWK  211 (895)
T ss_pred             cCHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHH
Confidence            33444555555666677799999999999999886  7788899999999999999999998876655544 34447787


Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-H----HHHHHHHH
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-L----VSYNTIIK  171 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~----~~~~~l~~  171 (377)
                      .+.....+.|+++.|.-+|.+.++.. |++...+-.-...|-+.|+...|..-|.++.+..  +|. .    .....+++
T Consensus       212 ~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~--p~~d~er~~d~i~~~~~  288 (895)
T KOG2076|consen  212 RLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLD--PPVDIERIEDLIRRVAH  288 (895)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHH
Confidence            89999999999999999999999986 5566666667788999999999999999997642  222 1    23344567


Q ss_pred             HHHHcCCHHHHHHHHHHHHHC-CCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC--------------------
Q 042154          172 AFVDKGSLDSANTLLYEMEKK-GIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVR--------------------  230 (377)
Q Consensus       172 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------------------  230 (377)
                      .+...++.+.|.+.++..... +-..+...++.++..|.+...++.|......+......                    
T Consensus       289 ~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~  368 (895)
T KOG2076|consen  289 YFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALC  368 (895)
T ss_pred             HHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccc
Confidence            778888889999999888762 23446667889999999999999999888877662111                    


Q ss_pred             -------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHH---hcCCCC
Q 042154          231 -------PNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINP--DVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGM  298 (377)
Q Consensus       231 -------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~  298 (377)
                             ++... -.++-++.+....+....+...+....+.|  +...|.-+..++...|++.+|+.++.   .....-
T Consensus       369 ~~~~~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~  447 (895)
T KOG2076|consen  369 EVGKELSYDLRV-IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQ  447 (895)
T ss_pred             cCCCCCCccchh-HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCcccc
Confidence                   22222 122233444455555555555555555333  46688899999999999999999999   222223


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          299 NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       299 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      +...|-.+..+|...|.+++|.+.|+..+...+. +...-..|...+.+.|+.++|.+.+..+...+
T Consensus       448 ~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~-~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D  513 (895)
T KOG2076|consen  448 NAFVWYKLARCYMELGEYEEAIEFYEKVLILAPD-NLDARITLASLYQQLGNHEKALETLEQIINPD  513 (895)
T ss_pred             chhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-chhhhhhHHHHHHhcCCHHHHHHHHhcccCCC
Confidence            5678999999999999999999999999986433 44455678889999999999999999987443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.75  E-value=1.4e-14  Score=126.36  Aligned_cols=282  Identities=11%  Similarity=0.046  Sum_probs=211.7

Q ss_pred             cCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHH--HHHHHHHhCCChhHHH
Q 042154           70 AKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFN--ALLGACVNSKKFDEVD  147 (377)
Q Consensus        70 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~  147 (377)
                      .|+++.|.+.+.........|. ..+-.......+.|+++.|...+.++.+..  |+.....  .....+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~-l~~llaA~aA~~~g~~~~A~~~l~~A~~~~--~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPV-VNYLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchH-HHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHHHH
Confidence            6999999988877655432222 222233455588999999999999998754  5554333  3366788999999999


Q ss_pred             HHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-------HhHHHHHHHHHcCCCHHHHHHH
Q 042154          148 GLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDL-------ITFNTLLLGFYSNGRFADAEKI  220 (377)
Q Consensus       148 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~  220 (377)
                      ..++++.+.  .+-+......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++
T Consensus       174 ~~l~~~~~~--~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        174 HGVDKLLEV--APRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHhc--CCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            999998753  2334567888889999999999999999999987655322       1333344444445566777777


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCC
Q 042154          221 WETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGM  298 (377)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~  298 (377)
                      ++.+.+. .+.+......+..++...|+.++|..++++..+.  +|+....  ++.+....++.+++.+.++  ....+-
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~  326 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGD  326 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCC
Confidence            7776543 2457788888999999999999999999999884  5555322  2334446699999999998  444344


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          299 NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       299 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      |+..+..+...+.+.|++++|.+.|+.+.+  ..|+..++..+..++.+.|+.++|.+++++...
T Consensus       327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        327 TPLLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            666788899999999999999999999988  468888888999999999999999999998754

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.75  E-value=1.9e-14  Score=125.55  Aligned_cols=296  Identities=7%  Similarity=0.009  Sum_probs=224.1

Q ss_pred             HHHHHHHhhh--cccHHHHHHHHHhcccCCCCccchhhHHHH-HHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHH
Q 042154           24 IGSVIRGIYK--ENNLKRLVDKFKKSSDLGRFRTNTGIYTGT-VQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIA  100 (377)
Q Consensus        24 ~~~li~~~~~--~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  100 (377)
                      ...+..++..  .|++++|.+.+....+..   +++..+..+ .....+.|+++.|.+.+.++.+..+.......-....
T Consensus        85 ~~~~~~gl~a~~eGd~~~A~k~l~~~~~~~---~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~  161 (398)
T PRK10747         85 RKQTEQALLKLAEGDYQQVEKLMTRNADHA---EQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVR  161 (398)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHhcc---cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHH
Confidence            3344454443  699999998888765442   223333333 4455789999999999999987543332222223467


Q ss_pred             HHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCH------HHHHHHHHHHH
Q 042154          101 LYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDL------VSYNTIIKAFV  174 (377)
Q Consensus       101 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~------~~~~~l~~~~~  174 (377)
                      .+...|+++.|...++++.+.. |-+...+..+...|.+.|+|++|..++..+.+.....++.      .+|..++....
T Consensus       162 l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~  240 (398)
T PRK10747        162 IQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAM  240 (398)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999999999876 5578889999999999999999999999997653332221      13334444444


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 042154          175 DKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALE  254 (377)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  254 (377)
                      ...+.+...++++.+.+. .+.+......+...+...|+.++|.+++++..+.  +|+....  ++.+....++.+++..
T Consensus       241 ~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~  315 (398)
T PRK10747        241 ADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEK  315 (398)
T ss_pred             HhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHH
Confidence            555667777777776544 3457888899999999999999999999999885  3555322  3344456699999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          255 LVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       255 ~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      ..+...+. .+-|...+..+...|.+.+++++|.+.|+ .....|+...+..+...+.+.|+.++|.+++++....
T Consensus       316 ~~e~~lk~-~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        316 VLRQQIKQ-HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             HHHHHHhh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            99999886 23456678899999999999999999999 6667899999999999999999999999999988653

>TIGR00540 hemY_coli hemY protein

Probab=99.75  E-value=1.6e-14  Score=126.63  Aligned_cols=289  Identities=11%  Similarity=0.004  Sum_probs=192.7

Q ss_pred             HhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccH--HHHHHHHHHHHhCCChhH
Q 042154           68 ANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTV--LSFNALLGACVNSKKFDE  145 (377)
Q Consensus        68 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~  145 (377)
                      ...|+++.|.+.+.+..+..+.+..... .....+...|+.+.|.+.+.+..+..  |+.  .........+...|+++.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~~~~~l-laA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEPVLNLI-KAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCCHHHHH-HHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHH
Confidence            4578888888888877665433222222 45667777888888888888876543  343  233345777888888888


Q ss_pred             HHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHH---HcCCCHHHHHHHHH
Q 042154          146 VDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGF---YSNGRFADAEKIWE  222 (377)
Q Consensus       146 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~  222 (377)
                      |...++.+.+.  -+-+..+...+...+...|++++|.+.+..+.+.++.+.......-..++   ...+..++..+.+.
T Consensus       172 Al~~l~~l~~~--~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~  249 (409)
T TIGR00540       172 ARHGVDKLLEM--APRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLL  249 (409)
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            88888888754  13345577788888888889988888888888876542222211111111   22223333333444


Q ss_pred             HHHhCC---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHHhcCCHHHHHHHHH-hcC
Q 042154          223 TMVNMN---VRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFT---FYALIKGFVNEGNLEEAKRWYN-KSG  295 (377)
Q Consensus       223 ~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~---~~~l~~~~~~~~~~~~a~~~~~-~~~  295 (377)
                      .+.+..   .+.+...+..+...+...|+.++|.+++++..+.  .||...   ...........++.+.+.+.++ ...
T Consensus       250 ~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk  327 (409)
T TIGR00540       250 NWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAK  327 (409)
T ss_pred             HHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHH
Confidence            444332   1136778888888889999999999999998885  344331   1111222234577788888887 222


Q ss_pred             CCC-CH--HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          296 CGM-NK--AIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       296 ~~~-~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      ..| |+  ....++.+.+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++...
T Consensus       328 ~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       328 NVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             hCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            233 33  556688888999999999999999544444578888888999999999999999999988643

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

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

Probab=99.74  E-value=1.4e-17  Score=138.95  Aligned_cols=256  Identities=14%  Similarity=0.105  Sum_probs=63.3

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhhc-CCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCC
Q 042154           64 VQRLANAKRFRWIEEILEHQKQYK-DISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKK  142 (377)
Q Consensus        64 ~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  142 (377)
                      ...+.+.|++++|.++++...... .+.+..++..+...+...++++.|.+.++++...+ +-++..+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccccc
Confidence            444445555555555553322222 23333444444444445555555555555555443 1133334444444 45555


Q ss_pred             hhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCHHhHHHHHHHHHcCCCHHHHHHHH
Q 042154          143 FDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKG-IRLDLITFNTLLLGFYSNGRFADAEKIW  221 (377)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~  221 (377)
                      +++|.+++....++   .++...+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|+.++|++.+
T Consensus        93 ~~~A~~~~~~~~~~---~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   93 PEEALKLAEKAYER---DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             cccccccccccccc---ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            55555555444332   2333444445555555555555555555544321 2234444555555555555555555555


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcC-CCCC
Q 042154          222 ETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSG-CGMN  299 (377)
Q Consensus       222 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~-~~~~  299 (377)
                      ++..+.. +.|......++..+...|+.+++.++++...+.. +.|+..+..+..++...|+.++|..+++ ... .+.|
T Consensus       170 ~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d  247 (280)
T PF13429_consen  170 RKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDD  247 (280)
T ss_dssp             HHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccccccc
Confidence            5555443 1134444455555555555555555555544431 2233344455555555555555555555 111 1224


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042154          300 KAIFKLLVPFVCEKGDLDFAFNLCKRT  326 (377)
Q Consensus       300 ~~~~~~l~~~~~~~g~~~~a~~~~~~~  326 (377)
                      +.....+..++...|+.++|.++.+++
T Consensus       248 ~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  248 PLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHHHHT---------------
T ss_pred             ccccccccccccccccccccccccccc
Confidence            444455555555555555555555444

>TIGR00540 hemY_coli hemY protein

Probab=99.74  E-value=1.2e-14  Score=127.56  Aligned_cols=298  Identities=11%  Similarity=0.042  Sum_probs=222.0

Q ss_pred             HHHHHHHHhh--hcccHHHHHHHHHhcccCCCCccch-hhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHH
Q 042154           23 FIGSVIRGIY--KENNLKRLVDKFKKSSDLGRFRTNT-GIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLI   99 (377)
Q Consensus        23 ~~~~li~~~~--~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   99 (377)
                      ....+.+++.  ..|+++.|.+.+.+..+..   |+. ..+-.........|+.+.|.+++.+..+..+.+...+.-...
T Consensus        84 ~~~~~~~glla~~~g~~~~A~~~l~~~~~~~---~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a  160 (409)
T TIGR00540        84 AQKQTEEALLKLAEGDYAKAEKLIAKNADHA---AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIART  160 (409)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHhhcC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHH
Confidence            4455555554  4899999999998876643   443 334455677788999999999999987654333323443468


Q ss_pred             HHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHH-HHHHH---HHH
Q 042154          100 ALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYN-TIIKA---FVD  175 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~-~l~~~---~~~  175 (377)
                      ..+...|+++.|...++.+.+.. |-+..++..+...+.+.|++++|.+.+..+.+. +.. +...+. .-..+   ...
T Consensus       161 ~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~-~~~-~~~~~~~l~~~a~~~~l~  237 (409)
T TIGR00540       161 RILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKA-GLF-DDEEFADLEQKAEIGLLD  237 (409)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc-CCC-CHHHHHHHHHHHHHHHHH
Confidence            88999999999999999999886 457778899999999999999999999999765 433 333232 22222   233


Q ss_pred             cCCHHHHHHHHHHHHHCCCC---CCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHHhcCCH
Q 042154          176 KGSLDSANTLLYEMEKKGIR---LDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRS---YNARLDGLAIEKQT  249 (377)
Q Consensus       176 ~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~  249 (377)
                      .+..+.+.+.+..+.+....   .+...+..+...+...|+.++|.+++++..+..  ||...   ...........++.
T Consensus       238 ~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~  315 (409)
T TIGR00540       238 EAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDN  315 (409)
T ss_pred             HHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCCh
Confidence            44444455567666665321   378889999999999999999999999999875  44432   12222233445788


Q ss_pred             HHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHH---hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 042154          250 KKALELVGEMRSKEINPDV--FTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCK  324 (377)
Q Consensus       250 ~~a~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  324 (377)
                      +.+.+.++...+. .+-|+  .....+...+.+.|++++|.+.|+   .....|+...+..+...+.+.|+.++|.++++
T Consensus       316 ~~~~~~~e~~lk~-~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~  394 (409)
T TIGR00540       316 EKLEKLIEKQAKN-VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQ  394 (409)
T ss_pred             HHHHHHHHHHHHh-CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            8999999888875 22344  566788999999999999999999   55568999999999999999999999999999


Q ss_pred             HHHhc
Q 042154          325 RTFSE  329 (377)
Q Consensus       325 ~~~~~  329 (377)
                      +....
T Consensus       395 ~~l~~  399 (409)
T TIGR00540       395 DSLGL  399 (409)
T ss_pred             HHHHH
Confidence            87553

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

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.72  E-value=1.6e-13  Score=130.38  Aligned_cols=340  Identities=11%  Similarity=0.050  Sum_probs=251.4

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhccc-CCCCccchhhHHHHHHHHHhcCC---hHHHHHH--------------
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSD-LGRFRTNTGIYTGTVQRLANAKR---FRWIEEI--------------   79 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~--------------   79 (377)
                      |-+......+.-...++|+.++|.++|+.... .+.-..+......++..+.+.+.   ...+..+              
T Consensus       373 ~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  452 (987)
T PRK09782        373 PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQS  452 (987)
T ss_pred             CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHh
Confidence            33556666666677889999999999998876 22223344445577777777655   2222222              


Q ss_pred             --------HHHhhhh-cC-CC--ccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHH
Q 042154           80 --------LEHQKQY-KD-IS--KEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVD  147 (377)
Q Consensus        80 --------~~~~~~~-~~-~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  147 (377)
                              .+..... +. +.  +...+..+..++.. ++.++|...+.+.....  |+......+...+...|++++|.
T Consensus       453 ~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi  529 (987)
T PRK09782        453 QLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATAL  529 (987)
T ss_pred             hhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHH
Confidence                    2222221 11 12  34455567777776 88999999888877654  66555444555667899999999


Q ss_pred             HHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          148 GLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       148 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      ..|+++..   ..|+...+..+...+.+.|+.++|...++...+... .+...+..+.......|++++|...+++..+.
T Consensus       530 ~~~rka~~---~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P-~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l  605 (987)
T PRK09782        530 AAWQKISL---HDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGL-GDNALYWWLHAQRYIPGQPELALNDLTRSLNI  605 (987)
T ss_pred             HHHHHHhc---cCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            99998753   255555677778888999999999999999988742 23333444444555679999999999999986


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHH
Q 042154          228 NVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKL  305 (377)
Q Consensus       228 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~  305 (377)
                      .  |+...|..+..++.+.|++++|+..+++..... +.+...+..+..++...|++++|+..++ .....| +...+..
T Consensus       606 ~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~n  682 (987)
T PRK09782        606 A--PSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQ  682 (987)
T ss_pred             C--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            5  678889999999999999999999999999863 3356778888889999999999999999 444445 6678889


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCcee
Q 042154          306 LVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCR  368 (377)
Q Consensus       306 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  368 (377)
                      +..++...|++++|+..+++..+..+. +..+.........+..+++.|.+-+++....++.+
T Consensus       683 LA~al~~lGd~~eA~~~l~~Al~l~P~-~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~~~  744 (987)
T PRK09782        683 LAYVNQRLDDMAATQHYARLVIDDIDN-QALITPLTPEQNQQRFNFRRLHEEVGRRWTFSFDS  744 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCCC-CchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCccc
Confidence            999999999999999999999986432 33556667778888888999999888877666544

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.71  E-value=8.8e-14  Score=114.35  Aligned_cols=323  Identities=15%  Similarity=0.199  Sum_probs=239.6

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhc--CChH-HHHHHHHHhhhhcCCCccchhHH
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANA--KRFR-WIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~-~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      +.+-|.|+.. ..+|....+.-+|+.|.+.+ ++.+...-..|++..+-.  .++- .-++.|-.|...+......+   
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~-~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW---  190 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYERMRSEN-VDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW---  190 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhcC-CCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc---
Confidence            4455555543 45788899999999998877 666776666666544432  2222 22344555555554433332   


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                            +.|++.+  -+|+...     .+..+|..||.++++-...+.|.++|++.... ..+.+..+||.+|.+-.-..
T Consensus       191 ------K~G~vAd--L~~E~~P-----KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~-k~kv~~~aFN~lI~~~S~~~  256 (625)
T KOG4422|consen  191 ------KSGAVAD--LLFETLP-----KTDETVSIMIAGLCKFSSLERARELYKEHRAA-KGKVYREAFNGLIGASSYSV  256 (625)
T ss_pred             ------ccccHHH--HHHhhcC-----CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHh-hheeeHHhhhhhhhHHHhhc
Confidence                  3455444  4455443     36789999999999999999999999998766 66788899999987654333


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHH----HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH-H
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFAD----AEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKK-A  252 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a  252 (377)
                      +    .+++.+|......||..|||+++++..+.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++..+ +
T Consensus       257 ~----K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~a  332 (625)
T KOG4422|consen  257 G----KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVA  332 (625)
T ss_pred             c----HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhh
Confidence            3    7888999999999999999999999999998765    56678899999999999999999999999888755 4


Q ss_pred             HHHHHHHHhC----CCC---C-CHHHHHHHHHHHHhcCCHHHHHHHHH--h-----cCCCCCH---HHHHHHHHHHHhcC
Q 042154          253 LELVGEMRSK----EIN---P-DVFTFYALIKGFVNEGNLEEAKRWYN--K-----SGCGMNK---AIFKLLVPFVCEKG  314 (377)
Q Consensus       253 ~~~~~~~~~~----g~~---p-~~~~~~~l~~~~~~~~~~~~a~~~~~--~-----~~~~~~~---~~~~~l~~~~~~~g  314 (377)
                      ..++.++...    .++   | |..-|...+..|.+..+.+-|.++..  +     .-+.|+.   .-|..+....|+..
T Consensus       333 s~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~e  412 (625)
T KOG4422|consen  333 SSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQME  412 (625)
T ss_pred             HHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHH
Confidence            4555554432    222   2 34567778888889999988888777  1     1123332   24667777888999


Q ss_pred             ChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          315 DLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       315 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      ..+.-...|+.|+-.-.-|+..+...++++....|.++-..++|..++..|.
T Consensus       413 s~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~gh  464 (625)
T KOG4422|consen  413 SIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGH  464 (625)
T ss_pred             HHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhh
Confidence            9999999999999887888999999999999999999999999988887774

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

Probab=99.70  E-value=3.4e-13  Score=110.01  Aligned_cols=284  Identities=11%  Similarity=0.084  Sum_probs=226.6

Q ss_pred             hcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHH
Q 042154           69 NAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDG  148 (377)
Q Consensus        69 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  148 (377)
                      ..|+|.+|+++..+..+++..|...+. .-+.+.-..||.+.+-.++.+.-+..-.++...+-+..+.....|+.+.|..
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 FEGDFQQAEKLLRRNAEHGEQPVLAYL-LAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcchHHHHH-HHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            379999999999998888766655555 5677788889999999999999886334667778888888999999999999


Q ss_pred             HHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-------HhHHHHHHHHHcCCCHHHHHHHH
Q 042154          149 LFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDL-------ITFNTLLLGFYSNGRFADAEKIW  221 (377)
Q Consensus       149 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~  221 (377)
                      -++++.+.  -+..........++|.+.|++.....++..+.+.|.-.+.       .+|..+++-....+..+.-...|
T Consensus       175 ~v~~ll~~--~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W  252 (400)
T COG3071         175 NVDQLLEM--TPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWW  252 (400)
T ss_pred             HHHHHHHh--CcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHH
Confidence            99888653  2345667888899999999999999999999998875553       45777777777777777766677


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCC
Q 042154          222 ETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMN  299 (377)
Q Consensus       222 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~  299 (377)
                      +....+ .+-++..-..++.-+.+.|+.++|.++.++..+.+..|+   ... .-.+.+-++.+.-.+..+  ....+-+
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---LCR-LIPRLRPGDPEPLIKAAEKWLKQHPED  327 (400)
T ss_pred             HhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HHH-HHhhcCCCCchHHHHHHHHHHHhCCCC
Confidence            776643 244566777888889999999999999999998876555   222 224567777777777777  2233334


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          300 KAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       300 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      +..+..|...|.+.+.|.+|...|+...+  ..|+..+|..+.+++.+.|+.++|.++.++..
T Consensus       328 p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         328 PLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            47788999999999999999999998777  57899999999999999999999999999887

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

Probab=99.69  E-value=1.4e-13  Score=109.18  Aligned_cols=292  Identities=13%  Similarity=0.093  Sum_probs=219.9

Q ss_pred             cccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCcc-c--hhHHHHHHHHccCCHHH
Q 042154           34 ENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKE-G--FTARLIALYGKAAMFEN  110 (377)
Q Consensus        34 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~--~~~~l~~~~~~~~~~~~  110 (377)
                      .+++++|++.|-.|.+.+  +.+.++.-+|.+.+.+.|..+.|+++.+.+......+.. .  ..-.|..-|...|-++.
T Consensus        48 s~Q~dKAvdlF~e~l~~d--~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED--PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hcCcchHHHHHHHHHhcC--chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            677899999999998755  556777788999999999999999999988776322221 1  11257778899999999


Q ss_pred             HHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC----HHHHHHHHHHHHHcCCHHHHHHHH
Q 042154          111 ARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD----LVSYNTIIKAFVDKGSLDSANTLL  186 (377)
Q Consensus       111 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~  186 (377)
                      |+.+|..+.+.+ .--..+...|+..|-...+|++|+++-+++... +-.+.    ...|.-+...+....+++.|..++
T Consensus       126 AE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~-~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         126 AEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKL-GGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHc-CCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            999999998865 234667888999999999999999999887654 22222    124556666667788999999999


Q ss_pred             HHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 042154          187 YEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINP  266 (377)
Q Consensus       187 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p  266 (377)
                      .+..+.+.+ .+..--.+.+.+...|++.+|.+.++...+.+..--..+...+..+|.+.|+.++....+.++.+..  +
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-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--T  280 (389)
T ss_pred             HHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--C
Confidence            999887433 4445556778889999999999999999988744445677888899999999999999999988863  3


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHH---hcCChHHHHHHHHHHHhcCCC
Q 042154          267 DVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVC---EKGDLDFAFNLCKRTFSERCL  332 (377)
Q Consensus       267 ~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~---~~g~~~~a~~~~~~~~~~~~~  332 (377)
                      ....-..+...-......+.|..++. ...-+|+...+..++....   ..|...+-+.+++.|+...++
T Consensus       281 g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~  350 (389)
T COG2956         281 GADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLR  350 (389)
T ss_pred             CccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHHh
Confidence            33344444444445566677777777 6667899999888888554   334567777778888765443

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

Probab=99.69  E-value=4.7e-13  Score=109.22  Aligned_cols=300  Identities=11%  Similarity=0.081  Sum_probs=237.6

Q ss_pred             HHHHHHhhh--cccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHH
Q 042154           25 GSVIRGIYK--ENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALY  102 (377)
Q Consensus        25 ~~li~~~~~--~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  102 (377)
                      ..+..++.+  .|+|.+|.....+..+.+  +-....|..-+.+.-..|+.+.+..++.++.+....++....-......
T Consensus        86 ~~~~egl~~l~eG~~~qAEkl~~rnae~~--e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarll  163 (400)
T COG3071          86 KALNEGLLKLFEGDFQQAEKLLRRNAEHG--EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLL  163 (400)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhhcC--cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHH
Confidence            345555554  799999999998877665  2223356666777778999999999999998875556666666788889


Q ss_pred             HccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCH-------HHHHHHHHHHHH
Q 042154          103 GKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDL-------VSYNTIIKAFVD  175 (377)
Q Consensus       103 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-------~~~~~l~~~~~~  175 (377)
                      ...|+.+.|..-.+++.+.+ +-.+.......++|.+.|++..+..++.++.+. +.-.+.       .+|..+++-...
T Consensus       164 l~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka-~~l~~~e~~~le~~a~~glL~q~~~  241 (400)
T COG3071         164 LNRRDYPAARENVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKA-GLLSDEEAARLEQQAWEGLLQQARD  241 (400)
T ss_pred             HhCCCchhHHHHHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHc-cCCChHHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999998876 557888999999999999999999999999665 554443       367777776666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          176 KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALEL  255 (377)
Q Consensus       176 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  255 (377)
                      .+..+.-...++..... ..-++..-..++.-+.++|+.++|.++.++..+++..|+    -...-.+.+-++.+.-++.
T Consensus       242 ~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~  316 (400)
T COG3071         242 DNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKA  316 (400)
T ss_pred             cccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHH
Confidence            66666666677666543 344666777889999999999999999999998876555    2223345677888888887


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 042154          256 VGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVD  334 (377)
Q Consensus       256 ~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  334 (377)
                      .+.-.+. .+-++..+..|...|.+.+.+.+|...|+ .....|+..+|+.+.+++.+.|+..+|.++.++....-..|+
T Consensus       317 ~e~~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         317 AEKWLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHHHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            7776665 23355788899999999999999999999 788899999999999999999999999999998875544443

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

Probab=99.67  E-value=1e-12  Score=117.47  Aligned_cols=342  Identities=14%  Similarity=0.117  Sum_probs=262.6

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      |-.+..|-.|...|-+.|+.++++..+-.+-...  |.|...|..+.....+.|+++.|.-.|.++.+..+..-...+ .
T Consensus       170 p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~--p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n~~~~~-e  246 (895)
T KOG2076|consen  170 PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN--PKDYELWKRLADLSEQLGNINQARYCYSRAIQANPSNWELIY-E  246 (895)
T ss_pred             ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC--CCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcchHHHH-H
Confidence            4567889999999999999999999987776654  667789999999999999999999999999998776666666 4


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHH----HHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHH
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFN----ALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAF  173 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  173 (377)
                      -+..|-+.|+...|...|.++.....+.|..-+.    .++..+...++-+.|.+.++....+.+-..+...+++++..+
T Consensus       247 rs~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~  326 (895)
T KOG2076|consen  247 RSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELF  326 (895)
T ss_pred             HHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHH
Confidence            8889999999999999999998875322333232    345667778888999999988876544455666889999999


Q ss_pred             HHcCCHHHHHHHHHHHHHCC---------------------------CCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 042154          174 VDKGSLDSANTLLYEMEKKG---------------------------IRLDLITFNTLLLGFYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~~~---------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  226 (377)
                      .+...++.+......+....                           ..++..++ .++-++......+....+.....+
T Consensus       327 l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~-rl~icL~~L~~~e~~e~ll~~l~~  405 (895)
T KOG2076|consen  327 LKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI-RLMICLVHLKERELLEALLHFLVE  405 (895)
T ss_pred             HHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH-hHhhhhhcccccchHHHHHHHHHH
Confidence            99999999998888776611                           12233331 233344445555556666666666


Q ss_pred             CCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHH
Q 042154          227 MNVR--PNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAI  302 (377)
Q Consensus       227 ~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~  302 (377)
                      ..+.  -+...|.-+..+|.+.|++.+|+.+|..+.....--+...|..+..+|...|..++|.+.++ .....| +...
T Consensus       406 ~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~  485 (895)
T KOG2076|consen  406 DNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLDA  485 (895)
T ss_pred             hcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchhh
Confidence            6633  34567888999999999999999999999987444467789999999999999999999999 444455 4445


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhc--------CCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          303 FKLLVPFVCEKGDLDFAFNLCKRTFSE--------RCLVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       303 ~~~l~~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      --.|...+.+.|+.++|.+++..+...        +..|+........+.|.+.|+.++-..+...++.
T Consensus       486 Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  486 RITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVD  554 (895)
T ss_pred             hhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            666777899999999999999886532        2445555666677889999999886666655554

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

Probab=99.66  E-value=8.7e-14  Score=120.41  Aligned_cols=283  Identities=14%  Similarity=0.067  Sum_probs=147.7

Q ss_pred             HHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCC--CccchhHHHHHHHHccCCHH-HHHH
Q 042154           37 LKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDI--SKEGFTARLIALYGKAAMFE-NARK  113 (377)
Q Consensus        37 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~-~A~~  113 (377)
                      ..+|+..|++..+.  +.-+......+.++|...++++++.++|+.+.+..+.  ....+|.+.+..+-+.-... -|..
T Consensus       335 ~~~A~~~~~klp~h--~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  335 CREALNLFEKLPSH--HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHhhHHh--cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            45666666664332  2333345556666666666666666666666554321  22334444443332111110 1122


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 042154          114 VFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKK  192 (377)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  192 (377)
                      +.+..     +-++.+|.++.++|.-+++.+.|++.|++..+   +.| ...+|+.+..-+....++|.|...|+..+..
T Consensus       413 Li~~~-----~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ---ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~  484 (638)
T KOG1126|consen  413 LIDTD-----PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ---LDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV  484 (638)
T ss_pred             HHhhC-----CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc---cCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC
Confidence            22221     23456666666666666666666666666552   344 4456666666666666666666666666543


Q ss_pred             CCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 042154          193 GIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFY  272 (377)
Q Consensus       193 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~  272 (377)
                      ... +-..|.-+.-.|.+.++++.|+-.|++..+.+ +.+.+....+...+.+.|+.++|+.++++......+ |+..-.
T Consensus       485 ~~r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~  561 (638)
T KOG1126|consen  485 DPR-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKY  561 (638)
T ss_pred             Cch-hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHH
Confidence            111 22233334455666666666666666666554 234444555555566666666666666666554322 333323


Q ss_pred             HHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 042154          273 ALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCL  332 (377)
Q Consensus       273 ~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  332 (377)
                      .-+..+...+++++|+..++ -..+.| +...|..+...|.+.|+.+.|+.-|.-+.+..++
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            33444555666666666666 222233 3345555666666666666666666666554433

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

Probab=99.64  E-value=1.4e-12  Score=108.44  Aligned_cols=316  Identities=11%  Similarity=0.060  Sum_probs=225.8

Q ss_pred             hhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhH--HHHHHHHccCCH
Q 042154           31 IYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTA--RLIALYGKAAMF  108 (377)
Q Consensus        31 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~  108 (377)
                      +.+.|....|++.|......-  |-.-..|..|...+.   +.+.+..+..     +.+.+..+..  .+..++-...+.
T Consensus       174 ~k~~~~~s~A~~sfv~~v~~~--P~~W~AWleL~~lit---~~e~~~~l~~-----~l~~~~h~M~~~F~~~a~~el~q~  243 (559)
T KOG1155|consen  174 LKELGLLSLAIDSFVEVVNRY--PWFWSAWLELSELIT---DIEILSILVV-----GLPSDMHWMKKFFLKKAYQELHQH  243 (559)
T ss_pred             HHhhchHHHHHHHHHHHHhcC--CcchHHHHHHHHhhc---hHHHHHHHHh-----cCcccchHHHHHHHHHHHHHHHHH
Confidence            445677777888777765432  333334444433322   2222222211     1122122211  355667777788


Q ss_pred             HHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHH
Q 042154          109 ENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLY  187 (377)
Q Consensus       109 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~  187 (377)
                      +++.+-.+.+...|++-+...-+....+.-...|+++|+.+|+++.+...... |..+|..++-.  +..+-..  ..+.
T Consensus       244 ~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv--~~~~skL--s~LA  319 (559)
T KOG1155|consen  244 EEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYV--KNDKSKL--SYLA  319 (559)
T ss_pred             HHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHH--HhhhHHH--HHHH
Confidence            89998888888888776666666666667788899999999999976522222 45677776543  3322221  1111


Q ss_pred             HHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 042154          188 EMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD  267 (377)
Q Consensus       188 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~  267 (377)
                      .-...--+-.+.|+..+.+-|+-.++.++|...|+..++.+ +.....|+.+..-|....+...|++-++..++-. +-|
T Consensus       320 ~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~D  397 (559)
T KOG1155|consen  320 QNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRD  397 (559)
T ss_pred             HHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chh
Confidence            11111011244577788889999999999999999999876 3456789999999999999999999999999863 447


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 042154          268 VFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRL  345 (377)
Q Consensus       268 ~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  345 (377)
                      -..|..|.++|.-.+.+.-|+-+|+ ...++| |...|.+|..+|.+.++.++|++.|++....+-. +...+..|.+.|
T Consensus       398 yRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLy  476 (559)
T KOG1155|consen  398 YRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLY  476 (559)
T ss_pred             HHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHH
Confidence            7899999999999999999999999 666666 6779999999999999999999999999987644 667899999999


Q ss_pred             HhcCCHHHHHHHHHhhcc
Q 042154          346 AKELRVEEAKELVELGKT  363 (377)
Q Consensus       346 ~~~g~~~~A~~~~~~~~~  363 (377)
                      -+.++.++|...+++.++
T Consensus       477 e~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  477 EELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHhHHHHHHHHHHHHH
Confidence            999999999999888765

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

Probab=99.63  E-value=1.1e-12  Score=109.61  Aligned_cols=328  Identities=10%  Similarity=0.106  Sum_probs=214.2

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccc-hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTN-TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIAL  101 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  101 (377)
                      .+-...+-+.++|++++|++.|.+..+.   .|+ +..|+....+|...|+|+++++--.+..+.++.-...++ .-..+
T Consensus       117 ~lK~~GN~~f~~kkY~eAIkyY~~AI~l---~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~KAl~-RRA~A  192 (606)
T KOG0547|consen  117 ALKTKGNKFFRNKKYDEAIKYYTQAIEL---CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYVKALL-RRASA  192 (606)
T ss_pred             HHHhhhhhhhhcccHHHHHHHHHHHHhc---CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHHHHHH-HHHHH
Confidence            3445556788999999999999999875   466 788999999999999999999877776665443333333 23334


Q ss_pred             HHccCCHHHHH----------------------HHHHh---------cCCCC--CCccHHHHHHHHHHHHh---------
Q 042154          102 YGKAAMFENAR----------------------KVFDE---------MPGRN--CEQTVLSFNALLGACVN---------  139 (377)
Q Consensus       102 ~~~~~~~~~A~----------------------~~~~~---------~~~~~--~~~~~~~~~~l~~~~~~---------  139 (377)
                      +-..|++++|+                      +++.+         +.+.+  +-|+.....+..+.+..         
T Consensus       193 ~E~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~  272 (606)
T KOG0547|consen  193 HEQLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNK  272 (606)
T ss_pred             HHhhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCC
Confidence            44444444433                      22211         22111  22333333332222211         


Q ss_pred             ------------------------------------------------------------------CCChhHHHHHHHhc
Q 042154          140 ------------------------------------------------------------------SKKFDEVDGLFKDL  153 (377)
Q Consensus       140 ------------------------------------------------------------------~~~~~~a~~~~~~~  153 (377)
                                                                                        .|+.-.|..-|+..
T Consensus       273 ~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~  352 (606)
T KOG0547|consen  273 SDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAA  352 (606)
T ss_pred             CccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHH
Confidence                                                                              11111111111111


Q ss_pred             hhhcCCCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC
Q 042154          154 PHKLGIEPD-LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPN  232 (377)
Q Consensus       154 ~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  232 (377)
                      +.   ..|. ...|-.+..+|....+.++..+.|....+.+.. ++.+|..-.+.+.-.+++++|..-|++.+... +-+
T Consensus       353 I~---l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~  427 (606)
T KOG0547|consen  353 IK---LDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PEN  427 (606)
T ss_pred             Hh---cCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhh
Confidence            11   1111 112555556677777888888888888776544 66677777777777778888888888888765 234


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCC-------H--HH
Q 042154          233 VRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMN-------K--AI  302 (377)
Q Consensus       233 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~-------~--~~  302 (377)
                      ...|-.+.-+..+.+++++++..|++..+. ++..+..|+.....+..++++++|.+.|+ ...+.|.       .  .+
T Consensus       428 ~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV  506 (606)
T KOG0547|consen  428 AYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLV  506 (606)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhh
Confidence            455666666667888999999999998876 55567889999999999999999999998 2222332       2  22


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          303 FKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       303 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      ...++..-.+ +++..|.++++++++.+++ ....|..|...-.+.|+.++|.++|++..
T Consensus       507 ~Ka~l~~qwk-~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  507 HKALLVLQWK-EDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             hhhHhhhchh-hhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            2233332233 8899999999999886554 44578889999999999999999998764

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

Probab=99.62  E-value=1.7e-13  Score=118.58  Aligned_cols=289  Identities=9%  Similarity=-0.038  Sum_probs=217.3

Q ss_pred             CChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCC--CCccHHHHHHHHHHHHhCCChhHHHH
Q 042154           71 KRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRN--CEQTVLSFNALLGACVNSKKFDEVDG  148 (377)
Q Consensus        71 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~  148 (377)
                      -+..+|+..|++...+ ......+...+..+|...+++++|+++|+.+.+..  ..-+...|.+.+--+-+.    -++.
T Consensus       333 y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls  407 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALS  407 (638)
T ss_pred             HHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHH
Confidence            3567888999885554 33444566678999999999999999999987643  112466676665443221    1122


Q ss_pred             HH-HhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          149 LF-KDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       149 ~~-~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      .+ +.+..  .-+-.+.+|.++..+|.-+++.+.|++.|++..+.+.. ...+|+.+..-+.....+|+|...|+..+..
T Consensus       408 ~Laq~Li~--~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~  484 (638)
T KOG1126|consen  408 YLAQDLID--TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGV  484 (638)
T ss_pred             HHHHHHHh--hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcC
Confidence            22 22222  12335679999999999999999999999999987432 7788998888889999999999999998864


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHH
Q 042154          228 NVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKL  305 (377)
Q Consensus       228 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~  305 (377)
                      . +.+...|--+...|.+.++++.|+-.|+...+-+ +-+.+....+...+.+.|+.++|+++++ .....| |+-.--.
T Consensus       485 ~-~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~  562 (638)
T KOG1126|consen  485 D-PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYH  562 (638)
T ss_pred             C-chhhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHH
Confidence            3 1233445556778999999999999999999853 2356777888888999999999999999 444444 4444444


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCceeee
Q 042154          306 LVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYN  370 (377)
Q Consensus       306 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  370 (377)
                      -+..+...+++++|++.++++.+.-+. +...+..++..|.+.|+.+.|+.-|--|.+.++....
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~vP~-es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~~  626 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKELVPQ-ESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGAQ  626 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccch
Confidence            566788899999999999999885322 4557888899999999999999999888887765544

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

Probab=99.62  E-value=6.1e-13  Score=110.38  Aligned_cols=337  Identities=13%  Similarity=0.062  Sum_probs=207.2

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh------
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT------   95 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------   95 (377)
                      ...+.+.-.+.+.|.++.|+..|+...+.   .|+..+-..|+-++...|+.++..+.|.++......++..-|      
T Consensus       277 kil~nigvtfiq~gqy~dainsfdh~m~~---~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~dd  353 (840)
T KOG2003|consen  277 KILNNIGVTFIQAGQYDDAINSFDHCMEE---APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDD  353 (840)
T ss_pred             HHHhhcCeeEEecccchhhHhhHHHHHHh---CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCC
Confidence            34555555677888888888888888764   366555555555566678888888888887765433332211      


Q ss_pred             --HHHHHHHHccC-----------CHHHHHHHHHhcCCCCCCccHH-------------HHHH--------HHHHHHhCC
Q 042154           96 --ARLIALYGKAA-----------MFENARKVFDEMPGRNCEQTVL-------------SFNA--------LLGACVNSK  141 (377)
Q Consensus        96 --~~l~~~~~~~~-----------~~~~A~~~~~~~~~~~~~~~~~-------------~~~~--------l~~~~~~~~  141 (377)
                        ..|+.--.+..           +.++++-.--+++.--+.|+-.             .+..        -...+.++|
T Consensus       354 p~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~  433 (840)
T KOG2003|consen  354 PDDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNG  433 (840)
T ss_pred             cchHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhcc
Confidence              11222211111           1122221112222211222211             0111        123488888


Q ss_pred             ChhHHHHHHHhchhhcCCCcCHHH------------------------------HHH-----HHHHHHHcCCHHHHHHHH
Q 042154          142 KFDEVDGLFKDLPHKLGIEPDLVS------------------------------YNT-----IIKAFVDKGSLDSANTLL  186 (377)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~p~~~~------------------------------~~~-----l~~~~~~~~~~~~a~~~~  186 (377)
                      +++.|+++++.+.++.+-..+...                              ||.     -.......|++++|.+.+
T Consensus       434 d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~y  513 (840)
T KOG2003|consen  434 DIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFY  513 (840)
T ss_pred             CHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHH
Confidence            888888888776543111111100                              000     001112357888899888


Q ss_pred             HHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 042154          187 YEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINP  266 (377)
Q Consensus       187 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p  266 (377)
                      .+.......-....|+ +.-.+-..|++++|++.|-++... +.-+......+...|....+...|++++.+.... ++.
T Consensus       514 keal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~  590 (840)
T KOG2003|consen  514 KEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPN  590 (840)
T ss_pred             HHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCC
Confidence            8888764332233333 233456678889998888766532 1235566667778888888888888888777654 556


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 042154          267 DVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDR  344 (377)
Q Consensus       267 ~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  344 (377)
                      |+.....|...|-+.|+-.+|.++.-  -.-++-|..+...|..-|....-+++|+.+|++..-  +.|+..-|..++..
T Consensus       591 dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmias  668 (840)
T KOG2003|consen  591 DPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIAS  668 (840)
T ss_pred             CHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHH
Confidence            77888888888888888888888766  333445777777777778888888888888887654  67888888776654


Q ss_pred             -HHhcCCHHHHHHHHHhhccCCc
Q 042154          345 -LAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       345 -~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                       +.+.|++++|.++++...++-+
T Consensus       669 c~rrsgnyqka~d~yk~~hrkfp  691 (840)
T KOG2003|consen  669 CFRRSGNYQKAFDLYKDIHRKFP  691 (840)
T ss_pred             HHHhcccHHHHHHHHHHHHHhCc
Confidence             4568888888888888766544

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

Probab=99.61  E-value=1.1e-12  Score=118.28  Aligned_cols=341  Identities=13%  Similarity=0.054  Sum_probs=241.2

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcc----cCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhh---cCCC
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSS----DLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQY---KDIS   90 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~   90 (377)
                      |.|...|-.+...+-..+- ..++.+|..+.    ..+ -++-++..|.+...+...|+++.|...|......   ...+
T Consensus       411 ~~d~~a~l~laql~e~~d~-~~sL~~~~~A~d~L~~~~-~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~  488 (1018)
T KOG2002|consen  411 PVDSEAWLELAQLLEQTDP-WASLDAYGNALDILESKG-KQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANK  488 (1018)
T ss_pred             cccHHHHHHHHHHHHhcCh-HHHHHHHHHHHHHHHHcC-CCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCc
Confidence            5567777777766655443 33366665543    333 2356677888888888899999999988887665   1222


Q ss_pred             ccc-------hhHHHHHHHHccCCHHHHHHHHHhcCCCCCCcc-HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC
Q 042154           91 KEG-------FTARLIALYGKAAMFENARKVFDEMPGRNCEQT-VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD  162 (377)
Q Consensus        91 ~~~-------~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~  162 (377)
                      +..       -|| +..++-..++.+.|.+.|..+.+..  |. +..|..+.......+...+|..+++....  ....+
T Consensus       489 de~~~~~lt~~YN-larl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~--~d~~n  563 (1018)
T KOG2002|consen  489 DEGKSTNLTLKYN-LARLLEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMARDKNNLYEASLLLKDALN--IDSSN  563 (1018)
T ss_pred             cccccchhHHHHH-HHHHHHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHHhccCcHHHHHHHHHHHh--cccCC
Confidence            221       343 7777777888899999998888764  44 34454454444455778888888888765  44455


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCHHhHHHHHHHHHcC------------CCHHHHHHHHHHHHhCCC
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKKG-IRLDLITFNTLLLGFYSN------------GRFADAEKIWETMVNMNV  229 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~------------~~~~~a~~~~~~~~~~~~  229 (377)
                      +..++.+...+.+..++..|.+-|....+.- ..+|+.+.-.|.+.|.+.            +..++|+++|.+.++.. 
T Consensus       564 p~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-  642 (1018)
T KOG2002|consen  564 PNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-  642 (1018)
T ss_pred             cHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-
Confidence            6667777788888888888888777776542 235777777777765532            35678899999888875 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH----hcCCCCCHHHHHH
Q 042154          230 RPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN----KSGCGMNKAIFKL  305 (377)
Q Consensus       230 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~----~~~~~~~~~~~~~  305 (377)
                      +-|...-|-+.-.++..|++.+|..+|.+..+... -...+|..+.++|...|++..|+++|+    .....-+..+.+.
T Consensus       643 pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~  721 (1018)
T KOG2002|consen  643 PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHY  721 (1018)
T ss_pred             cchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHH
Confidence            45667777888888999999999999999988743 244578889999999999999999999    3444557778889


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHH------------------HHHhcCCHHHHHHHHHhhccCCce
Q 042154          306 LVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVD------------------RLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       306 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~------------------~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      |.+++.+.|.+.+|.+.+..+....+.-....||..+-                  .....+..+.|.++|..+...+..
T Consensus       722 Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  722 LARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            99999999999999999888877654433334443321                  112334567788888888877755

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

Probab=99.60  E-value=5.3e-12  Score=100.32  Aligned_cols=286  Identities=12%  Similarity=0.064  Sum_probs=214.9

Q ss_pred             hcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccH------HHHHHHHHHHHhCCC
Q 042154           69 NAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTV------LSFNALLGACVNSKK  142 (377)
Q Consensus        69 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~  142 (377)
                      -..+.++|+++|-+|.+.....-+... +|.+.|.+.|..+.|+++-+.+.+.   ||.      .+...|..-|...|-
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d~~t~e~~l-tLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl  122 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQEDPETFEAHL-TLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGL  122 (389)
T ss_pred             hhcCcchHHHHHHHHHhcCchhhHHHH-HHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhh
Confidence            356889999999999886443333334 6999999999999999999998875   442      345567778999999


Q ss_pred             hhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH----HhHHHHHHHHHcCCCHHHHH
Q 042154          143 FDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDL----ITFNTLLLGFYSNGRFADAE  218 (377)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~  218 (377)
                      +|.|+++|..+.+..  .--......++..|-...+|++|+++-+++.+.+..+..    ..|--+...+....+.+.|.
T Consensus       123 ~DRAE~~f~~L~de~--efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~  200 (389)
T COG2956         123 LDRAEDIFNQLVDEG--EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRAR  200 (389)
T ss_pred             hhHHHHHHHHHhcch--hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHH
Confidence            999999999987632  223446788999999999999999999999887655432    34555666667778999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCC
Q 042154          219 KIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCG  297 (377)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~  297 (377)
                      .++.+..+.+. ..+..--.+.+.+...|++++|.+.|+...+.+..--+.+...|..+|...|+.++...++. .....
T Consensus       201 ~~l~kAlqa~~-~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~  279 (389)
T COG2956         201 ELLKKALQADK-KCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN  279 (389)
T ss_pred             HHHHHHHhhCc-cceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            99999988752 23344445667888999999999999999998655456778899999999999999999999 44445


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh---cCCHHHHHHHHHhhcc
Q 042154          298 MNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAK---ELRVEEAKELVELGKT  363 (377)
Q Consensus       298 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~  363 (377)
                      ++...-..+...-....-.+.|...+.+-+..  +|+...+..+++.-..   .|...+-..+++.|+.
T Consensus       280 ~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         280 TGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             CCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence            55555555555445555567777776665553  6888999999987764   3445555556666543

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

Probab=99.60  E-value=4e-11  Score=104.01  Aligned_cols=333  Identities=11%  Similarity=0.017  Sum_probs=238.0

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHH
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIAL  101 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  101 (377)
                      .+|+.-.+.|.+.+.++-|..+|....+.  ++.+...|...+..--..|..+....+++++...- +..+.++-..+..
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv--fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake  593 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV--FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKE  593 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh--ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHH
Confidence            46666677777888888888888887765  36667777777777677788888888888877763 3344455456666


Q ss_pred             HHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHH
Q 042154          102 YGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDS  181 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  181 (377)
                      +-..||+..|..++....+.. +-+...|-+-+..-..+.+++.|..+|.+..   +..|+...|..-+..-.-.++.++
T Consensus       594 ~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar---~~sgTeRv~mKs~~~er~ld~~ee  669 (913)
T KOG0495|consen  594 KWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKAR---SISGTERVWMKSANLERYLDNVEE  669 (913)
T ss_pred             HHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHh---ccCCcchhhHHHhHHHHHhhhHHH
Confidence            777788888888888887765 3466778888888888888888888888775   456777777777777777788888


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          182 ANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       182 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                      |.+++++..+. ++.-...|-.+.+.+-+.++.+.|...|..-.+. ++-....|-.+...--+.|++-+|..++++..-
T Consensus       670 A~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarl  747 (913)
T KOG0495|consen  670 ALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARL  747 (913)
T ss_pred             HHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHh
Confidence            88888887776 3334456777777777777777777777655543 333445666666666667777777777777766


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--------------------------------hcCCCCCHHHHHHHHHH
Q 042154          262 KEINPDVFTFYALIKGFVNEGNLEEAKRWYN--------------------------------KSGCGMNKAIFKLLVPF  309 (377)
Q Consensus       262 ~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--------------------------------~~~~~~~~~~~~~l~~~  309 (377)
                      .+ +-+...|...++.=.+.|+.+.|..++.                                -.....|+.+...+...
T Consensus       748 kN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~l  826 (913)
T KOG0495|consen  748 KN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKL  826 (913)
T ss_pred             cC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHH
Confidence            53 3356677777777777777777765554                                11123455666667777


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          310 VCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       310 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      +....++++|.+.|.+.++.+.. ...+|.-+..-+.+.|.-+.-.++++...+..
T Consensus       827 fw~e~k~~kar~Wf~Ravk~d~d-~GD~wa~fykfel~hG~eed~kev~~~c~~~E  881 (913)
T KOG0495|consen  827 FWSEKKIEKAREWFERAVKKDPD-NGDAWAWFYKFELRHGTEEDQKEVLKKCETAE  881 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHccCCc-cchHHHHHHHHHHHhCCHHHHHHHHHHHhccC
Confidence            78888888888888888886544 55677778888888888888888888776544

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

Probab=99.59  E-value=4.7e-13  Score=106.40  Aligned_cols=240  Identities=9%  Similarity=0.023  Sum_probs=194.6

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHH
Q 042154          126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLL  205 (377)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  205 (377)
                      |..--+.+..+|.+.|.+.+|.+.++.-..+   .|-+.||..+-++|.+..+++.|+.++.+-.+. ++-++....-+.
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q---~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~A  297 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ---FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQA  297 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhc---CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhH
Confidence            3444467889999999999999999877654   677888999999999999999999999988876 344555556677


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 042154          206 LGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLE  285 (377)
Q Consensus       206 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~  285 (377)
                      ..+-..++.++|.++|+...+.. +.++.....+...|.-.++++.|+.+|+++++.|+. ++..|+.+.-+|.-.++++
T Consensus       298 Ri~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D  375 (478)
T KOG1129|consen  298 RIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQID  375 (478)
T ss_pred             HHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchh
Confidence            78888899999999999988765 346667777778888899999999999999999875 7788888998999999999


Q ss_pred             HHHHHHH---hcCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHh
Q 042154          286 EAKRWYN---KSGCGMN--KAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVEL  360 (377)
Q Consensus       286 ~a~~~~~---~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  360 (377)
                      -++.-|+   ...-.|+  ..+|-.+....+..||+..|.+.|+-.+..+.. ....++.|.-.-.+.|++++|..+++.
T Consensus       376 ~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~  454 (478)
T KOG1129|consen  376 LVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNA  454 (478)
T ss_pred             hhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHH
Confidence            9988888   2222233  346777888888999999999999998887654 677888888888999999999999999


Q ss_pred             hccCCceeeecc
Q 042154          361 GKTNSYCRYNLK  372 (377)
Q Consensus       361 ~~~~~~~~~~~~  372 (377)
                      +.+..+.-++.+
T Consensus       455 A~s~~P~m~E~~  466 (478)
T KOG1129|consen  455 AKSVMPDMAEVT  466 (478)
T ss_pred             hhhhCccccccc
Confidence            988776655443

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

Probab=99.58  E-value=3.1e-11  Score=109.11  Aligned_cols=342  Identities=12%  Similarity=0.089  Sum_probs=220.2

Q ss_pred             CCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCC-CCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh
Q 042154           17 TATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLG-RFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT   95 (377)
Q Consensus        17 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   95 (377)
                      .|++...+-.-.......+++..|+.+|+.+.... ..+||+.+  .+..++.+.|+.+.|+..|.++.+..+ .....+
T Consensus       160 sp~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~~a~~ralqLdp-~~v~al  236 (1018)
T KOG2002|consen  160 SPDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKALLAFERALQLDP-TCVSAL  236 (1018)
T ss_pred             CCcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhHHHHHHHHHhcCh-hhHHHH
Confidence            34444444444444556788999999998865432 24555533  445666788899999999988888754 222222


Q ss_pred             HHHHHHHHc---cCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHH
Q 042154           96 ARLIALYGK---AAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIK  171 (377)
Q Consensus        96 ~~l~~~~~~---~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~  171 (377)
                      -.|...-..   ...+..+..++...-..+ +-++.+.+.|.+.|.-.|+++.+..+...+.......+ -+..|..+.+
T Consensus       237 v~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gR  315 (1018)
T KOG2002|consen  237 VALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGR  315 (1018)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence            122222222   234555666666655443 35677888888888888998888888887765421111 2346788888


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----
Q 042154          172 AFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEK----  247 (377)
Q Consensus       172 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----  247 (377)
                      +|-..|++++|...|.+..+....--...+.-+.+.|.+.|+++.+...|+...+.. +.+..+..++...|...+    
T Consensus       316 s~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~  394 (1018)
T KOG2002|consen  316 SYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQE  394 (1018)
T ss_pred             HHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhH
Confidence            888999999999988888766332223445567788888899999998888888764 344566666666666654    


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-------hcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 042154          248 QTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-------KSGCGMNKAIFKLLVPFVCEKGDLDFAF  320 (377)
Q Consensus       248 ~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~~~~~~~~~~l~~~~~~~g~~~~a~  320 (377)
                      ..++|..++.+..+.- +-|...|..+...+... +...++.++.       ..+..+.+...|.+...+...|++.+|.
T Consensus       395 ~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~  472 (1018)
T KOG2002|consen  395 KRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQT-DPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKAL  472 (1018)
T ss_pred             HHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHH
Confidence            4566777777766652 34566776666665543 3332244433       4444567777888888888888888888


Q ss_pred             HHHHHHHhc---CCCCCh------hhHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          321 NLCKRTFSE---RCLVDQ------APLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       321 ~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      ..|+.....   ...+|.      .+-..+...+-..++++.|.+.|..+.+..
T Consensus       473 ~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh  526 (1018)
T KOG2002|consen  473 EHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH  526 (1018)
T ss_pred             HHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC
Confidence            888887765   122333      123345556666777777777777776543

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

Probab=99.57  E-value=2.6e-12  Score=106.71  Aligned_cols=278  Identities=12%  Similarity=0.075  Sum_probs=202.6

Q ss_pred             HHHhcCChHHHHHHHHHhhhhcCCCccchhHHH--HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCCh
Q 042154           66 RLANAKRFRWIEEILEHQKQYKDISKEGFTARL--IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKF  143 (377)
Q Consensus        66 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  143 (377)
                      .+.+.|+++.|++++.-+.+..........+.|  +..+-.-.++..|.++-+...... .-+..+...-.+....+|++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcH
Confidence            345677888888887776655333222222222  222222346777777776665432 12333333333345568899


Q ss_pred             hHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHH
Q 042154          144 DEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWET  223 (377)
Q Consensus       144 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  223 (377)
                      ++|...|++.... . ..-......+.-.+-..|++++|++.|-++... +.-+..+...+.+.|-...+..+|++++.+
T Consensus       507 dka~~~ykeal~n-d-asc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q  583 (840)
T KOG2003|consen  507 DKAAEFYKEALNN-D-ASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQ  583 (840)
T ss_pred             HHHHHHHHHHHcC-c-hHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence            9999999988753 1 111122223334567889999999999887654 233777888899999999999999999988


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHH
Q 042154          224 MVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAI  302 (377)
Q Consensus       224 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~  302 (377)
                      .... ++.|+...+-+...|-+.|+-..|...+-+-.+. ++-+..+...|...|....-+++++.+|+ ..-+.|+..-
T Consensus       584 ~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~k  661 (840)
T KOG2003|consen  584 ANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSK  661 (840)
T ss_pred             hccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHH
Confidence            7654 5668889999999999999999999887665554 56678899999999999999999999999 6778999999


Q ss_pred             HHHHHH-HHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 042154          303 FKLLVP-FVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELR  350 (377)
Q Consensus       303 ~~~l~~-~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  350 (377)
                      |..++. ++.+.|++++|..+|+...+. ++-|.....-|++.+...|-
T Consensus       662 wqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  662 WQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            998876 556789999999999998875 55688899889998887774

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

Probab=99.57  E-value=1e-11  Score=103.28  Aligned_cols=289  Identities=13%  Similarity=0.071  Sum_probs=214.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCC--CccHHHHHHHHHHHHhC
Q 042154           63 TVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNC--EQTVLSFNALLGACVNS  140 (377)
Q Consensus        63 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~  140 (377)
                      +..++....+.+++.+-.+.....|.+....+-+....+.-...|++.|+.+|+++.+...  --|..+|..++-.--..
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~  312 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhh
Confidence            3445566667888888888877777766666666666777788899999999999987641  12566676665332222


Q ss_pred             CChh-HHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHH
Q 042154          141 KKFD-EVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEK  219 (377)
Q Consensus       141 ~~~~-~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  219 (377)
                      .+.. -|..+++ + .    +-.+.|...+.+.|.-.++.++|...|+...+.+.. ....|+.+..-|....+...|..
T Consensus       313 skLs~LA~~v~~-i-d----KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~  385 (559)
T KOG1155|consen  313 SKLSYLAQNVSN-I-D----KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIE  385 (559)
T ss_pred             HHHHHHHHHHHH-h-c----cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHH
Confidence            2211 1222221 1 1    234557788889999999999999999999988544 67789999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCC
Q 042154          220 IWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCG  297 (377)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~  297 (377)
                      -++..++.. +.|-..|-.+.++|.-.+...=|+-.|++.... -+.|...|.+|..+|.+.++.++|++.|.  -..-.
T Consensus       386 sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~-kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d  463 (559)
T KOG1155|consen  386 SYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALEL-KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD  463 (559)
T ss_pred             HHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc
Confidence            999999876 568899999999999999999999999999885 24478899999999999999999999999  22224


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCChhhHH---HHHHHHHhcCCHHHHHHHHHhh
Q 042154          298 MNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE----RCLVDQAPLQ---LVVDRLAKELRVEEAKELVELG  361 (377)
Q Consensus       298 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~---~l~~~~~~~g~~~~A~~~~~~~  361 (377)
                      .+...+..|.+.|-+.++.++|.+.|.+.++.    |.. ++.|..   -|..-+.+.+++++|..+....
T Consensus       464 te~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~-~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~  533 (559)
T KOG1155|consen  464 TEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEI-DDETIKARLFLAEYFKKMKDFDEASYYATLV  533 (559)
T ss_pred             cchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhccc-chHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            46678999999999999999999998887663    322 332222   2444556677777666544443

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.55  E-value=1.2e-11  Score=100.45  Aligned_cols=199  Identities=13%  Similarity=0.075  Sum_probs=141.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDG  242 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  242 (377)
                      ...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            4456666777777777777777777776653 2245666777777777788888888887777654 2345566677777


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHH
Q 042154          243 LAIEKQTKKALELVGEMRSKEIN-PDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFA  319 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~g~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a  319 (377)
                      +...|++++|...+++....... .....+..+..++...|++++|.+.++ .....| +...+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            77888888888888887764221 234456667777888888888888888 222233 455677778888888888888


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccC
Q 042154          320 FNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTN  364 (377)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  364 (377)
                      ...+++..+. ...++..+..+...+...|+.++|..+.+.+.+.
T Consensus       189 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            8888888776 3335566667778888888888888887776543

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.

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

Probab=99.55  E-value=1.2e-10  Score=97.56  Aligned_cols=323  Identities=12%  Similarity=0.124  Sum_probs=218.8

Q ss_pred             hhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHH
Q 042154           32 YKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENA  111 (377)
Q Consensus        32 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  111 (377)
                      ..++++..|..+|+.+...+  .-+...|-.-+..-.+..++..|..+++++...-+..+.-+| ..+.+=-..|++..|
T Consensus        84 esq~e~~RARSv~ERALdvd--~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWy-KY~ymEE~LgNi~ga  160 (677)
T KOG1915|consen   84 ESQKEIQRARSVFERALDVD--YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWY-KYIYMEEMLGNIAGA  160 (677)
T ss_pred             HhHHHHHHHHHHHHHHHhcc--cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHH-HHHHHHHHhcccHHH
Confidence            34677888999999998765  456667888888888899999999999998887555555555 577777778999999


Q ss_pred             HHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 042154          112 RKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEK  191 (377)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  191 (377)
                      .++|++..+.  .|+..+|.+.|+.=.+.+.++.|..+|++..   -+.|++.+|-...+.=.+.|....+..+|+.+.+
T Consensus       161 RqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV---~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie  235 (677)
T KOG1915|consen  161 RQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFV---LVHPKVSNWIKYARFEEKHGNVALARSVYERAIE  235 (677)
T ss_pred             HHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHh---eecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            9999998886  4999999999999999999999999999886   4568888888777777788888888777777654


Q ss_pred             C-CC-CCCHHhHHHHHHHHHcCCCHHHHHHHHHHH--------------------------------------------H
Q 042154          192 K-GI-RLDLITFNTLLLGFYSNGRFADAEKIWETM--------------------------------------------V  225 (377)
Q Consensus       192 ~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--------------------------------------------~  225 (377)
                      . |- ..+...|.+....=.++..++.|.-+|+-.                                            +
T Consensus       236 ~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v  315 (677)
T KOG1915|consen  236 FLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEV  315 (677)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHH
Confidence            3 10 001112222222111222222222222211                                            1


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---------------------------------------
Q 042154          226 NMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINP---------------------------------------  266 (377)
Q Consensus       226 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p---------------------------------------  266 (377)
                      ..+ +-|-.+|--.++.-...|+.+...++|++.... ++|                                       
T Consensus       316 ~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l  393 (677)
T KOG1915|consen  316 SKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACL  393 (677)
T ss_pred             HhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            111 123334444444444455555555555555443 233                                       


Q ss_pred             -----CHHHHHHHHHHH----HhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChh
Q 042154          267 -----DVFTFYALIKGF----VNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQA  336 (377)
Q Consensus       267 -----~~~~~~~l~~~~----~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  336 (377)
                           ...||..+--.|    .++.++..|.+++. ..|.-|...+|...|..-.+.++++...+++++.++-++. +..
T Consensus       394 ~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe-~c~  472 (677)
T KOG1915|consen  394 DLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPE-NCY  472 (677)
T ss_pred             hhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChH-hhH
Confidence                 222332222222    24567777777777 7788888888888888888888888888888888886544 566


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          337 PLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       337 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      +|......-...|+.+.|..+|+.+++..
T Consensus       473 ~W~kyaElE~~LgdtdRaRaifelAi~qp  501 (677)
T KOG1915|consen  473 AWSKYAELETSLGDTDRARAIFELAISQP  501 (677)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhcCc
Confidence            77777777778888888888888887654

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

Probab=99.54  E-value=5.2e-10  Score=97.31  Aligned_cols=326  Identities=12%  Similarity=0.050  Sum_probs=228.5

Q ss_pred             HHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhh----hhcCCCccchh---------
Q 042154           29 RGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQK----QYKDISKEGFT---------   95 (377)
Q Consensus        29 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~---------   95 (377)
                      -+|.+..-++.|..++.+..+.  +|.+..+|.+....--..|+.+...+++++..    ..|...+..-+         
T Consensus       414 lAlarLetYenAkkvLNkaRe~--iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~  491 (913)
T KOG0495|consen  414 LALARLETYENAKKVLNKAREI--IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACED  491 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhh--CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhh
Confidence            3455566677777777777654  46677777776666667777777777765432    22333222222         


Q ss_pred             ----------------------------HHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHH
Q 042154           96 ----------------------------ARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVD  147 (377)
Q Consensus        96 ----------------------------~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  147 (377)
                                                  ..-...|.+.+.++-|..+|....+.. +.+...|......=-..|..++..
T Consensus       492 agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvf-p~k~slWlra~~~ek~hgt~Esl~  570 (913)
T KOG0495|consen  492 AGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLWLRAAMFEKSHGTRESLE  570 (913)
T ss_pred             cCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHHHHHHHHHHhcCcHHHHH
Confidence                                        222333444444444555555444432 233444444444444445566666


Q ss_pred             HHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          148 GLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       148 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      .+|++....  ++-....|-...+.+...||+..|..++..+.+.... +...|..-+..-..+..++.|..+|.+....
T Consensus       571 Allqkav~~--~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~  647 (913)
T KOG0495|consen  571 ALLQKAVEQ--CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI  647 (913)
T ss_pred             HHHHHHHHh--CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc
Confidence            666665542  2223345555566777789999999999988877444 7778888888889999999999999988875


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHH
Q 042154          228 NVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD-VFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFK  304 (377)
Q Consensus       228 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~  304 (377)
                      +  |+...|.--+...--.++.++|.+++++.++.  -|+ ...|..+.+.+-+.++.+.|.+.|.  ...++-....|-
T Consensus       648 s--gTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWl  723 (913)
T KOG0495|consen  648 S--GTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWL  723 (913)
T ss_pred             C--CcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHH
Confidence            4  67777777666666788999999999998885  455 4578888888999999999999888  334444556788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          305 LLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       305 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      .|.+.--+.|.+..|..++++..-.++. +...|-..|+.-.+.|..+.|..++.++.+.-
T Consensus       724 lLakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQec  783 (913)
T KOG0495|consen  724 LLAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQEC  783 (913)
T ss_pred             HHHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            8888888899999999999999888766 78889999999999999999998888777654

>PRK12370 invasion protein regulator; Provisional

Probab=99.53  E-value=1.2e-11  Score=112.75  Aligned_cols=263  Identities=12%  Similarity=-0.018  Sum_probs=174.0

Q ss_pred             cchhhHHHHHHHHHh-----cCChHHHHHHHHHhhhhcCCCccchhHHHHHHHH---------ccCCHHHHHHHHHhcCC
Q 042154           55 TNTGIYTGTVQRLAN-----AKRFRWIEEILEHQKQYKDISKEGFTARLIALYG---------KAAMFENARKVFDEMPG  120 (377)
Q Consensus        55 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~A~~~~~~~~~  120 (377)
                      .+...|...+++...     .+.+++|.+.+++..+..+.. ...+..+..++.         ..+++++|...+++..+
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~~-a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPNS-IAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCcc-HHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            344445555544322     234678888888887764433 233333444433         23457899999999888


Q ss_pred             CCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 042154          121 RNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLI  199 (377)
Q Consensus       121 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  199 (377)
                      .+ |.+..++..+...+...|++++|...|++..+.   .|+ ...+..+...+...|++++|...++++.+.... +..
T Consensus       333 ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l---~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~  407 (553)
T PRK12370        333 LD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLL---SPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAA  407 (553)
T ss_pred             cC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-Chh
Confidence            76 446778888888888999999999999988754   444 557788888899999999999999999887543 233


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHH
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDV-FTFYALIKGF  278 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~  278 (377)
                      .+..++..+...|++++|...+++......+-+...+..+..++...|+.++|...+.++...  .|+. ...+.+...|
T Consensus       408 ~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~  485 (553)
T PRK12370        408 AGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEY  485 (553)
T ss_pred             hHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHH
Confidence            333444456668899999999998876542224455677788888999999999999887664  3443 3445555566


Q ss_pred             HhcCCHHHHHHHHH----hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          279 VNEGNLEEAKRWYN----KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       279 ~~~~~~~~a~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      ...|  ++|...++    .....+....+..  ..+.-.|+.+.+... +++.+.+
T Consensus       486 ~~~g--~~a~~~l~~ll~~~~~~~~~~~~~~--~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        486 CQNS--ERALPTIREFLESEQRIDNNPGLLP--LVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hccH--HHHHHHHHHHHHHhhHhhcCchHHH--HHHHHHhhhHHHHHH-HHhhccc
Confidence            6666  46666555    2222333233333  345556666666555 7776653

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.52  E-value=1.1e-11  Score=100.76  Aligned_cols=199  Identities=13%  Similarity=0.037  Sum_probs=100.2

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHH
Q 042154           58 GIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGAC  137 (377)
Q Consensus        58 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  137 (377)
                      ..+..+...+...|++++|.+.+++..+..+ .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHDP-DDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            3445555555555555555555555544321 122233345555555555555555555555433 22344445555555


Q ss_pred             HhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHH
Q 042154          138 VNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADA  217 (377)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  217 (377)
                      ...|++++|...+++.............+..+...+...|++++|...+.+..+... .+...+..+...+...|++++|
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHHHcCCHHHH
Confidence            555555565555555543211111223444455555555666666666655554422 1344455555555556666666


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 042154          218 EKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMR  260 (377)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  260 (377)
                      ...+++..+.. +.+...+..+...+...|+.++|..+.+.+.
T Consensus       189 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       189 RAYLERYQQTY-NQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            66665555441 2334444445555555556666555555544

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=99.52  E-value=1.9e-11  Score=111.47  Aligned_cols=253  Identities=10%  Similarity=0.043  Sum_probs=181.6

Q ss_pred             CCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH---------hCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHH
Q 042154          106 AMFENARKVFDEMPGRNCEQTVLSFNALLGACV---------NSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVD  175 (377)
Q Consensus       106 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~  175 (377)
                      +++++|...|++..+.. |-+...|..+..++.         ..+++++|...+++..+.   .| +..++..+...+..
T Consensus       275 ~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l---dP~~~~a~~~lg~~~~~  350 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL---DHNNPQALGLLGLINTI  350 (553)
T ss_pred             HHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHH
Confidence            45789999999998875 334556666655544         234578999999988753   44 56678888888999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          176 KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALEL  255 (377)
Q Consensus       176 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  255 (377)
                      .|++++|...++++.+.+.. +...+..+..++...|++++|...+++..+.+.. +...+..++..+...|++++|...
T Consensus       351 ~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        351 HSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             ccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHH
Confidence            99999999999999988533 5677888999999999999999999999987622 223333445556678999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcC-CC
Q 042154          256 VGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNK-AIFKLLVPFVCEKGDLDFAFNLCKRTFSER-CL  332 (377)
Q Consensus       256 ~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~  332 (377)
                      ++++.....+-+...+..+..++...|+.++|...++ .....|+. ...+.+...|...|  ++|...++.+.+.. ..
T Consensus       429 ~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~  506 (553)
T PRK12370        429 GDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRI  506 (553)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHh
Confidence            9998865322245557778888899999999999999 33334443 34555666777777  47888777776642 12


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCceee
Q 042154          333 VDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRY  369 (377)
Q Consensus       333 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  369 (377)
                      +....+  +-..+.-.|+.+.+..+ +++.+.+...+
T Consensus       507 ~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~~~~~  540 (553)
T PRK12370        507 DNNPGL--LPLVLVAHGEAIAEKMW-NKFKNEDNIWF  540 (553)
T ss_pred             hcCchH--HHHHHHHHhhhHHHHHH-HHhhccchHhh
Confidence            222222  44445567777777766 88887765444

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

Probab=99.51  E-value=4.6e-12  Score=100.88  Aligned_cols=231  Identities=13%  Similarity=0.059  Sum_probs=194.2

Q ss_pred             hhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHH
Q 042154           94 FTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAF  173 (377)
Q Consensus        94 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  173 (377)
                      +-+.+.++|.+.|-+.+|++-|+.-.+..  |-+.+|..|-..|.+..+++.|+.++.+-.+.  .+-|+....-+.+.+
T Consensus       225 Wk~Q~gkCylrLgm~r~AekqlqssL~q~--~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~  300 (478)
T KOG1129|consen  225 WKQQMGKCYLRLGMPRRAEKQLQSSLTQF--PHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIH  300 (478)
T ss_pred             HHHHHHHHHHHhcChhhhHHHHHHHhhcC--CchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHH
Confidence            34789999999999999999999987764  78889999999999999999999999988753  333444455577888


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 042154          174 VDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKAL  253 (377)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  253 (377)
                      -..++.++|.++++...+.. +.++.....+...|.-.++++.|++.|+++.+.|+ -+...|+.+.-+|.-.+++|-++
T Consensus       301 eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  301 EAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhH
Confidence            89999999999999998874 33666777777888888999999999999999996 57789999999999999999999


Q ss_pred             HHHHHHHhCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          254 ELVGEMRSKEINPDV--FTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       254 ~~~~~~~~~g~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      ..|.+....--.|+.  ..|..+.......|++..|.+.|+ .... .-+...++.|.-.-.+.|++++|..+++.+...
T Consensus       379 ~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  379 PSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            999998876444553  568888888889999999999999 3333 345678999988889999999999999998775


Q ss_pred             C
Q 042154          330 R  330 (377)
Q Consensus       330 ~  330 (377)
                      .
T Consensus       459 ~  459 (478)
T KOG1129|consen  459 M  459 (478)
T ss_pred             C
Confidence            4

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

Probab=99.48  E-value=1.7e-10  Score=102.00  Aligned_cols=289  Identities=16%  Similarity=0.132  Sum_probs=161.9

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH-h---
Q 042154           64 VQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACV-N---  139 (377)
Q Consensus        64 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-~---  139 (377)
                      ...+...|++++|++.++.-... ......+.......+.+.|+.++|..+|..+++.+  |+...|...+..+. -   
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcc
Confidence            34455667777777766553332 33444555566667777777777777777777665  44444433333332 1   


Q ss_pred             --CCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHH
Q 042154          140 --SKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSL-DSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFAD  216 (377)
Q Consensus       140 --~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  216 (377)
                        ..+.+....+|+++...   -|.......+.-.+..-..+ ..+...+..+...|++   .+|+.+-..|....+..-
T Consensus        88 ~~~~~~~~~~~~y~~l~~~---yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~  161 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEK---YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAI  161 (517)
T ss_pred             cccccHHHHHHHHHHHHHh---CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHH
Confidence              12355666666666443   23333222222111111122 2344455555566654   235555555554444444


Q ss_pred             HHHHHHHHHhC----C----------CCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHH
Q 042154          217 AEKIWETMVNM----N----------VRPNVR--SYNARLDGLAIEKQTKKALELVGEMRSKEINPD-VFTFYALIKGFV  279 (377)
Q Consensus       217 a~~~~~~~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~  279 (377)
                      ..+++......    +          -+|+..  ++..+...|...|++++|++++++.++.  .|+ +..|..-...+-
T Consensus       162 i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilK  239 (517)
T PF12569_consen  162 IESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILK  239 (517)
T ss_pred             HHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHH
Confidence            44454444321    0          123332  3344556677778888888888877775  454 456777777777


Q ss_pred             hcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhH--------HHHHHHHHhcC
Q 042154          280 NEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPL--------QLVVDRLAKEL  349 (377)
Q Consensus       280 ~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~--------~~l~~~~~~~g  349 (377)
                      +.|++.+|.+.++ .....+ |...-+-.+..+.+.|++++|.+++....+.+..|....+        .....+|.+.|
T Consensus       240 h~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~  319 (517)
T PF12569_consen  240 HAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQG  319 (517)
T ss_pred             HCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHh
Confidence            7888888888877 333333 4445555666777788888888887777666543322221        33456777788


Q ss_pred             CHHHHHHHHHhhcc
Q 042154          350 RVEEAKELVELGKT  363 (377)
Q Consensus       350 ~~~~A~~~~~~~~~  363 (377)
                      ++..|++-+..+.+
T Consensus       320 ~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  320 DYGLALKRFHAVLK  333 (517)
T ss_pred             hHHHHHHHHHHHHH
Confidence            88777776665544

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

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

Probab=99.44  E-value=2.1e-11  Score=109.09  Aligned_cols=247  Identities=12%  Similarity=0.065  Sum_probs=151.7

Q ss_pred             CCCCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccch
Q 042154           15 TATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGF   94 (377)
Q Consensus        15 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   94 (377)
                      +++.|+-.+|..+|.-||..|+.+.|- +|.-|.-.. .+.+...++.++......++.+.+.           .|...+
T Consensus        19 ~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ks-Lpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDt   85 (1088)
T KOG4318|consen   19 SGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKS-LPVREGVFRGLVASHKEANDAENPK-----------EPLADT   85 (1088)
T ss_pred             hcCCCchhhHHHHHHHHcccCCCcccc-chhhhhccc-ccccchhHHHHHhcccccccccCCC-----------CCchhH
Confidence            455666777777777777777777776 676665444 5556666777777766666665554           455566


Q ss_pred             hHHHHHHHHccCCHHH---HHHHHHh----cCCCCCCccHHHH--------------HHHHHHHHhCCChhHHHHHHHhc
Q 042154           95 TARLIALYGKAAMFEN---ARKVFDE----MPGRNCEQTVLSF--------------NALLGACVNSKKFDEVDGLFKDL  153 (377)
Q Consensus        95 ~~~l~~~~~~~~~~~~---A~~~~~~----~~~~~~~~~~~~~--------------~~l~~~~~~~~~~~~a~~~~~~~  153 (377)
                      |..|...|...||+..   +++.+..    ....|+.....-+              ...+....-.|-|+.+++++..+
T Consensus        86 yt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~  165 (1088)
T KOG4318|consen   86 YTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKV  165 (1088)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            6677777777776543   2221111    1222211111101              11222233344455555555444


Q ss_pred             hhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH
Q 042154          154 PHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNV  233 (377)
Q Consensus       154 ~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  233 (377)
                      .......|..    .+++-+...  .....++........-.|++.+|..++.+-.-+|+.+.|..++.+|.+.|.+.+.
T Consensus       166 Pvsa~~~p~~----vfLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~  239 (1088)
T KOG4318|consen  166 PVSAWNAPFQ----VFLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRA  239 (1088)
T ss_pred             CcccccchHH----HHHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCccc
Confidence            3211111111    123322222  2223333333332212589999999999999999999999999999999988888


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 042154          234 RSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGN  283 (377)
Q Consensus       234 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~  283 (377)
                      +-|-.++-+   .++...++.+++-|...|+.|+..|+...+..+..+|.
T Consensus       240 HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  240 HYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             ccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            777777665   78888899999999999999999999887777777555

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

Probab=99.43  E-value=4e-10  Score=96.36  Aligned_cols=281  Identities=9%  Similarity=0.023  Sum_probs=172.9

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLI   99 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   99 (377)
                      +++....-.+-+...+++.+..++++...+..  |+....+..-|..+...|+..+...+=.++.+.-+.....++ ++.
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d--pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~-aVg  319 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD--PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWF-AVG  319 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC--CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchh-hHH
Confidence            44455555566666777777777777777665  455555555566667777766666666666655444444555 466


Q ss_pred             HHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCH
Q 042154          100 ALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSL  179 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  179 (377)
                      -.|.-.|...+|.+.|.+....+ +.=...|-.....|.-.+..|+|+..|...-+-  ++-....+--+.--|.+.++.
T Consensus       320 ~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl--~~G~hlP~LYlgmey~~t~n~  396 (611)
T KOG1173|consen  320 CYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL--MPGCHLPSLYLGMEYMRTNNL  396 (611)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh--ccCCcchHHHHHHHHHHhccH
Confidence            66666677777777777765443 112446666677777777777777777655321  111111222333456667777


Q ss_pred             HHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC----C--CCCCHHHHHHHHHHHHhcCCHHHHH
Q 042154          180 DSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM----N--VRPNVRSYNARLDGLAIEKQTKKAL  253 (377)
Q Consensus       180 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~--~~~~~~~~~~l~~~~~~~~~~~~a~  253 (377)
                      +.|.+.|.++.... +.|+...+-+.-.....+.+.+|..+|+..+..    +  ..--..+++.|..+|.+.+.+++|+
T Consensus       397 kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  397 KLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            77777777776652 335666666666666667777777777765521    0  0012334666677777777777777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHH
Q 042154          254 ELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVP  308 (377)
Q Consensus       254 ~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~  308 (377)
                      ..+++.+.. .+-+..++.++.-.|...|+++.|.+.|. ...+.|+..+-..++.
T Consensus       476 ~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  476 DYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLK  530 (611)
T ss_pred             HHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            777777665 23466677777777777777777777777 6666776655555554

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

Probab=99.43  E-value=3.8e-09  Score=88.71  Aligned_cols=98  Identities=9%  Similarity=0.079  Sum_probs=63.6

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhh-c-CCCccchh
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQY-K-DISKEGFT   95 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~   95 (377)
                      .|+...|++.|+.=.+...++.|..+|+...-   +.|+..+|-.-.+.--+.|+...+..+++.+... + ......++
T Consensus       171 ~P~eqaW~sfI~fElRykeieraR~IYerfV~---~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lf  247 (677)
T KOG1915|consen  171 EPDEQAWLSFIKFELRYKEIERARSIYERFVL---VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILF  247 (677)
T ss_pred             CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe---ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            47788888888888888888888888887763   4678878877777777788888888887776653 1 11222333


Q ss_pred             HHHHHHHHccCCHHHHHHHHHhc
Q 042154           96 ARLIALYGKAAMFENARKVFDEM  118 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~A~~~~~~~  118 (377)
                      .+....=.++..++.|.-+|.-.
T Consensus       248 vaFA~fEe~qkE~ERar~iykyA  270 (677)
T KOG1915|consen  248 VAFAEFEERQKEYERARFIYKYA  270 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333444555555555443

>PF13041 PPR_2: PPR repeat family

Probab=99.42  E-value=7.1e-13  Score=78.35  Aligned_cols=49  Identities=35%  Similarity=0.672  Sum_probs=26.6

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042154          231 PNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFV  279 (377)
Q Consensus       231 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~  279 (377)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555555555555555555555555555555555555555555555544

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

Probab=99.42  E-value=4.8e-10  Score=95.89  Aligned_cols=265  Identities=9%  Similarity=-0.044  Sum_probs=204.6

Q ss_pred             hHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHH
Q 042154           95 TARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFV  174 (377)
Q Consensus        95 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  174 (377)
                      ......-+...+++.+..++++.+.+.. |+....+..-|.++...|+..+-..+=.++.+.  .+-.+.+|-++.-.|.
T Consensus       247 l~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~--yP~~a~sW~aVg~YYl  323 (611)
T KOG1173|consen  247 LAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL--YPSKALSWFAVGCYYL  323 (611)
T ss_pred             HHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCCcchhhHHHHHH
Confidence            3345566777889999999999988865 677777877888999999988888777777653  3445668999999999


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 042154          175 DKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALE  254 (377)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  254 (377)
                      ..|+..+|.+.|.+....+.. =...|-.+...|.-.|.-++|...+...-+.= +-....+--+..-|.+.++.+.|.+
T Consensus       324 ~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~  401 (611)
T KOG1173|consen  324 MIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEK  401 (611)
T ss_pred             HhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHH
Confidence            999999999999988765332 34467888889999999999998887766531 1111222334455778899999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hc----CC----CCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 042154          255 LVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KS----GC----GMNKAIFKLLVPFVCEKGDLDFAFNLCKR  325 (377)
Q Consensus       255 ~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~----~~----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  325 (377)
                      .|.+.... .+.|+..++.+.-.....+.+.+|..+|+ ..    .+    ..-..+++.|..+|.+.+.+++|+..+++
T Consensus       402 Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~  480 (611)
T KOG1173|consen  402 FFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQK  480 (611)
T ss_pred             HHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHH
Confidence            99998875 24467788888777778899999999998 11    11    12445788889999999999999999999


Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          326 TFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       326 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      .+....+ +..++.++.-.|...|+++.|.+.|.++.-..+
T Consensus       481 aL~l~~k-~~~~~asig~iy~llgnld~Aid~fhKaL~l~p  520 (611)
T KOG1173|consen  481 ALLLSPK-DASTHASIGYIYHLLGNLDKAIDHFHKALALKP  520 (611)
T ss_pred             HHHcCCC-chhHHHHHHHHHHHhcChHHHHHHHHHHHhcCC
Confidence            9987555 888999999999999999999999988765443

>PF13041 PPR_2: PPR repeat family

Probab=99.41  E-value=8.5e-13  Score=78.01  Aligned_cols=49  Identities=33%  Similarity=0.730  Sum_probs=29.1

Q ss_pred             CCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042154          196 LDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLA  244 (377)
Q Consensus       196 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  244 (377)
                      ||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555566666666666666666666666665566666666666655554

>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=99.38  E-value=5.7e-09  Score=92.57  Aligned_cols=294  Identities=14%  Similarity=0.170  Sum_probs=204.9

Q ss_pred             HHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHH
Q 042154           24 IGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYG  103 (377)
Q Consensus        24 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  103 (377)
                      .......+...|++++|++.++.-...  +......+......+.+.|+.++|..++..+...++ .+..+|..+..+..
T Consensus         7 lLY~~~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNP-dn~~Yy~~L~~~~g   83 (517)
T PF12569_consen    7 LLYKNSILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNP-DNYDYYRGLEEALG   83 (517)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHh
Confidence            334456678899999999999876443  455667778889999999999999999999999864 45556656666662


Q ss_pred             cc-----CCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChh-HHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154          104 KA-----AMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFD-EVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus       104 ~~-----~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      -.     .+.+....+|+++...-  |...+...+.-.+.....+. .+...+..+..+ |+++   +|+.+-..|....
T Consensus        84 ~~~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~K-gvPs---lF~~lk~Ly~d~~  157 (517)
T PF12569_consen   84 LQLQLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRK-GVPS---LFSNLKPLYKDPE  157 (517)
T ss_pred             hhcccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhc-CCch---HHHHHHHHHcChh
Confidence            22     35778888999887654  44444433333333322333 344444555555 6543   4555555565555


Q ss_pred             CHHHHHHHHHHHHHC----C----------CCCCH--HhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHH
Q 042154          178 SLDSANTLLYEMEKK----G----------IRLDL--ITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPN-VRSYNARL  240 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~----~----------~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~  240 (377)
                      +.+-..+++......    +          -+|+.  .++.-+...|...|++++|+++.++.++..  |+ +..|..-.
T Consensus       158 K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~Ka  235 (517)
T PF12569_consen  158 KAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT--PTLVELYMTKA  235 (517)
T ss_pred             HHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHHH
Confidence            555556666555422    1          12333  345667888889999999999999999875  54 67788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---hcCCCC--CHH----HH--HHHHHH
Q 042154          241 DGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGM--NKA----IF--KLLVPF  309 (377)
Q Consensus       241 ~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~--~~~----~~--~~l~~~  309 (377)
                      ..+-+.|++.+|.+.++..+.... -|...-+..+..+.+.|+.++|.+++.   ..+..|  |..    .|  .....+
T Consensus       236 rilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a  314 (517)
T PF12569_consen  236 RILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEA  314 (517)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHH
Confidence            999999999999999999988743 366777778888899999999999998   333233  221    22  334668


Q ss_pred             HHhcCChHHHHHHHHHHHhc
Q 042154          310 VCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       310 ~~~~g~~~~a~~~~~~~~~~  329 (377)
                      |.+.|++..|++.|....+.
T Consensus       315 ~~r~~~~~~ALk~~~~v~k~  334 (517)
T PF12569_consen  315 YLRQGDYGLALKRFHAVLKH  334 (517)
T ss_pred             HHHHhhHHHHHHHHHHHHHH
Confidence            99999999998877766554

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 [], [].

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

Probab=99.38  E-value=3.3e-09  Score=87.57  Aligned_cols=288  Identities=10%  Similarity=-0.005  Sum_probs=197.1

Q ss_pred             CChHHHHHHHHHhhhh-cCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCcc-HHHHHHHHHHHHhCCChhHHHH
Q 042154           71 KRFRWIEEILEHQKQY-KDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQT-VLSFNALLGACVNSKKFDEVDG  148 (377)
Q Consensus        71 ~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~  148 (377)
                      ++-..+...+-.+... ..+.+..+...+..++...|+..+|+..|+.....+  |+ ........-.+.+.|+.+....
T Consensus       210 ~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d--py~i~~MD~Ya~LL~~eg~~e~~~~  287 (564)
T KOG1174|consen  210 FKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN--PDNVEAMDLYAVLLGQEGGCEQDSA  287 (564)
T ss_pred             cccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC--hhhhhhHHHHHHHHHhccCHhhHHH
Confidence            3333444443333322 355667777788888888888888888888876654  32 2223333334556777777777


Q ss_pred             HHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 042154          149 LFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       149 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  228 (377)
                      +...+...  ..-....|-.-+.......+++.|+.+-++..+.... +...+-.-...+...|+.++|.--|+..+...
T Consensus       288 L~~~Lf~~--~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La  364 (564)
T KOG1174|consen  288 LMDYLFAK--VKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLA  364 (564)
T ss_pred             HHHHHHhh--hhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcc
Confidence            77666542  1233444555555666777888888888888766432 45556555667788889999988888877654


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHH-hcCCHHHHHHHHH-hcCCCCCH-HHHH
Q 042154          229 VRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALI-KGFV-NEGNLEEAKRWYN-KSGCGMNK-AIFK  304 (377)
Q Consensus       229 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~-~~~~-~~~~~~~a~~~~~-~~~~~~~~-~~~~  304 (377)
                       +-+...|.-++.+|...|.+.+|.-.-+...+. ++.+..+...+. ..|. ....-++|.++++ .....|+. ...+
T Consensus       365 -p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~  442 (564)
T KOG1174|consen  365 -PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVN  442 (564)
T ss_pred             -hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHH
Confidence             346788999999999999998887766665543 233455555442 2332 2334578888888 66666755 4567


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          305 LLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       305 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      .+...+...|..+.++.++++.+.  ..||....+.|.+.+...+.+++|.+.|..+.+.++.
T Consensus       443 ~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  443 LIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            777888889999999999988877  5678888889999999999999999999888877654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.37  E-value=1.6e-09  Score=95.01  Aligned_cols=241  Identities=17%  Similarity=0.132  Sum_probs=176.1

Q ss_pred             CCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhh----cC-CCcCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHC---
Q 042154          122 NCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK----LG-IEPDLV-SYNTIIKAFVDKGSLDSANTLLYEMEKK---  192 (377)
Q Consensus       122 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  192 (377)
                      +.|.-..+...+...|...|+++.|+.+++...+.    .| ..|... ..+.+...|...+++++|..+|+++...   
T Consensus       194 ~~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~  273 (508)
T KOG1840|consen  194 EDPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREE  273 (508)
T ss_pred             CCchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence            33334556666899999999999999999887653    12 134443 3444778899999999999999998742   


Q ss_pred             --CC--CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC-----CC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          193 --GI--RLDLITFNTLLLGFYSNGRFADAEKIWETMVNM-----NV-RPNV-RSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       193 --~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                        |.  +.-..+++.|..+|.+.|++++|...++...+-     +. .|.. ..++.+...|+..+++++|..+++...+
T Consensus       274 ~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~  353 (508)
T KOG1840|consen  274 VFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALK  353 (508)
T ss_pred             hcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence              21  222457788888999999999998888766531     21 1222 3466677888999999999999987654


Q ss_pred             C---CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHH-------hcCC--CCC-HHHHHHHHHHHHhcCChHHHHHHHH
Q 042154          262 K---EINP----DVFTFYALIKGFVNEGNLEEAKRWYN-------KSGC--GMN-KAIFKLLVPFVCEKGDLDFAFNLCK  324 (377)
Q Consensus       262 ~---g~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~--~~~-~~~~~~l~~~~~~~g~~~~a~~~~~  324 (377)
                      .   -+.+    -..+++.|...|...|++++|.++++       ..+.  .+. ...++.+...|.+.+++.+|.++|.
T Consensus       354 i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~  433 (508)
T KOG1840|consen  354 IYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFE  433 (508)
T ss_pred             HHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHH
Confidence            3   1112    24688999999999999999999999       1122  222 3467788889999999999999987


Q ss_pred             HHHhc----CC-CCC-hhhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          325 RTFSE----RC-LVD-QAPLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       325 ~~~~~----~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      +...-    |+ .|+ ..+|..|...|...|+++.|.++.+...
T Consensus       434 ~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  434 EAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            76532    32 222 2478899999999999999999988776

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

Probab=99.36  E-value=1.4e-08  Score=88.54  Aligned_cols=94  Identities=16%  Similarity=0.151  Sum_probs=67.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHH-hcCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 042154          272 YALIKGFVNEGNLEEAKRWYN-KSGCGMNKA-IFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKEL  349 (377)
Q Consensus       272 ~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  349 (377)
                      ..+...+-+.|+++.|..+++ ..+..|+.. .|..=.+.+...|++++|...+++..+.+. +|..+-..-.....++.
T Consensus       375 y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~INsKcAKYmLrAn  453 (700)
T KOG1156|consen  375 YFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAINSKCAKYMLRAN  453 (700)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHHHHHHHHHHHcc
Confidence            455666777888888888888 666667654 455556777888888888888888777643 35554445666677788


Q ss_pred             CHHHHHHHHHhhccCCc
Q 042154          350 RVEEAKELVELGKTNSY  366 (377)
Q Consensus       350 ~~~~A~~~~~~~~~~~~  366 (377)
                      +.++|.++.....+.|.
T Consensus       454 ~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  454 EIEEAEEVLSKFTREGF  470 (700)
T ss_pred             ccHHHHHHHHHhhhccc
Confidence            88888888887777765

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

Probab=99.36  E-value=3.6e-09  Score=87.35  Aligned_cols=308  Identities=12%  Similarity=0.067  Sum_probs=223.1

Q ss_pred             CCCCCchHHHHHHHHhhh--cccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccc
Q 042154           16 ATATGPKFIGSVIRGIYK--ENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEG   93 (377)
Q Consensus        16 ~~~~~~~~~~~li~~~~~--~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   93 (377)
                      ..+|+..+...-+.++++  .++-..|...+-.+.....++.|......+.+.+...|+.++|+..|++....++..-. 
T Consensus       189 ~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~-  267 (564)
T KOG1174|consen  189 TVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVE-  267 (564)
T ss_pred             ecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhh-
Confidence            334555555555554443  45555555555544444447888999999999999999999999999988765432221 


Q ss_pred             hhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHH
Q 042154           94 FTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKA  172 (377)
Q Consensus        94 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~  172 (377)
                      -.......+.+.|+.+....+...+.... .-+...|-.-.......++++.|+.+-++.++.   .| +...|-.-...
T Consensus       268 ~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~---~~r~~~alilKG~l  343 (564)
T KOG1174|consen  268 AMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDS---EPRNHEALILKGRL  343 (564)
T ss_pred             hHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhcc---CcccchHHHhccHH
Confidence            12234455677889888888877776532 234455555566677888999999999887642   33 33455555678


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHh-cCCHH
Q 042154          173 FVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARL-DGLAI-EKQTK  250 (377)
Q Consensus       173 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~-~~~~~  250 (377)
                      +...+++++|.-.|+...... +-+..+|.-|+..|...|++.+|.-+-+...+. .+.+..+.+.+. ..+.- ..--+
T Consensus       344 L~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rE  421 (564)
T KOG1174|consen  344 LIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMRE  421 (564)
T ss_pred             HHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHH
Confidence            889999999999999998763 347889999999999999999998777655432 123445555442 22222 23357


Q ss_pred             HHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          251 KALELVGEMRSKEINPD-VFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       251 ~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      +|..+++.-+..  .|+ ....+.+...|...|..+.++.+++ .....||....+.|.+.+...+.+++|+..|..++.
T Consensus       422 KAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  422 KAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             HHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            899999888774  666 3567788888999999999999999 666789999999999999999999999999999988


Q ss_pred             cCCC
Q 042154          329 ERCL  332 (377)
Q Consensus       329 ~~~~  332 (377)
                      .++.
T Consensus       500 ~dP~  503 (564)
T KOG1174|consen  500 QDPK  503 (564)
T ss_pred             cCcc
Confidence            6544

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.35  E-value=7.6e-10  Score=92.73  Aligned_cols=228  Identities=12%  Similarity=0.047  Sum_probs=154.6

Q ss_pred             HHccCCHHHHHHHHHhcCCCC-CCcc--HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154          102 YGKAAMFENARKVFDEMPGRN-CEQT--VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      ....+..+.++.-+.++.... ..|+  ...|..+...|...|++++|...|++..+.  .+.+...|+.+...+...|+
T Consensus        36 ~~~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~~~~~g~  113 (296)
T PRK11189         36 LQPTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALAL--RPDMADAYNYLGIYLTQAGN  113 (296)
T ss_pred             cCCchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCC
Confidence            334567788888888877542 1122  455777888899999999999999988753  23346789999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGE  258 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (377)
                      +++|...|+...+.... +..++..+..++...|++++|.+.|+...+..  |+..........+...++.++|...+.+
T Consensus       114 ~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~  190 (296)
T PRK11189        114 FDAAYEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQ  190 (296)
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            99999999999886433 56778888888899999999999999998765  4432222222234456789999999977


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHH--HHHHH-hcC----CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          259 MRSKEINPDVFTFYALIKGFVNEGNLEEA--KRWYN-KSG----CGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       259 ~~~~g~~p~~~~~~~l~~~~~~~~~~~~a--~~~~~-~~~----~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      .... ..|+...+ .+..  ...|+...+  .+.+. ...    ..| ....|..+...+.+.|++++|+..|++..+.+
T Consensus       191 ~~~~-~~~~~~~~-~~~~--~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        191 RYEK-LDKEQWGW-NIVE--FYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             HHhh-CCccccHH-HHHH--HHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            5543 23332222 2332  234444333  32222 111    112 23578888999999999999999999998865


Q ss_pred             CCCChhhHH
Q 042154          331 CLVDQAPLQ  339 (377)
Q Consensus       331 ~~~~~~~~~  339 (377)
                      +. |..-+.
T Consensus       267 ~~-~~~e~~  274 (296)
T PRK11189        267 VY-NFVEHR  274 (296)
T ss_pred             Cc-hHHHHH
Confidence            33 444333

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

Probab=99.33  E-value=6.1e-09  Score=87.80  Aligned_cols=84  Identities=14%  Similarity=0.061  Sum_probs=65.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhhcCCCc-cchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCcc-HHHHHHHHHHH
Q 042154           60 YTGTVQRLANAKRFRWIEEILEHQKQYKDISK-EGFTARLIALYGKAAMFENARKVFDEMPGRNCEQT-VLSFNALLGAC  137 (377)
Q Consensus        60 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~  137 (377)
                      +-....-|-+.|++++|++.|.+.....  |+ +.+|.....+|...|+|+++.+--.+.++.+  |+ +-++..-.+++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l~--p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~--P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIELC--PDEPIFYSNRAACYESLGDWEKVIEDCTKALELN--PDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhcC--CCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC--cHHHHHHHHHHHHH
Confidence            3445567788999999999999998864  34 6788889999999999999998888888765  44 44566666677


Q ss_pred             HhCCChhHHH
Q 042154          138 VNSKKFDEVD  147 (377)
Q Consensus       138 ~~~~~~~~a~  147 (377)
                      -..|++++|+
T Consensus       194 E~lg~~~eal  203 (606)
T KOG0547|consen  194 EQLGKFDEAL  203 (606)
T ss_pred             HhhccHHHHH
Confidence            7777766654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.33  E-value=2e-09  Score=94.30  Aligned_cols=195  Identities=15%  Similarity=0.169  Sum_probs=94.6

Q ss_pred             HHHHHHhCCChhHHHHHHHhchhh----cC-CCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCC-CCCH-H
Q 042154          133 LLGACVNSKKFDEVDGLFKDLPHK----LG-IEPD-LVSYNTIIKAFVDKGSLDSANTLLYEMEK-----KGI-RLDL-I  199 (377)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~-~~~~-~  199 (377)
                      +...|...+++++|..+|+++...    .| ..|. ..+++.|..+|.+.|++++|...++.+.+     .|. .|.. .
T Consensus       247 ~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~  326 (508)
T KOG1840|consen  247 LALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAA  326 (508)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHH
Confidence            444455555555555555544321    11 1122 12444555555555555555555444331     011 1111 2


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhC---CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC--CC
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNM---NVRPN----VRSYNARLDGLAIEKQTKKALELVGEMRSK----EI--NP  266 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g~--~p  266 (377)
                      .++.+...+...+++++|..+++...+.   -..++    ..+++.+...|...|++++|.+++++.+..    +.  .+
T Consensus       327 ~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~  406 (508)
T KOG1840|consen  327 QLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDY  406 (508)
T ss_pred             HHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcCh
Confidence            2344445555555666666555543321   01111    245566666666666666666666655432    11  11


Q ss_pred             C-HHHHHHHHHHHHhcCCHHHHHHHHH-------hcC-CCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042154          267 D-VFTFYALIKGFVNEGNLEEAKRWYN-------KSG-CGMNK-AIFKLLVPFVCEKGDLDFAFNLCKRTF  327 (377)
Q Consensus       267 ~-~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~-~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~  327 (377)
                      . ...++.+...|.+.+...+|.++|.       ..| ..|+. .+|..|...|...|+++.|.++.+...
T Consensus       407 ~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  407 GVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            1 2345556666666666666666555       111 12222 356667777777777777776666554

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.32  E-value=7.3e-09  Score=86.85  Aligned_cols=212  Identities=14%  Similarity=0.072  Sum_probs=128.2

Q ss_pred             cCChHHHHHHHHHhhhhcCC---CccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHH
Q 042154           70 AKRFRWIEEILEHQKQYKDI---SKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEV  146 (377)
Q Consensus        70 ~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  146 (377)
                      .++.+.++.-+.++......   .....+..+...|...|+.++|...|++..+.. |.+...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            45666777777666653221   112334456777778888888888888877765 44577788888888888888888


Q ss_pred             HHHHHhchhhcCCCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 042154          147 DGLFKDLPHKLGIEPD-LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMV  225 (377)
Q Consensus       147 ~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  225 (377)
                      ...|++..+.   .|+ ..+|..+..++...|++++|.+.++...+...  +..........+...++.++|...|.+..
T Consensus       118 ~~~~~~Al~l---~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P--~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        118 YEAFDSVLEL---DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDP--NDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            8888877642   443 45667777777788888888888888776532  22212222223345567888888886654


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CC--CC-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          226 NMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK---EI--NP-DVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       226 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---g~--~p-~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ... .|+...+ .  ......|+...+ ..+..+.+.   ..  .| ....|..+...+.+.|++++|...|+
T Consensus       193 ~~~-~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~  260 (296)
T PRK11189        193 EKL-DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFK  260 (296)
T ss_pred             hhC-CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            332 2222221 1  222234554443 234444321   11  11 23467777778888888888888888

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

Probab=99.28  E-value=6e-08  Score=84.25  Aligned_cols=196  Identities=12%  Similarity=-0.007  Sum_probs=93.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCCH--HHHHHHHHHH
Q 042154          167 NTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNV-RPNV--RSYNARLDGL  243 (377)
Q Consensus       167 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~  243 (377)
                      ..+...+...|++++|...+++..+... .+...+..+..++...|++++|...+++...... .|+.  ..|..+...+
T Consensus       118 ~~~a~~~~~~G~~~~A~~~~~~al~~~p-~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~  196 (355)
T cd05804         118 GMLAFGLEEAGQYDRAEEAARRALELNP-DDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFY  196 (355)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHH
Confidence            3444555666666666666666665532 2344555566666666666666666666554321 1121  2233455566


Q ss_pred             HhcCCHHHHHHHHHHHHhCCC-CCCHHHH-H--HHHHHHHhcCCHHHHHHH---HH-hcCC---CCCHHHHHHHHHHHHh
Q 042154          244 AIEKQTKKALELVGEMRSKEI-NPDVFTF-Y--ALIKGFVNEGNLEEAKRW---YN-KSGC---GMNKAIFKLLVPFVCE  312 (377)
Q Consensus       244 ~~~~~~~~a~~~~~~~~~~g~-~p~~~~~-~--~l~~~~~~~~~~~~a~~~---~~-~~~~---~~~~~~~~~l~~~~~~  312 (377)
                      ...|++++|..++++...... .+..... +  .++.-+...|....+.++   .. ....   ............++..
T Consensus       197 ~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  276 (355)
T cd05804         197 LERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAG  276 (355)
T ss_pred             HHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhc
Confidence            666666666666666543211 1111111 1  222222333322222222   11 0000   1111111234556667


Q ss_pred             cCChHHHHHHHHHHHhcCCCC--------ChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          313 KGDLDFAFNLCKRTFSERCLV--------DQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       313 ~g~~~~a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      .|+.+.|..+++.+......+        .....-....++...|++++|.+.+..+..
T Consensus       277 ~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         277 AGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRD  335 (355)
T ss_pred             CCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            777777777777665532110        111112223345567777777777766554

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.

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

Probab=99.25  E-value=1.5e-07  Score=83.85  Aligned_cols=349  Identities=11%  Similarity=0.045  Sum_probs=220.4

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCC-ccchhHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDIS-KEGFTAR   97 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~   97 (377)
                      -++..|..|.-++...|+++.+.+.|++....  .-...+.|..+...+...|.-..|..+++........| +...+-.
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~--~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lm  398 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPF--SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLM  398 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh--hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHH
Confidence            46778888888888899999999988887543  23455678888888888888888888887765544223 2222311


Q ss_pred             HHHH-HHccCCHHHHHHHHHhcCC--CCC--CccHHHHHHHHHHHHhCC-----------ChhHHHHHHHhchhhcCCCc
Q 042154           98 LIAL-YGKAAMFENARKVFDEMPG--RNC--EQTVLSFNALLGACVNSK-----------KFDEVDGLFKDLPHKLGIEP  161 (377)
Q Consensus        98 l~~~-~~~~~~~~~A~~~~~~~~~--~~~--~~~~~~~~~l~~~~~~~~-----------~~~~a~~~~~~~~~~~~~~p  161 (377)
                      .... +-+.+.+++++.+-.+...  .+.  ......|..+.-+|...-           ...++++.+++..+..+..|
T Consensus       399 asklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp  478 (799)
T KOG4162|consen  399 ASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDP  478 (799)
T ss_pred             HHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCc
Confidence            2222 2344566666555554433  110  112333333333333211           13456666666655544455


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHh-CCC-----------
Q 042154          162 DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVN-MNV-----------  229 (377)
Q Consensus       162 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~-----------  229 (377)
                      ++..|-.+  -|+..++++.|.+...+..+.+...+...|..+.-.+...+++.+|+.+.+...+ .|.           
T Consensus       479 ~~if~lal--q~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i  556 (799)
T KOG4162|consen  479 LVIFYLAL--QYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHI  556 (799)
T ss_pred             hHHHHHHH--HHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhh
Confidence            44444333  3455667777777777777665555666676666666666666666655543321 110           


Q ss_pred             --------------------------------------------------------------------------------
Q 042154          230 --------------------------------------------------------------------------------  229 (377)
Q Consensus       230 --------------------------------------------------------------------------------  229 (377)
                                                                                                      
T Consensus       557 ~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s  636 (799)
T KOG4162|consen  557 ELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSS  636 (799)
T ss_pred             hhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcc
Confidence                                                                                            


Q ss_pred             ----CCC------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC
Q 042154          230 ----RPN------VRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM  298 (377)
Q Consensus       230 ----~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~  298 (377)
                          .|+      ...|......+.+.+..++|...+.+.... .+.....|......+...|..++|.+.|. ...+.|
T Consensus       637 ~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP  715 (799)
T KOG4162|consen  637 TVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDP  715 (799)
T ss_pred             cccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCC
Confidence                001      111333344555566666666666665543 23344556666667778889999999888 666667


Q ss_pred             C-HHHHHHHHHHHHhcCChHHHHH--HHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCceeeeccC
Q 042154          299 N-KAIFKLLVPFVCEKGDLDFAFN--LCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYNLKF  373 (377)
Q Consensus       299 ~-~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  373 (377)
                      + +....++..++.+.|+..-|..  ++..+.+.+.. ++..|..+...+.+.|+.+.|.+.|..+.+-.....-++|
T Consensus       716 ~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~-n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV~pF  792 (799)
T KOG4162|consen  716 DHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPL-NHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPVLPF  792 (799)
T ss_pred             CCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCcccc
Confidence            4 4578899999999999888888  99999998765 8889999999999999999999999988776554444443

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

Probab=99.24  E-value=1.2e-08  Score=77.80  Aligned_cols=197  Identities=10%  Similarity=0.037  Sum_probs=111.6

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALY  102 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  102 (377)
                      +...|.-.|.+.|++..|..-+++..+.+  |.+..+|..+...|.+.|+.+.|.+.|++..+.. +.+..+.|.....+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D--Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD--PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHH
Confidence            34455555666666666666666666654  4455566666666666666666666666665553 23344445566666


Q ss_pred             HccCCHHHHHHHHHhcCCC-CCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHHHHHcCCHH
Q 042154          103 GKAAMFENARKVFDEMPGR-NCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKAFVDKGSLD  180 (377)
Q Consensus       103 ~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~  180 (377)
                      |..|.+++|...|++.... .+..-..+|..+.-+..+.|+++.|...|++..+.   .|+ ..+...+.....+.|++-
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~---dp~~~~~~l~~a~~~~~~~~y~  190 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL---DPQFPPALLELARLHYKAGDYA  190 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh---CcCCChHHHHHHHHHHhcccch
Confidence            6666666666666665442 12223445555555566666666666666655543   222 234455555556666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 042154          181 SANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       181 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  226 (377)
                      .|...++.....+. ++..+.-..|..--..|+.+.+.+.=.++..
T Consensus       191 ~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         191 PARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            66666666655544 4555555555555556666555554444443

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

Probab=99.24  E-value=1.4e-08  Score=77.50  Aligned_cols=195  Identities=11%  Similarity=0.016  Sum_probs=111.1

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 042154          129 SFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDL-VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLG  207 (377)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  207 (377)
                      +...+.-.|...|+...|..-+++.++.   .|+. .+|..+...|.+.|+.+.|.+.|++..+.... +..+.|.....
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~---DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~F  112 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH---DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHH
Confidence            3444555566666666666666666543   3433 35666666666666666666666666655332 55566666666


Q ss_pred             HHcCCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 042154          208 FYSNGRFADAEKIWETMVNMN-VRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEE  286 (377)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~  286 (377)
                      +|..|++++|...|++....- ...-..+|..+..+..+.|+.+.|...|++.++.. +-...+...+.....+.|++-.
T Consensus       113 LC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~  191 (250)
T COG3063         113 LCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAP  191 (250)
T ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchH
Confidence            666666666666666665431 11123455555555566666666666666666542 1123445555666666666666


Q ss_pred             HHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          287 AKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       287 a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      |..+++  ..+..++..+.-..|+.--..|+.+.+-+.=.++.+
T Consensus       192 Ar~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         192 ARLYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            666666  333335555555556666666666655555444443

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

Probab=99.22  E-value=1.8e-07  Score=81.27  Aligned_cols=306  Identities=9%  Similarity=-0.010  Sum_probs=187.4

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccch-hhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH-
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNT-GIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR-   97 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-   97 (377)
                      .+..|..+...+...|+++.+...+....+.....++. .........+...|++++|.+++++.....+... ..+.. 
T Consensus         5 ~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~-~a~~~~   83 (355)
T cd05804           5 FALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPRDL-LALKLH   83 (355)
T ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcH-HHHHHh
Confidence            35567777777777888888877777765543112222 1222334456678999999999999887643322 22221 


Q ss_pred             --HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHH
Q 042154           98 --LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVD  175 (377)
Q Consensus        98 --l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  175 (377)
                        ........+....+.+.+...... .+........+...+...|++++|...+++..+.  .+.+...+..+...+..
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~p~~~~~~~~la~i~~~  160 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPLWAPE-NPDYWYLLGMLAFGLEEAGQYDRAEEAARRALEL--NPDDAWAVHAVAHVLEM  160 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhccCcC-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHH
Confidence              112222345666677766653222 2333445556677889999999999999999764  23345678888899999


Q ss_pred             cCCHHHHHHHHHHHHHCCC-CCCH--HhHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCCHHHH-H--HHHHHHHhcCC
Q 042154          176 KGSLDSANTLLYEMEKKGI-RLDL--ITFNTLLLGFYSNGRFADAEKIWETMVNMNV-RPNVRSY-N--ARLDGLAIEKQ  248 (377)
Q Consensus       176 ~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~~~  248 (377)
                      .|++++|...+++...... .++.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+...|.
T Consensus       161 ~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~  240 (355)
T cd05804         161 QGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGH  240 (355)
T ss_pred             cCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCC
Confidence            9999999999999887532 2232  3456788899999999999999999864432 1222111 1  22333334443


Q ss_pred             HHHHHHH--HHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHH------hc----CCCC-CHHHHHHHHHHHHhc
Q 042154          249 TKKALEL--VGEMRSKEI--NPDVFTFYALIKGFVNEGNLEEAKRWYN------KS----GCGM-NKAIFKLLVPFVCEK  313 (377)
Q Consensus       249 ~~~a~~~--~~~~~~~g~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~------~~----~~~~-~~~~~~~l~~~~~~~  313 (377)
                      ...+.++  +........  ............++...|+.+.|...++      ..    +... ..........++...
T Consensus       241 ~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~  320 (355)
T cd05804         241 VDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAE  320 (355)
T ss_pred             CChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHc
Confidence            3333222  111111110  1112222356667788999999999998      11    1100 111122223356789


Q ss_pred             CChHHHHHHHHHHHhc
Q 042154          314 GDLDFAFNLCKRTFSE  329 (377)
Q Consensus       314 g~~~~a~~~~~~~~~~  329 (377)
                      |+.++|.+.+.+.+..
T Consensus       321 g~~~~A~~~L~~al~~  336 (355)
T cd05804         321 GNYATALELLGPVRDD  336 (355)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999999999888764

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

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

Probab=99.17  E-value=2.8e-09  Score=88.11  Aligned_cols=250  Identities=12%  Similarity=0.043  Sum_probs=160.6

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCCh
Q 042154           64 VQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKF  143 (377)
Q Consensus        64 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  143 (377)
                      ++-+--.|++..++.-.+ ...............+.+++...|+.+.++   .++.... +|.......+...+...++-
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccch
Confidence            344455788888886655 322222222223335788888899877544   4444433 57777776666655554566


Q ss_pred             hHHHHHHHhchhhcCCC-cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHH
Q 042154          144 DEVDGLFKDLPHKLGIE-PDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWE  222 (377)
Q Consensus       144 ~~a~~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  222 (377)
                      +.++.-+++.... ... .+..........+...|++++|++++...      .+.......+..|.+.++++.|.+.++
T Consensus        83 e~~l~~l~~~~~~-~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~  155 (290)
T PF04733_consen   83 ESALEELKELLAD-QAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELK  155 (290)
T ss_dssp             HCHHHHHHHCCCT-S---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHh-ccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHH
Confidence            6676666655443 222 23323333335566788999999888643      356677778889999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCC
Q 042154          223 TMVNMNVRPNVRSYNARLDGLAI----EKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCG  297 (377)
Q Consensus       223 ~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~  297 (377)
                      .|.+.+  .| .+...+..++..    .+.+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++. .....
T Consensus       156 ~~~~~~--eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~  231 (290)
T PF04733_consen  156 NMQQID--ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD  231 (290)
T ss_dssp             HHHCCS--CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-
T ss_pred             HHHhcC--Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc
Confidence            998764  34 344445554433    34688999999998765 56788889999999999999999999999 33334


Q ss_pred             C-CHHHHHHHHHHHHhcCCh-HHHHHHHHHHHhc
Q 042154          298 M-NKAIFKLLVPFVCEKGDL-DFAFNLCKRTFSE  329 (377)
Q Consensus       298 ~-~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~  329 (377)
                      | ++.+...++.+....|+. +.+.+.+.++...
T Consensus       232 ~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  232 PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            4 555666777777777877 6677788887764

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.17  E-value=2.3e-08  Score=79.23  Aligned_cols=325  Identities=14%  Similarity=0.071  Sum_probs=206.6

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCcc-chhHHHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKE-GFTARLIAL  101 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~  101 (377)
                      .+++++..+.+..+++.|++++..-.+..  +.+....+.+..+|-...++..|...++++...-+.... .+|  -...
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~--p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY--~AQS   87 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERS--PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLY--QAQS   87 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHH--HHHH
Confidence            46778888888899999999988777664  447778888888888999999999999988775332221 223  4667


Q ss_pred             HHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHH--HHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCH
Q 042154          102 YGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGA--CVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSL  179 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  179 (377)
                      +.+.+.+.+|+++...|...   |....-..-+.+  ....+++..+..++++....    -+..+.+.......+.|++
T Consensus        88 LY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e----n~Ad~~in~gCllykegqy  160 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE----NEADGQINLGCLLYKEGQY  160 (459)
T ss_pred             HHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC----CccchhccchheeeccccH
Confidence            77888999999998888763   222222222222  34567888888888877532    2444555555566788999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHH---------------------HHHH
Q 042154          180 DSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVR---------------------SYNA  238 (377)
Q Consensus       180 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---------------------~~~~  238 (377)
                      +.|.+-|+...+.+--.....|+..+. ..+.|+++.|++...+++++|++..+.                     .-+.
T Consensus       161 EaAvqkFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sa  239 (459)
T KOG4340|consen  161 EAAVQKFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSA  239 (459)
T ss_pred             HHHHHHHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHH
Confidence            999999998887543335556775554 445688999999999999888653210                     1122


Q ss_pred             HH-------HHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHH
Q 042154          239 RL-------DGLAIEKQTKKALELVGEMRSK-EINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVP  308 (377)
Q Consensus       239 l~-------~~~~~~~~~~~a~~~~~~~~~~-g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~  308 (377)
                      ++       ..+.+.|+++.|.+.+-+|--+ ....|+.|...+.-.- ..+++....+-+. -.+..| ...||..++-
T Consensus       240 l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPfP~ETFANlLl  318 (459)
T KOG4340|consen  240 LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPFPPETFANLLL  318 (459)
T ss_pred             HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCCChHHHHHHHH
Confidence            22       3345677888888877777533 2345667665543322 2334444444344 222233 4567877888


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCC-CCChhhHHHHHHHHH-hcCCHHHHHHHHHhh
Q 042154          309 FVCEKGDLDFAFNLCKRTFSERC-LVDQAPLQLVVDRLA-KELRVEEAKELVELG  361 (377)
Q Consensus       309 ~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~  361 (377)
                      .||+..-++.|-.++.+--.... -.++..|+ |++++. ..-..++|.+-++..
T Consensus       319 lyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~L  372 (459)
T KOG4340|consen  319 LYCKNEYFDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGL  372 (459)
T ss_pred             HHhhhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHH
Confidence            88888888888887754322211 12333343 344443 344566666655543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.17  E-value=9.6e-08  Score=75.82  Aligned_cols=262  Identities=13%  Similarity=0.101  Sum_probs=127.5

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHH-HHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTG-TVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      +......|..+|-...++..|-+.|+++...   .|...-|.. -...+-+.+.+..|+++...|....... ......-
T Consensus        43 ~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql---~P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~~~L~-~~~lqLq  118 (459)
T KOG4340|consen   43 SRAGLSLLGYCYYRLQEFALAAECYEQLGQL---HPELEQYRLYQAQSLYKACIYADALRVAFLLLDNPALH-SRVLQLQ  118 (459)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---ChHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCCHHHH-HHHHHHH
Confidence            4445555666666666666666666666432   233333322 2334455666666666665554421111 1111111


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      .......+|+..+..+.+++...|   +..+.+.......+.|+++.|.+-|+...+-.|..|-. .|+..+ ++.+.++
T Consensus       119 aAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpll-AYniAL-aHy~~~q  193 (459)
T KOG4340|consen  119 AAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLL-AYNLAL-AHYSSRQ  193 (459)
T ss_pred             HHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHHHHHHHhhcCCCchh-HHHHHH-HHHhhhh
Confidence            112234556666666666665443   34444444444556666666666666665554554432 344433 3445566


Q ss_pred             HHHHHHHHHHHHHCCCC-------------CCHH---------------hHHHHHHHHHcCCCHHHHHHHHHHHHhCC-C
Q 042154          179 LDSANTLLYEMEKKGIR-------------LDLI---------------TFNTLLLGFYSNGRFADAEKIWETMVNMN-V  229 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~-------------~~~~---------------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~  229 (377)
                      ++.|++...++.+.|+.             ||..               .+|.-...+.+.|+++.|.+-+-.|.-+. -
T Consensus       194 yasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~  273 (459)
T KOG4340|consen  194 YASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEE  273 (459)
T ss_pred             HHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccc
Confidence            66666666666665532             1110               11222223345566666666665554221 2


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          230 RPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       230 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ..|++|...+.-.- ..+++.+..+-+.-+...+ +....||..++-.||++.-++.|-.++.
T Consensus       274 elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf~lAADvLA  334 (459)
T KOG4340|consen  274 ELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYFDLAADVLA  334 (459)
T ss_pred             cCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHHhHHHHHHh
Confidence            23444444332221 1233444444444444432 1234566666666666666666666665

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

Probab=99.16  E-value=6.9e-07  Score=78.29  Aligned_cols=93  Identities=8%  Similarity=0.026  Sum_probs=52.1

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALY  102 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  102 (377)
                      .|...+..+.++|++-.....|+.....-.+.-...+|...+......+-.+.++.++++..+..+..    -+..+..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~----~eeyie~L  179 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEA----REEYIEYL  179 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHH----HHHHHHHH
Confidence            44444555556666666666666555433233334456666666666666666666666665543221    23455566


Q ss_pred             HccCCHHHHHHHHHhcC
Q 042154          103 GKAAMFENARKVFDEMP  119 (377)
Q Consensus       103 ~~~~~~~~A~~~~~~~~  119 (377)
                      ++.+++++|.+.+....
T Consensus       180 ~~~d~~~eaa~~la~vl  196 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVL  196 (835)
T ss_pred             HhccchHHHHHHHHHhc
Confidence            66666666666665554

>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=99.15  E-value=7e-09  Score=85.73  Aligned_cols=247  Identities=14%  Similarity=0.094  Sum_probs=160.4

Q ss_pred             HHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCC
Q 042154           28 IRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAM  107 (377)
Q Consensus        28 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  107 (377)
                      ++...-.|++..++.-.+ ..... -..+......+.+++...|+.+.++.   ++.... .|.......+...+...++
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~~-~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~~-~~~l~av~~la~y~~~~~~   81 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSFS-PENKLERDFYQYRSYIALGQYDSVLS---EIKKSS-SPELQAVRLLAEYLSSPSD   81 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTST-CHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TTS-SCCCHHHHHHHHHHCTSTT
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCCC-chhHHHHHHHHHHHHHHcCChhHHHH---HhccCC-ChhHHHHHHHHHHHhCccc
Confidence            355666899999997666 32222 13345556677888888998775543   333333 3444444344444444456


Q ss_pred             HHHHHHHHHhcCCCCCCc-cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHH
Q 042154          108 FENARKVFDEMPGRNCEQ-TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLL  186 (377)
Q Consensus       108 ~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  186 (377)
                      -+.+..-+++.......+ +..........+...|++++|++++...       .+.......+..+.+.++++.|.+.+
T Consensus        82 ~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~-------~~lE~~al~Vqi~L~~~R~dlA~k~l  154 (290)
T PF04733_consen   82 KESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG-------GSLELLALAVQILLKMNRPDLAEKEL  154 (290)
T ss_dssp             HHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT-------TCHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc-------CcccHHHHHHHHHHHcCCHHHHHHHH
Confidence            667777776665544332 3333333345577789999999877643       35566777889999999999999999


Q ss_pred             HHHHHCCCCCCHHhHHHHHHHH----HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          187 YEMEKKGIRLDLITFNTLLLGF----YSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       187 ~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      +.|.+.+  .|. +...+..++    ...+.+.+|..+|+++.+. ..++..+.+.+..++...|++++|.+++.+....
T Consensus       155 ~~~~~~~--eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~  230 (290)
T PF04733_consen  155 KNMQQID--EDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEK  230 (290)
T ss_dssp             HHHHCCS--CCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC
T ss_pred             HHHHhcC--CcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            9998752  343 333344433    3345799999999998765 4578889999999999999999999999998765


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCH-HHHHHHHH
Q 042154          263 EINPDVFTFYALIKGFVNEGNL-EEAKRWYN  292 (377)
Q Consensus       263 g~~p~~~~~~~l~~~~~~~~~~-~~a~~~~~  292 (377)
                      + +-++.+...++.+....|+. +.+.+++.
T Consensus       231 ~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~  260 (290)
T PF04733_consen  231 D-PNDPDTLANLIVCSLHLGKPTEAAERYLS  260 (290)
T ss_dssp             --CCHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             c-cCCHHHHHHHHHHHHHhCCChhHHHHHHH
Confidence            3 33566777788877788877 66667777

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.

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.14  E-value=7.3e-07  Score=77.33  Aligned_cols=193  Identities=13%  Similarity=0.121  Sum_probs=123.0

Q ss_pred             HHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHcc
Q 042154           26 SVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKA  105 (377)
Q Consensus        26 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  105 (377)
                      +=++-+.+.|++++|+....++...+  +.+...+.+-+-++.+.+++++|+.+.+.-... ......+| .-+.+..+.
T Consensus        17 t~ln~~~~~~e~e~a~k~~~Kil~~~--pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~-~~~~~~~f-EKAYc~Yrl   92 (652)
T KOG2376|consen   17 TDLNRHGKNGEYEEAVKTANKILSIV--PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL-LVINSFFF-EKAYCEYRL   92 (652)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHhcC--CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh-hhcchhhH-HHHHHHHHc
Confidence            33466677899999999999998765  667777888888889999999999666543221 11111223 245566678


Q ss_pred             CCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCC--------------------------
Q 042154          106 AMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGI--------------------------  159 (377)
Q Consensus       106 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------------------------  159 (377)
                      +..++|+..++-.-.    .+..+...-...+.+.+++++|+++|+.+.+. +.                          
T Consensus        93 nk~Dealk~~~~~~~----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn-~~dd~d~~~r~nl~a~~a~l~~~~~q~v  167 (652)
T KOG2376|consen   93 NKLDEALKTLKGLDR----LDDKLLELRAQVLYRLERYDEALDIYQHLAKN-NSDDQDEERRANLLAVAAALQVQLLQSV  167 (652)
T ss_pred             ccHHHHHHHHhcccc----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-CCchHHHHHHHHHHHHHHhhhHHHHHhc
Confidence            888888888883322    23335555566788888888888888877432 11                          


Q ss_pred             --CcCHHHHHHHH---HHHHHcCCHHHHHHHHHHHHHCC--------CC-----CCH-HhHHHHHHHHHcCCCHHHHHHH
Q 042154          160 --EPDLVSYNTII---KAFVDKGSLDSANTLLYEMEKKG--------IR-----LDL-ITFNTLLLGFYSNGRFADAEKI  220 (377)
Q Consensus       160 --~p~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~~--------~~-----~~~-~~~~~l~~~~~~~~~~~~a~~~  220 (377)
                        .| ..+|..+.   ..+...|++.+|+++++...+.+        ..     ... .+-..+.-.+...|+-.+|..+
T Consensus       168 ~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~i  246 (652)
T KOG2376|consen  168 PEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSI  246 (652)
T ss_pred             cCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHH
Confidence              11 11333332   34466788999999888873211        00     001 1223344556678888888888


Q ss_pred             HHHHHhCC
Q 042154          221 WETMVNMN  228 (377)
Q Consensus       221 ~~~~~~~~  228 (377)
                      +...++..
T Consensus       247 y~~~i~~~  254 (652)
T KOG2376|consen  247 YVDIIKRN  254 (652)
T ss_pred             HHHHHHhc
Confidence            88777654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.13  E-value=4.1e-08  Score=79.69  Aligned_cols=53  Identities=4%  Similarity=-0.019  Sum_probs=31.9

Q ss_pred             HHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHh
Q 042154           29 RGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQ   83 (377)
Q Consensus        29 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   83 (377)
                      .++.+.|++++|+..|.-+....  .++...+..|.-...-.|.+.+|..+-.+.
T Consensus        65 ~C~fhLgdY~~Al~~Y~~~~~~~--~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka  117 (557)
T KOG3785|consen   65 HCYFHLGDYEEALNVYTFLMNKD--DAPAELGVNLACCKFYLGQYIEAKSIAEKA  117 (557)
T ss_pred             HHHHhhccHHHHHHHHHHHhccC--CCCcccchhHHHHHHHHHHHHHHHHHHhhC
Confidence            44556677777777777666544  444555555555555566666666665543

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

Probab=99.13  E-value=3.9e-09  Score=95.03  Aligned_cols=250  Identities=16%  Similarity=0.091  Sum_probs=165.7

Q ss_pred             HHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCC
Q 042154           42 DKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGR  121 (377)
Q Consensus        42 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  121 (377)
                      .++-.+...| +.|+..||..+|..||..|+.+.|- +|.-|.....+....+++.++.+....++.+.+.         
T Consensus        11 nfla~~e~~g-i~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   11 NFLALHEISG-ILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             hHHHHHHHhc-CCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            3455565666 9999999999999999999999998 9999988888889999999999999999988876         


Q ss_pred             CCCccHHHHHHHHHHHHhCCChhH---HHHHHHhchhh---cCCCcCHHHHHHHHHHHHH--------------cCCHHH
Q 042154          122 NCEQTVLSFNALLGACVNSKKFDE---VDGLFKDLPHK---LGIEPDLVSYNTIIKAFVD--------------KGSLDS  181 (377)
Q Consensus       122 ~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~---~~~~p~~~~~~~l~~~~~~--------------~~~~~~  181 (377)
                        .|.+.+|..|..+|...||...   +.+.+..+...   .|+.....-+-..++++-.              .|-++.
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaq  157 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQ  157 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHH
Confidence              4889999999999999999654   33322222221   1222122222222232211              111222


Q ss_pred             HHHHHHHHHHCCCCCCHHhHH---HHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042154          182 ANTLLYEMEKKGIRLDLITFN---TLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGE  258 (377)
Q Consensus       182 a~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (377)
                      +++++..+      |....++   ..++-+...  ..-..++........-.|+..+|.+++.+-.-.|+.+.|..++.+
T Consensus       158 llkll~~~------Pvsa~~~p~~vfLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~e  229 (1088)
T KOG4318|consen  158 LLKLLAKV------PVSAWNAPFQVFLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYE  229 (1088)
T ss_pred             HHHHHhhC------CcccccchHHHHHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHH
Confidence            22222222      1111111   112222222  222333333333221148889999999998899999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---hcCCCCCHHHHHHHHHHHHhcCC
Q 042154          259 MRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEKGD  315 (377)
Q Consensus       259 ~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~~~~~~~~l~~~~~~~g~  315 (377)
                      |.+.|++.+..-|..|+-+   .++..-+..+++   ..|+.|+..|+...+..+.+.|.
T Consensus       230 mke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  230 MKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            9999998888877777765   566666665555   88999999998887777777554

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.12  E-value=3.4e-07  Score=74.19  Aligned_cols=301  Identities=11%  Similarity=0.020  Sum_probs=175.6

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      .+..-..-+...+...|++..|+..|....+-+  |.+-.++-.-...|...|+...|+.-+....+..+.....-. .-
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~d--p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARi-QR  112 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEGD--PNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARI-QR  112 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC--chhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHH-Hh
Confidence            455556667777888888888888888886543  333334444455777788888888877777665422111111 23


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHH----H------------HHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVL----S------------FNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD  162 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~----~------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~  162 (377)
                      ...+.+.|.++.|..=|+.+++..  |+..    +            ....+..+...|+...|+.....+++-  .+=|
T Consensus       113 g~vllK~Gele~A~~DF~~vl~~~--~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi--~~Wd  188 (504)
T KOG0624|consen  113 GVVLLKQGELEQAEADFDQVLQHE--PSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI--QPWD  188 (504)
T ss_pred             chhhhhcccHHHHHHHHHHHHhcC--CCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc--Ccch
Confidence            445778888888888888887754  3211    1            122233455567777777777776642  2225


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHH---
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNAR---  239 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---  239 (377)
                      ...|..-..+|...|++..|+.=+....+... .+...+.-+-..+...|+.+.++...++.++.+  ||....-..   
T Consensus       189 a~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKld--pdHK~Cf~~YKk  265 (504)
T KOG0624|consen  189 ASLRQARAKCYIAEGEPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECLKLD--PDHKLCFPFYKK  265 (504)
T ss_pred             hHHHHHHHHHHHhcCcHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHHccC--cchhhHHHHHHH
Confidence            55566666777777777777766666655432 244555556666777777777777777777654  554322111   


Q ss_pred             ----------HHHHHhcCCHHHHHHHHHHHHhCCCCCCHH---HHHHHHHHHHhcCCHHHHHHHHH-hcCCCCC-HHHHH
Q 042154          240 ----------LDGLAIEKQTKKALELVGEMRSKEINPDVF---TFYALIKGFVNEGNLEEAKRWYN-KSGCGMN-KAIFK  304 (377)
Q Consensus       240 ----------~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~---~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~-~~~~~  304 (377)
                                +......+++.++++-.+...+........   .+..+-.++...|++.+|++... ...+.|+ +.++.
T Consensus       266 lkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~  345 (504)
T KOG0624|consen  266 LKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLC  345 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHH
Confidence                      111233455555555555555442111111   22334444555566666666655 4444453 55565


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          305 LLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       305 ~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      --..+|.-...++.|+.-|+.+.+.
T Consensus       346 dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  346 DRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            5566666666666666666666654

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

Probab=99.10  E-value=3e-06  Score=74.46  Aligned_cols=72  Identities=6%  Similarity=0.058  Sum_probs=41.0

Q ss_pred             hhhccccCCCCCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHh
Q 042154            7 LLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQ   83 (377)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   83 (377)
                      .+.+.+..-+..-....|...+......+-++-++.+|+...+.     ++..-+.-|..++..+++++|.+.+...
T Consensus       124 tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~-----~P~~~eeyie~L~~~d~~~eaa~~la~v  195 (835)
T KOG2047|consen  124 TFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV-----APEAREEYIEYLAKSDRLDEAAQRLATV  195 (835)
T ss_pred             HHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc-----CHHHHHHHHHHHHhccchHHHHHHHHHh
Confidence            34444444444444556666666666666666667666666532     2233555566666666666666655544

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.09  E-value=2.4e-07  Score=79.32  Aligned_cols=331  Identities=13%  Similarity=0.086  Sum_probs=202.0

Q ss_pred             HHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCC
Q 042154           28 IRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAM  107 (377)
Q Consensus        28 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  107 (377)
                      .++.+..|+++.|+..|-......  |+|...|+.-..+++..|++++|.+=-.+..+..+.- ..-|.....++.-.|+
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~--p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w-~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLS--PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDW-AKGYSRKGAALFGLGD   85 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccC--CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCch-hhHHHHhHHHHHhccc
Confidence            356677889999999998887776  6788888888888999999888887766666654332 2334467788888889


Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCC----------------------------------------------
Q 042154          108 FENARKVFDEMPGRNCEQTVLSFNALLGACVNSK----------------------------------------------  141 (377)
Q Consensus       108 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------------------------------------  141 (377)
                      +++|+..|.+-++.. +.+...+.-+..++....                                              
T Consensus        86 ~~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~  164 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKL  164 (539)
T ss_pred             HHHHHHHHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhc
Confidence            999998888876654 233444444444431110                                              


Q ss_pred             -----ChhHHHHHHHhch-----hh------cCCCc------------C----------HHHHHHHHHHHHHcCCHHHHH
Q 042154          142 -----KFDEVDGLFKDLP-----HK------LGIEP------------D----------LVSYNTIIKAFVDKGSLDSAN  183 (377)
Q Consensus       142 -----~~~~a~~~~~~~~-----~~------~~~~p------------~----------~~~~~~l~~~~~~~~~~~~a~  183 (377)
                           ++..+...+....     ..      .+..|            |          ..-...+.++..+..+++.++
T Consensus       165 ~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~  244 (539)
T KOG0548|consen  165 YLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAI  244 (539)
T ss_pred             ccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHH
Confidence                 0001111100000     00      00011            0          112445666777777888888


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHH-------HHHHHhcCCHHHHHHHH
Q 042154          184 TLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNAR-------LDGLAIEKQTKKALELV  256 (377)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~  256 (377)
                      +.+.......  .+..-++....+|...|.+..+...-....+.|- -...-|+.+       ..+|.+.++++.++..|
T Consensus       245 q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gr-e~rad~klIak~~~r~g~a~~k~~~~~~ai~~~  321 (539)
T KOG0548|consen  245 QHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGR-ELRADYKLIAKALARLGNAYTKREDYEGAIKYY  321 (539)
T ss_pred             HHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhH-HHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHH
Confidence            8888888764  4666677777888888888887777776666552 122233333       33566677888888888


Q ss_pred             HHHHhCCCCCCHHHH-------------------------HHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHH
Q 042154          257 GEMRSKEINPDVFTF-------------------------YALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPF  309 (377)
Q Consensus       257 ~~~~~~g~~p~~~~~-------------------------~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~  309 (377)
                      .+....-..|+..+-                         ..=...+.+.|++..|.+.+. .....| |...|..-.-+
T Consensus       322 ~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~Da~lYsNRAac  401 (539)
T KOG0548|consen  322 QKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPEDARLYSNRAAC  401 (539)
T ss_pred             HHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCchhHHHHHHHHH
Confidence            876654333332221                         111234556677777777777 222233 55567777777


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          310 VCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       310 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      |.+.|.+..|+.-.+..++.+.. ....|..=..++....++++|.+.|.+..+.++
T Consensus       402 ~~kL~~~~~aL~Da~~~ieL~p~-~~kgy~RKg~al~~mk~ydkAleay~eale~dp  457 (539)
T KOG0548|consen  402 YLKLGEYPEALKDAKKCIELDPN-FIKAYLRKGAALRAMKEYDKALEAYQEALELDP  457 (539)
T ss_pred             HHHHhhHHHHHHHHHHHHhcCch-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            77777777777776666664221 333444445555556677777777777776653

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.06  E-value=1.8e-06  Score=84.72  Aligned_cols=304  Identities=11%  Similarity=0.014  Sum_probs=188.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhhcCCC--------ccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCcc----HHH
Q 042154           62 GTVQRLANAKRFRWIEEILEHQKQYKDIS--------KEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQT----VLS  129 (377)
Q Consensus        62 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~  129 (377)
                      .....+...|+++++..++......-...        .......+...+...|++++|...+++....-...+    ...
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            34445566788888888887765431110        111122234456678999999998887654211111    234


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHhchhhcCC--Cc--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCC--C-CH
Q 042154          130 FNALLGACVNSKKFDEVDGLFKDLPHKLGI--EP--DLVSYNTIIKAFVDKGSLDSANTLLYEMEKK----GIR--L-DL  198 (377)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~  198 (377)
                      .+.+...+...|++++|...+.+......-  .+  ...++..+...+...|+++.|...+++....    +..  + ..
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            455666677899999999888877532110  11  1234555667788899999999988876542    211  1 22


Q ss_pred             HhHHHHHHHHHcCCCHHHHHHHHHHHHhCC--CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHH--H
Q 042154          199 ITFNTLLLGFYSNGRFADAEKIWETMVNMN--VRP--NVRSYNARLDGLAIEKQTKKALELVGEMRSKE--INPDVF--T  270 (377)
Q Consensus       199 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g--~~p~~~--~  270 (377)
                      ..+..+...+...|++++|...+.+.....  ..+  ....+..+...+...|++++|...+.+.....  ......  .
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            334455666777899999999888775421  112  23344445667778899999999888875421  111110  0


Q ss_pred             H--HHHHHHHHhcCCHHHHHHHHHh-cCCC-CCH----HHHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC-hhh
Q 042154          271 F--YALIKGFVNEGNLEEAKRWYNK-SGCG-MNK----AIFKLLVPFVCEKGDLDFAFNLCKRTFSE----RCLVD-QAP  337 (377)
Q Consensus       271 ~--~~l~~~~~~~~~~~~a~~~~~~-~~~~-~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~  337 (377)
                      .  ...+..+...|+.+.|.+++.. .... ...    ..+..+..++...|++++|...+++....    +..++ ..+
T Consensus       654 ~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~  733 (903)
T PRK04841        654 NADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRN  733 (903)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHH
Confidence            0  1122344558899999998871 1111 111    12345667888999999999999988764    22211 235


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          338 LQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       338 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      ...+..++.+.|+.++|.+.+.++.+..
T Consensus       734 ~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        734 LILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            6667788999999999999988886643

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

Probab=99.01  E-value=3.5e-08  Score=85.05  Aligned_cols=255  Identities=15%  Similarity=0.130  Sum_probs=146.7

Q ss_pred             hhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHH
Q 042154           31 IYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFEN  110 (377)
Q Consensus        31 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  110 (377)
                      +.+.|++.+|.-.|+...+.+  |-+...|..|....+..++-..|+..+++..+..+.....+. .|.-.|...|.-.+
T Consensus       295 lm~nG~L~~A~LafEAAVkqd--P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLm-aLAVSytNeg~q~~  371 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD--PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALM-ALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC--hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHH-HHHHHHhhhhhHHH
Confidence            456777777777777777665  666777777777777777777777777777776554444444 57777777777777


Q ss_pred             HHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHH-
Q 042154          111 ARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEM-  189 (377)
Q Consensus       111 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~-  189 (377)
                      |.+.++..+....+   ..|  +.. -...+++..-           +-.++...             +....++|-++ 
T Consensus       372 Al~~L~~Wi~~~p~---y~~--l~~-a~~~~~~~~~-----------~s~~~~~~-------------l~~i~~~fLeaa  421 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPK---YVH--LVS-AGENEDFENT-----------KSFLDSSH-------------LAHIQELFLEAA  421 (579)
T ss_pred             HHHHHHHHHHhCcc---chh--ccc-cCccccccCC-----------cCCCCHHH-------------HHHHHHHHHHHH
Confidence            77777776543210   000  000 0000000000           00112211             22223333333 


Q ss_pred             HHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-
Q 042154          190 EKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDV-  268 (377)
Q Consensus       190 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-  268 (377)
                      ...+..+|..+...|.-.|.-.|++++|.+.|+..+... +-|...||.|...++...+.++|+..|.+.++.  .|.- 
T Consensus       422 ~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yV  498 (579)
T KOG1125|consen  422 RQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYV  498 (579)
T ss_pred             HhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCee
Confidence            344434566666667777777777777777777777654 345667777777777777777777777777763  5552 


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHH------hc------CCCCCHHHHHHHHHHHHhcCChHHHHH
Q 042154          269 FTFYALIKGFVNEGNLEEAKRWYN------KS------GCGMNKAIFKLLVPFVCEKGDLDFAFN  321 (377)
Q Consensus       269 ~~~~~l~~~~~~~~~~~~a~~~~~------~~------~~~~~~~~~~~l~~~~~~~g~~~~a~~  321 (377)
                      .....|.-+|...|.+++|.+.|-      ..      ...++...|..|=.++.-.++.+.+.+
T Consensus       499 R~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  499 RVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             eeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            344445566777777777776555      11      111233456665555555565554433

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

Probab=98.98  E-value=4.2e-07  Score=86.10  Aligned_cols=228  Identities=9%  Similarity=0.090  Sum_probs=179.8

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHh
Q 042154          124 EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDL---VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLIT  200 (377)
Q Consensus       124 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  200 (377)
                      |-+...|-..|....+.++.++|.++.++.+..-++.-..   ..|.++++.-..-|.-+...++|+++.+.  ...-..
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            4567789999999999999999999999987643332222   36777777777888889999999999986  223457


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHH
Q 042154          201 FNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD---VFTFYALIKG  277 (377)
Q Consensus       201 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~---~~~~~~l~~~  277 (377)
                      |..|...|.+.+.+++|.++++.|.++= .-....|...+..+.+.++-+.|..++.+..+.  -|.   .....-.+..
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqL 1609 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQL 1609 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHH
Confidence            8899999999999999999999999752 246688999999999999999999999998875  333   3344555666


Q ss_pred             HHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChh--hHHHHHHHHHhcCCHHH
Q 042154          278 FVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQA--PLQLVVDRLAKELRVEE  353 (377)
Q Consensus       278 ~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~  353 (377)
                      -.+.|+.+.++.+|+  -...+.-...|+..+++-.+.|+.+.+..+|++.+..++.|-..  .|..++..=-+.|+-+.
T Consensus      1610 EFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~ 1689 (1710)
T KOG1070|consen 1610 EFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKN 1689 (1710)
T ss_pred             HhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhh
Confidence            678999999999999  33334456789999999999999999999999999988765433  56677766666676544


Q ss_pred             HHH
Q 042154          354 AKE  356 (377)
Q Consensus       354 A~~  356 (377)
                      +..
T Consensus      1690 vE~ 1692 (1710)
T KOG1070|consen 1690 VEY 1692 (1710)
T ss_pred             HHH
Confidence            333

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

Probab=98.98  E-value=6e-06  Score=72.66  Aligned_cols=344  Identities=12%  Similarity=0.080  Sum_probs=210.6

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      |-.+.+.....-.+...|+-++|.+......+.+  .-+...|+.+.-.+....++++|++.|..+...+. .+..++.-
T Consensus        38 ~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d--~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~-dN~qilrD  114 (700)
T KOG1156|consen   38 PEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND--LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEK-DNLQILRD  114 (700)
T ss_pred             CccchhHHhccchhhcccchHHHHHHHHHHhccC--cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCC-CcHHHHHH
Confidence            3344444444445566777777777777666544  44566777777777777777888888777776643 34444445


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHH----
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAF----  173 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~----  173 (377)
                      +...-++.++++.......++.+.. +.....|..+..++.-.|+...|..+++...+.....|+...+......+    
T Consensus       115 lslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~  193 (700)
T KOG1156|consen  115 LSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQ  193 (700)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHH
Confidence            6666666777777776666666543 23455677777777778888888888888866533456666665554433    


Q ss_pred             --HHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-hcCCHH
Q 042154          174 --VDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLA-IEKQTK  250 (377)
Q Consensus       174 --~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~  250 (377)
                        .+.|..+.|.+.+..-... +......-..-...+.+.+++++|..++..++..+  ||...|...+..+. +-.+.-
T Consensus       194 i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~  270 (700)
T KOG1156|consen  194 ILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDML  270 (700)
T ss_pred             HHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhH
Confidence              3456667777666555443 22233334455667888899999999999999875  77777666554443 333434


Q ss_pred             HHH-HHHHHHHhC---CCCCC--------HHHHHHHHHHHH----hc-------------CCHHHHHHHHH---------
Q 042154          251 KAL-ELVGEMRSK---EINPD--------VFTFYALIKGFV----NE-------------GNLEEAKRWYN---------  292 (377)
Q Consensus       251 ~a~-~~~~~~~~~---g~~p~--------~~~~~~l~~~~~----~~-------------~~~~~a~~~~~---------  292 (377)
                      ++. .+|....+.   ...|-        ...+...++-|.    +.             .+..+.- +++         
T Consensus       271 ~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~-~le~Lvt~y~~~  349 (700)
T KOG1156|consen  271 EALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKDPEKVA-FLEKLVTSYQHS  349 (700)
T ss_pred             HHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhchhHhH-HHHHHHHHHHhh
Confidence            444 666655432   10110        001111111111    11             1111111 222         


Q ss_pred             hcC------------CCCCHHHHH--HHHHHHHhcCChHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHHHHHHH
Q 042154          293 KSG------------CGMNKAIFK--LLVPFVCEKGDLDFAFNLCKRTFSERCLVD-QAPLQLVVDRLAKELRVEEAKEL  357 (377)
Q Consensus       293 ~~~------------~~~~~~~~~--~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~  357 (377)
                      ..+            -+|....|.  .++..+-+.|+++.|...++.++++  .|+ ++.|..=.+.+...|++++|..+
T Consensus       350 L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~  427 (700)
T KOG1156|consen  350 LSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAW  427 (700)
T ss_pred             cccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHH
Confidence            011            145555444  5677888999999999999999885  333 33555556889999999999999


Q ss_pred             HHhhccCCceeeec
Q 042154          358 VELGKTNSYCRYNL  371 (377)
Q Consensus       358 ~~~~~~~~~~~~~~  371 (377)
                      ++++.+.+.+..-+
T Consensus       428 l~ea~elD~aDR~I  441 (700)
T KOG1156|consen  428 LDEAQELDTADRAI  441 (700)
T ss_pred             HHHHHhccchhHHH
Confidence            99998877654433

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

Probab=98.94  E-value=2.1e-05  Score=67.99  Aligned_cols=149  Identities=13%  Similarity=0.113  Sum_probs=110.8

Q ss_pred             HHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          214 FADAEKIWETMVNMN-VRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINP-DVFTFYALIKGFVNEGNLEEAKRWY  291 (377)
Q Consensus       214 ~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~  291 (377)
                      .+.....++++...- +.|+ .+|-..+..--+..-+..|..+|.+..+.+..+ ++..+++++..+| .++...|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHH
Confidence            344444555554322 2333 556667777778888999999999999987777 6778888888765 68899999999


Q ss_pred             H-hcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCh--hhHHHHHHHHHhcCCHHHHHHHHHhhccC
Q 042154          292 N-KSGCGMNK-AIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQ--APLQLVVDRLAKELRVEEAKELVELGKTN  364 (377)
Q Consensus       292 ~-~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  364 (377)
                      + ....-+|. ..-...+..+...++-..|..+|++.+..++.|+.  .+|..+++-=..-|+...+.++-+++...
T Consensus       425 eLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  425 ELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             HHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            9 32223343 34456778888999999999999999988555443  58999999999999999998887776543

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

Probab=98.92  E-value=6.3e-07  Score=85.01  Aligned_cols=207  Identities=14%  Similarity=0.097  Sum_probs=107.5

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHhhhh-cCC---CccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHH
Q 042154           56 NTGIYTGTVQRLANAKRFRWIEEILEHQKQY-KDI---SKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFN  131 (377)
Q Consensus        56 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  131 (377)
                      +...|-.-+......++.++|.++.+++... +..   ....+|.+++..-...|.-+...++|+++.+.-  -....|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHH
Confidence            3444555555555566666666666555443 111   112233344444444555555566666655532  1234455


Q ss_pred             HHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHhHHHHHHHHHc
Q 042154          132 ALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIR-LDLITFNTLLLGFYS  210 (377)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~  210 (377)
                      .|...|.+...+++|.++|+.|.++++  -....|...+..+.++++-+.|..++.++.+.=.. -........+..-.+
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhh
Confidence            555666666666666666666655544  23345555566666666666666666655543111 022233333444445


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 042154          211 NGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD  267 (377)
Q Consensus       211 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~  267 (377)
                      .|+.+.+..+|+...... +--...|+..++.-.++|+.+.+..+|++....++.|.
T Consensus      1613 ~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred             cCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence            566666666666555443 22334566666666666666666666666665555443

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

Probab=98.92  E-value=3.7e-07  Score=78.94  Aligned_cols=251  Identities=13%  Similarity=0.071  Sum_probs=165.7

Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHHHHHc
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKAFVDK  176 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~  176 (377)
                      -..-+.+.|++.+|.-.|+..++.+ |-+..+|..|......+++-..|+..+.++.+   +.|+ ..+.-.|.-.|...
T Consensus       291 eG~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~---LdP~NleaLmaLAVSytNe  366 (579)
T KOG1125|consen  291 EGCNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLE---LDPTNLEALMALAVSYTNE  366 (579)
T ss_pred             HHHHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHh---cCCccHHHHHHHHHHHhhh
Confidence            4445667788888888888877766 45677888888888888888888888877763   3554 34666666677777


Q ss_pred             CCHHHHHHHHHHHHHCCCCC--------CHHhHHHHHHHHHcCCCHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcC
Q 042154          177 GSLDSANTLLYEMEKKGIRL--------DLITFNTLLLGFYSNGRFADAEKIWETMV-NMNVRPNVRSYNARLDGLAIEK  247 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~  247 (377)
                      |.-..|++.++.-....++-        +...-..  ..+.....+....++|-++. ..+..+|...+..|.-.|--.|
T Consensus       367 g~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~  444 (579)
T KOG1125|consen  367 GLQNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSG  444 (579)
T ss_pred             hhHHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcch
Confidence            77778888887776542110        0000000  11112223344555555554 3443467777888888888888


Q ss_pred             CHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHH-HHHHHHHHHHhcCChHHHHHHHH
Q 042154          248 QTKKALELVGEMRSKEINP-DVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKA-IFKLLVPFVCEKGDLDFAFNLCK  324 (377)
Q Consensus       248 ~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~  324 (377)
                      ++++|.+.|+..+..  +| |..+||.|...++...+.++|+..|. ...+.|+.+ +...|.-.|...|.+++|.+.|-
T Consensus       445 efdraiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL  522 (579)
T KOG1125|consen  445 EFDRAVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLL  522 (579)
T ss_pred             HHHHHHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHH
Confidence            888888888888875  44 45678888888888888888888888 666777654 44456667888888888888877


Q ss_pred             HHHhcC---------CCCChhhHHHHHHHHHhcCCHHHHHH
Q 042154          325 RTFSER---------CLVDQAPLQLVVDRLAKELRVEEAKE  356 (377)
Q Consensus       325 ~~~~~~---------~~~~~~~~~~l~~~~~~~g~~~~A~~  356 (377)
                      .++...         ..++..+|..|=.++.-.++.+.+.+
T Consensus       523 ~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  523 EALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             HHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            665431         12233466666666666666664443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.91  E-value=8.9e-06  Score=79.92  Aligned_cols=338  Identities=13%  Similarity=0.073  Sum_probs=205.1

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALY  102 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  102 (377)
                      .+......+...|++.+|+.........   ..-..............|+++.+..+++.+.......+..........+
T Consensus       343 lh~raa~~~~~~g~~~~Al~~a~~a~d~---~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~  419 (903)
T PRK04841        343 LHRAAAEAWLAQGFPSEAIHHALAAGDA---QLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLA  419 (903)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHCCCH---HHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHH
Confidence            3444555666777877777665544221   1111222223344556788888888877663322222223333456666


Q ss_pred             HccCCHHHHHHHHHhcCCC----C--CCcc--HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC---HHHHHHHHH
Q 042154          103 GKAAMFENARKVFDEMPGR----N--CEQT--VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD---LVSYNTIIK  171 (377)
Q Consensus       103 ~~~~~~~~A~~~~~~~~~~----~--~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~  171 (377)
                      ...|++++|..++......    +  -.+.  ......+...+...|++++|...+++..........   ....+.+..
T Consensus       420 ~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~  499 (903)
T PRK04841        420 QSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGE  499 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHH
Confidence            7889999999888765331    1  0111  122223334566899999999999887542111111   124455667


Q ss_pred             HHHHcCCHHHHHHHHHHHHHC----CC-CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHh----CCCC--C-CHHHHHHH
Q 042154          172 AFVDKGSLDSANTLLYEMEKK----GI-RLDLITFNTLLLGFYSNGRFADAEKIWETMVN----MNVR--P-NVRSYNAR  239 (377)
Q Consensus       172 ~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~--~-~~~~~~~l  239 (377)
                      .+...|++++|...+.+....    |. .....++..+...+...|++++|...+++...    .+..  + ....+..+
T Consensus       500 ~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l  579 (903)
T PRK04841        500 VHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIR  579 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHH
Confidence            778899999999999888742    11 11123455667788899999999999887664    2211  1 22334455


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC--CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHH---h--cCCCCCHH--HH--HHH
Q 042154          240 LDGLAIEKQTKKALELVGEMRSK--EINPD--VFTFYALIKGFVNEGNLEEAKRWYN---K--SGCGMNKA--IF--KLL  306 (377)
Q Consensus       240 ~~~~~~~~~~~~a~~~~~~~~~~--g~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~---~--~~~~~~~~--~~--~~l  306 (377)
                      ...+...|++++|...+.+....  ...+.  ...+..+...+...|+.+.|.+.++   .  ........  ..  ...
T Consensus       580 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~  659 (903)
T PRK04841        580 AQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVR  659 (903)
T ss_pred             HHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHH
Confidence            66677889999999999887653  11122  3344556667788999999998888   1  11111111  10  112


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCChh----hHHHHHHHHHhcCCHHHHHHHHHhhccC
Q 042154          307 VPFVCEKGDLDFAFNLCKRTFSERCLVDQA----PLQLVVDRLAKELRVEEAKELVELGKTN  364 (377)
Q Consensus       307 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~  364 (377)
                      +..+...|+.+.|.+.+......... ...    .+..+..++...|+.++|...++++...
T Consensus       660 ~~~~~~~g~~~~A~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        660 LIYWQMTGDKEAAANWLRQAPKPEFA-NNHFLQGQWRNIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCCc-cchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            23455689999999998776542211 111    1345777889999999999999987654

>PLN02789 farnesyltranstransferase

Probab=98.90  E-value=4.1e-06  Score=70.40  Aligned_cols=201  Identities=9%  Similarity=0.055  Sum_probs=85.8

Q ss_pred             CCChhHHHHHHHhchhhcCCCcCH-HHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCH--H
Q 042154          140 SKKFDEVDGLFKDLPHKLGIEPDL-VSYNTIIKAFVDKG-SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRF--A  215 (377)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~  215 (377)
                      .++.++|+.++.++++.   .|+. .+|+.-..++...| ++++++..++++.+.... +..+|+.....+.+.|+.  +
T Consensus        50 ~e~serAL~lt~~aI~l---nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~  125 (320)
T PLN02789         50 DERSPRALDLTADVIRL---NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAAN  125 (320)
T ss_pred             CCCCHHHHHHHHHHHHH---CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhH
Confidence            34444555555544432   2222 23333333333344 345555555555544222 333344333333333331  3


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CC----HHHHH
Q 042154          216 DAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNE---GN----LEEAK  288 (377)
Q Consensus       216 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~---~~----~~~a~  288 (377)
                      ++..+++++.+.+ +-+..+|+....++...|+++++++.++++++.+.. +...|+.....+.+.   |.    .+++.
T Consensus       126 ~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el  203 (320)
T PLN02789        126 KELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSEL  203 (320)
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHH
Confidence            4455555555443 234455555555555555555555555555554322 233333333333222   11    12333


Q ss_pred             HHHH-hcCCCC-CHHHHHHHHHHHHhc----CChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 042154          289 RWYN-KSGCGM-NKAIFKLLVPFVCEK----GDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAK  347 (377)
Q Consensus       289 ~~~~-~~~~~~-~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  347 (377)
                      ++.. .....| |...|+.+...+...    ++..+|...+.+..+.++. +......|++.|+.
T Consensus       204 ~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~-s~~al~~l~d~~~~  267 (320)
T PLN02789        204 KYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSN-HVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCC-cHHHHHHHHHHHHh
Confidence            3332 222222 444555555555442    2334455555555443322 44455556665554

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

Probab=98.88  E-value=1.3e-05  Score=72.03  Aligned_cols=206  Identities=16%  Similarity=0.130  Sum_probs=141.0

Q ss_pred             CccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCc-cHHHHH
Q 042154           53 FRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQ-TVLSFN  131 (377)
Q Consensus        53 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~  131 (377)
                      +.-+...|..+.-++...|+++.+.+.|++...........++ .+...|...|.-..|..+.+.-....-.| +...+-
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~-~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWY-QLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHH-HHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            5668889999999999999999999999998877555555555 68889999999999999998866543223 344444


Q ss_pred             HHHHHHHh-CCChhHHHHHHHhchhhcCC---CcCHHHHHHHHHHHHH-----------cCCHHHHHHHHHHHHHCCCCC
Q 042154          132 ALLGACVN-SKKFDEVDGLFKDLPHKLGI---EPDLVSYNTIIKAFVD-----------KGSLDSANTLLYEMEKKGIRL  196 (377)
Q Consensus       132 ~l~~~~~~-~~~~~~a~~~~~~~~~~~~~---~p~~~~~~~l~~~~~~-----------~~~~~~a~~~~~~~~~~~~~~  196 (377)
                      ..-..|.+ .+..++++++-.+.....+-   ...+..|..+.-+|..           .....++++.+++..+.+.. 
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~-  476 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT-  476 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC-
Confidence            44444444 46677777766666542111   1122334444444422           11245788888888876543 


Q ss_pred             CHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 042154          197 DLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMR  260 (377)
Q Consensus       197 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  260 (377)
                      |......+.--|...++.+.|.+...+..+.+-..+...|..+...+...+++.+|+.+.+...
T Consensus       477 dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al  540 (799)
T KOG4162|consen  477 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAAL  540 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            3333333445566778999999999999988656788889888888877888877777665543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.87  E-value=3.2e-07  Score=74.65  Aligned_cols=185  Identities=6%  Similarity=-0.073  Sum_probs=121.7

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccch---hhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccc--h
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNT---GIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEG--F   94 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~   94 (377)
                      .+..+..+...+...|++++|...|+.+....  |.+.   .++..+..++...|++++|+..++++.+..+.....  .
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            45677778888888999999999998887654  2222   466778888888999999999999888765433221  1


Q ss_pred             hHHHHHHHHcc--------CCHHHHHHHHHhcCCCCCCccH-HHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHH
Q 042154           95 TARLIALYGKA--------AMFENARKVFDEMPGRNCEQTV-LSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVS  165 (377)
Q Consensus        95 ~~~l~~~~~~~--------~~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~  165 (377)
                      +..+..++...        |+.++|.+.|+.+....  |+. ..+..+.....    .      .... .        ..
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~----~------~~~~-~--------~~  168 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDY----L------RNRL-A--------GK  168 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHH----H------HHHH-H--------HH
Confidence            22344555443        67788888888877654  332 22222211100    0      0000 0        01


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          166 YNTIIKAFVDKGSLDSANTLLYEMEKKGI--RLDLITFNTLLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       166 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      ...+...+.+.|++++|...++...+...  +.....+..+..++...|++++|...++.+...
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            12455678888999999999888886532  223567788888899999999999888887764

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).

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

Probab=98.87  E-value=9.5e-07  Score=78.56  Aligned_cols=221  Identities=10%  Similarity=-0.057  Sum_probs=150.7

Q ss_pred             CCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHH
Q 042154          123 CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFN  202 (377)
Q Consensus       123 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  202 (377)
                      .+|-...-..+...+...|-...|..+|+++.          .|.-++.+|...|+..+|..+..+-.+.  +|++..|.
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erle----------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc  461 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLE----------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYC  461 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHH----------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHH
Confidence            34444444556667777788888888887663          3666777788888888888877777663  56777787


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042154          203 TLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEG  282 (377)
Q Consensus       203 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~  282 (377)
                      .+.+......-+++|.++++.....       .-..+.....+.++++++.+.|+.-.+.. +.-..+|-.+..+..+.+
T Consensus       462 ~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqle  533 (777)
T KOG1128|consen  462 LLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLE  533 (777)
T ss_pred             HhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHh
Confidence            7777777777777787777765432       11112222234677888888777766542 224456777777777778


Q ss_pred             CHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHh
Q 042154          283 NLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVEL  360 (377)
Q Consensus       283 ~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  360 (377)
                      ++..|.+.|. .....| +...||.+-.+|.+.|+-.+|...++++.+.+.. +...|...+....+.|.+++|.+.+.+
T Consensus       534 k~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~-~w~iWENymlvsvdvge~eda~~A~~r  612 (777)
T KOG1128|consen  534 KEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ-HWQIWENYMLVSVDVGEFEDAIKAYHR  612 (777)
T ss_pred             hhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC-CCeeeechhhhhhhcccHHHHHHHHHH
Confidence            8888888777 444455 4457888888888888888888888888877633 556666677777778888888887777


Q ss_pred             hccC
Q 042154          361 GKTN  364 (377)
Q Consensus       361 ~~~~  364 (377)
                      +...
T Consensus       613 ll~~  616 (777)
T KOG1128|consen  613 LLDL  616 (777)
T ss_pred             HHHh
Confidence            6543

>PF12854 PPR_1: PPR repeat

Probab=98.86  E-value=4.8e-09  Score=55.60  Aligned_cols=32  Identities=34%  Similarity=0.607  Sum_probs=19.2

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 042154          228 NVRPNVRSYNARLDGLAIEKQTKKALELVGEM  259 (377)
Q Consensus       228 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  259 (377)
                      |+.||..+|+++|.+|++.|++++|.++|++|
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            45566666666666666666666666666555

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.86  E-value=5e-05  Score=66.40  Aligned_cols=170  Identities=11%  Similarity=0.140  Sum_probs=101.5

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      |.+...+..=+-++.+.+++++|+.+.+.-..   ...+..-+-.-..+.-+.++.++|+..++-..+    .+..+...
T Consensus        43 pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~---~~~~~~~~fEKAYc~Yrlnk~Dealk~~~~~~~----~~~~ll~L  115 (652)
T KOG2376|consen   43 PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA---LLVINSFFFEKAYCEYRLNKLDEALKTLKGLDR----LDDKLLEL  115 (652)
T ss_pred             CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch---hhhcchhhHHHHHHHHHcccHHHHHHHHhcccc----cchHHHHH
Confidence            55667788888888999999999976654321   111111111223344467888888888873222    12234445


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCC---------------------------ccHHHHHHH---HHHHHhCCChhHHH
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCE---------------------------QTVLSFNAL---LGACVNSKKFDEVD  147 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~---------------------------~~~~~~~~l---~~~~~~~~~~~~a~  147 (377)
                      -...+.+.|++++|..+|+.+.+.+.+                           ....+|..+   ...++..|++.+|+
T Consensus       116 ~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~  195 (652)
T KOG2376|consen  116 RAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGKYNQAI  195 (652)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhcccHHHHH
Confidence            667778888999999988887544320                           001133333   33466788999999


Q ss_pred             HHHHhchh----hc--C------CCcCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 042154          148 GLFKDLPH----KL--G------IEPDLV-SYNTIIKAFVDKGSLDSANTLLYEMEKKGI  194 (377)
Q Consensus       148 ~~~~~~~~----~~--~------~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  194 (377)
                      ++++...+    ..  +      +..+.. .-..+.-.+...|+.++|.+++....+...
T Consensus       196 elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~  255 (652)
T KOG2376|consen  196 ELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNP  255 (652)
T ss_pred             HHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcC
Confidence            99887721    10  0      111111 122334456678999999998888877643

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.82  E-value=8.4e-07  Score=72.17  Aligned_cols=188  Identities=14%  Similarity=0.073  Sum_probs=129.2

Q ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-C-CHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH--HHH
Q 042154          161 PDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIR-L-DLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNV--RSY  236 (377)
Q Consensus       161 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  236 (377)
                      .....+......+...|+++.|...|+++...... | ....+..+..++...|++++|...++++.+.......  ..+
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            35567778888899999999999999998876322 1 1246677888999999999999999999876421111  134


Q ss_pred             HHHHHHHHhc--------CCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHH
Q 042154          237 NARLDGLAIE--------KQTKKALELVGEMRSKEINPDV-FTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLV  307 (377)
Q Consensus       237 ~~l~~~~~~~--------~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~  307 (377)
                      ..+..++...        |+.++|.+.++.+...  .|+. ..+..+.....    ....   .        ......+.
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~~~~---~--------~~~~~~~a  173 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----LRNR---L--------AGKELYVA  173 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----HHHH---H--------HHHHHHHH
Confidence            4555555544        6788899999998875  3433 22222211111    0000   0        01112456


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCC-C-ChhhHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          308 PFVCEKGDLDFAFNLCKRTFSERCL-V-DQAPLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       308 ~~~~~~g~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      ..+.+.|++++|+..++++.+.... | ....+..++.++.+.|++++|..+++.+....
T Consensus       174 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       174 RFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            6788999999999999999886431 2 34678889999999999999999998887654

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).

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.82  E-value=1.8e-06  Score=77.05  Aligned_cols=288  Identities=15%  Similarity=0.184  Sum_probs=162.6

Q ss_pred             HHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcC-----------------
Q 042154           26 SVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKD-----------------   88 (377)
Q Consensus        26 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------------   88 (377)
                      +-|+.|.+.|.+.+|.+....=.   .+..|......+..++.+..-+++|-.+|+++.....                 
T Consensus       620 aaiqlyika~~p~~a~~~a~n~~---~l~~de~il~~ia~alik~elydkagdlfeki~d~dkale~fkkgdaf~kaiel  696 (1636)
T KOG3616|consen  620 AAIQLYIKAGKPAKAARAALNDE---ELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIEL  696 (1636)
T ss_pred             HHHHHHHHcCCchHHHHhhcCHH---HhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHH
Confidence            45778888888888876543211   1344555555555555555555555555555433210                 


Q ss_pred             ----CCcc--chhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC
Q 042154           89 ----ISKE--GFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD  162 (377)
Q Consensus        89 ----~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~  162 (377)
                          .|..  .+-......+...|+++.|...|-+..         .....+.+....+.|.+|+.+++.+..+   +..
T Consensus       697 arfafp~evv~lee~wg~hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdq---k~~  764 (1636)
T KOG3616|consen  697 ARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQ---KTA  764 (1636)
T ss_pred             HHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhh---ccc
Confidence                0000  000111122222333333333332211         1112344455667788888888877543   333


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDG  242 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  242 (377)
                      +..|..+...|...|+++.|+++|-+.-         .++-.|..|.++|++.+|.++-.+...  .......|-+-..-
T Consensus       765 s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~~~--~e~t~~~yiakaed  833 (1636)
T KOG3616|consen  765 SGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEECHG--PEATISLYIAKAED  833 (1636)
T ss_pred             cccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHhcC--chhHHHHHHHhHHh
Confidence            4457777788888888888888885432         355677888888888888887766543  23444556666666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 042154          243 LAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNL  322 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  322 (377)
                      +-+.|++.+|.++|-.+.    .|+.     .+..|-+.|..+..+++.++..-..-..|...+..-|-..|+...|...
T Consensus       834 ldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~  904 (1636)
T KOG3616|consen  834 LDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKELEAEGDLKAAEEH  904 (1636)
T ss_pred             HHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHHHHhccChhHHHHH
Confidence            777788888877775443    3443     3556777777777777777222122334555666667777777777766


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 042154          323 CKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKEL  357 (377)
Q Consensus       323 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  357 (377)
                      |-+.-+         |.+-+..|..++-|++|.++
T Consensus       905 flea~d---------~kaavnmyk~s~lw~dayri  930 (1636)
T KOG3616|consen  905 FLEAGD---------FKAAVNMYKASELWEDAYRI  930 (1636)
T ss_pred             HHhhhh---------HHHHHHHhhhhhhHHHHHHH
Confidence            644322         33334444444555544443

>PF12854 PPR_1: PPR repeat

Probab=98.82  E-value=8.8e-09  Score=54.59  Aligned_cols=32  Identities=31%  Similarity=0.358  Sum_probs=18.1

Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHhh
Q 042154          330 RCLVDQAPLQLVVDRLAKELRVEEAKELVELG  361 (377)
Q Consensus       330 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  361 (377)
                      |+.||..||+.||.+|++.|++++|.++|++|
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            45555555555555555555555555555554

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

Probab=98.81  E-value=3.4e-05  Score=71.54  Aligned_cols=298  Identities=16%  Similarity=0.160  Sum_probs=139.9

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCC-CccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGR-FRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      .||......+.++...+-+.+-+++++++.-.+. +..+...-+.|+-...+ -+.....++.+++.....+       .
T Consensus       982 ~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLdnyDa~-------~ 1053 (1666)
T KOG0985|consen  982 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLDNYDAP-------D 1053 (1666)
T ss_pred             CChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhccCCch-------h
Confidence            4566667777888888888888888888763321 22223233333333333 3344555555554443211       2


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      +.......+-+++|..+|++.--     +..+.+.|+.   .-+..+.|.++-++..       .+..|..+..+-.+.|
T Consensus      1054 ia~iai~~~LyEEAF~ifkkf~~-----n~~A~~VLie---~i~~ldRA~efAe~~n-------~p~vWsqlakAQL~~~ 1118 (1666)
T KOG0985|consen 1054 IAEIAIENQLYEEAFAIFKKFDM-----NVSAIQVLIE---NIGSLDRAYEFAERCN-------EPAVWSQLAKAQLQGG 1118 (1666)
T ss_pred             HHHHHhhhhHHHHHHHHHHHhcc-----cHHHHHHHHH---HhhhHHHHHHHHHhhC-------ChHHHHHHHHHHHhcC
Confidence            33444455556666666655422     2222232322   1223333433333321       2233444444444444


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC--------------------------C
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVR--------------------------P  231 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------------------------~  231 (377)
                      .+.+|++-|-+.      .|+..|..+++...+.|.+++-.+.+....++.-.                          |
T Consensus      1119 ~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~eLi~AyAkt~rl~elE~fi~gp 1192 (1666)
T KOG0985|consen 1119 LVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDSELIFAYAKTNRLTELEEFIAGP 1192 (1666)
T ss_pred             chHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchHHHHHHHHHhchHHHHHHHhcCC
Confidence            444444433222      13344444555555555555544444444433322                          3


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 042154          232 NVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVC  311 (377)
Q Consensus       232 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~  311 (377)
                      +......+.+-|...|.++.|.-+|..         ...|..|...+...|++..|...-++.   .+..+|..+-.+|.
T Consensus      1193 N~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AVD~aRKA---ns~ktWK~VcfaCv 1260 (1666)
T KOG0985|consen 1193 NVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAVDAARKA---NSTKTWKEVCFACV 1260 (1666)
T ss_pred             CchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHHHHhhhc---cchhHHHHHHHHHh
Confidence            444444444444444444444433332         223444444555555555554443311   12345555555555


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          312 EKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       312 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      ..+.+.-|     +|...++.....-...++..|...|-+++...+++...
T Consensus      1261 d~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1261 DKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             chhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence            54444332     22333333334445566666777777777666666543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.80  E-value=1.2e-05  Score=72.86  Aligned_cols=314  Identities=13%  Similarity=0.101  Sum_probs=153.0

Q ss_pred             CchHHHHHH--HHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhc--------CC
Q 042154           20 GPKFIGSVI--RGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYK--------DI   89 (377)
Q Consensus        20 ~~~~~~~li--~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~   89 (377)
                      |+.+-..++  +.|...|+.+.|.+-.+-++...       .|..+.+.|.+..+.+-|.-.+-.|....        ..
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~IkS~~-------vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q  797 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIKSDS-------VWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQ  797 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHhhhH-------HHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHh
Confidence            444444444  23556666666666666655432       46666666666666665555544443210        01


Q ss_pred             CccchhHHHHHHHHccCCHHHHHHHHHhcCCCCC-----------------------CccHHHHHHHHHHHHhCCChhHH
Q 042154           90 SKEGFTARLIALYGKAAMFENARKVFDEMPGRNC-----------------------EQTVLSFNALLGACVNSKKFDEV  146 (377)
Q Consensus        90 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----------------------~~~~~~~~~l~~~~~~~~~~~~a  146 (377)
                      .+...-....-.....|.+++|+.+|.+-+..++                       ..=..+|.....-+-..+|.+.|
T Consensus       798 ~~~e~eakvAvLAieLgMlEeA~~lYr~ckR~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~A  877 (1416)
T KOG3617|consen  798 NGEEDEAKVAVLAIELGMLEEALILYRQCKRYDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAA  877 (1416)
T ss_pred             CCcchhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHH
Confidence            1111111233333444555555555544332210                       00112333334444445555555


Q ss_pred             HHHHHhchhh------------------cCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 042154          147 DGLFKDLPHK------------------LGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGF  208 (377)
Q Consensus       147 ~~~~~~~~~~------------------~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  208 (377)
                      ++.|++....                  -.-..|...|......+-..|+.+.|+.+|..+..         |.+++...
T Consensus       878 leyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~  948 (1416)
T KOG3617|consen  878 LEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIK  948 (1416)
T ss_pred             HHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeE
Confidence            5555442100                  00011333344444444445555555555544432         33344444


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--C----CCCHHHHHHHHHHH--Hh
Q 042154          209 YSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKE--I----NPDVFTFYALIKGF--VN  280 (377)
Q Consensus       209 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g--~----~p~~~~~~~l~~~~--~~  280 (377)
                      |-.|+.++|-++-++-      -|....-.+.+.|...|++.+|...|.+...-.  +    +.|.  -..|...+  ..
T Consensus       949 C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~--~d~L~nlal~s~ 1020 (1416)
T KOG3617|consen  949 CIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAIRLCKENDM--KDRLANLALMSG 1020 (1416)
T ss_pred             eeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCH--HHHHHHHHhhcC
Confidence            5555555555544332      245556667888888888888888887764310  0    0010  01111122  22


Q ss_pred             cCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH--------HHh--cCCCCChhhHHHHHHHHHhcCC
Q 042154          281 EGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKR--------TFS--ERCLVDQAPLQLVVDRLAKELR  350 (377)
Q Consensus       281 ~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~--------~~~--~~~~~~~~~~~~l~~~~~~~g~  350 (377)
                      ..+.-.|-++|++.|...+     ..+..|-+.|.+.+|+++--+        ++.  .....|+...+.-.+-++...+
T Consensus      1021 ~~d~v~aArYyEe~g~~~~-----~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~q 1095 (1416)
T KOG3617|consen 1021 GSDLVSAARYYEELGGYAH-----KAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQ 1095 (1416)
T ss_pred             chhHHHHHHHHHHcchhhh-----HHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHH
Confidence            2344455566665543222     223356677777777665322        112  2334567777777777888888


Q ss_pred             HHHHHHHHHhhc
Q 042154          351 VEEAKELVELGK  362 (377)
Q Consensus       351 ~~~A~~~~~~~~  362 (377)
                      +++|..++-.+.
T Consensus      1096 yekAV~lL~~ar 1107 (1416)
T KOG3617|consen 1096 YEKAVNLLCLAR 1107 (1416)
T ss_pred             HHHHHHHHHHHH
Confidence            888887765543

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

Probab=98.80  E-value=5.3e-07  Score=80.11  Aligned_cols=224  Identities=10%  Similarity=0.006  Sum_probs=150.2

Q ss_pred             CCCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh
Q 042154           16 ATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT   95 (377)
Q Consensus        16 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   95 (377)
                      ..||-...-..+...+...|-...|+.+|++..          .|..+|.+|+..|+..+|..+..+-.+  .+|+..+|
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erle----------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~ly  460 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERLE----------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLY  460 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhHH----------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhH
Confidence            445556666677777788888888888887653          466777888888888888887776665  35666777


Q ss_pred             HHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHH
Q 042154           96 ARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVD  175 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  175 (377)
                      ..+.+......-+++|.++++.....       +-..+......+++++++.+.|+.-.+..  +.-..+|-...-+..+
T Consensus       461 c~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n--plq~~~wf~~G~~ALq  531 (777)
T KOG1128|consen  461 CLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN--PLQLGTWFGLGCAALQ  531 (777)
T ss_pred             HHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC--ccchhHHHhccHHHHH
Confidence            66777766666677777777664432       11222222334677777777776554321  2234467777777777


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          176 KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALEL  255 (377)
Q Consensus       176 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  255 (377)
                      .++++.|.+.|.......+ -+...||.+-.+|.+.++-.+|...+.+..+.+ .-+...|...+....+.|.+++|++.
T Consensus       532 lek~q~av~aF~rcvtL~P-d~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A  609 (777)
T KOG1128|consen  532 LEKEQAAVKAFHRCVTLEP-DNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKA  609 (777)
T ss_pred             HhhhHHHHHHHHHHhhcCC-CchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHH
Confidence            7788887777777766532 255677888888888888888888887777766 34455666666667777888887777


Q ss_pred             HHHHHhC
Q 042154          256 VGEMRSK  262 (377)
Q Consensus       256 ~~~~~~~  262 (377)
                      +.++...
T Consensus       610 ~~rll~~  616 (777)
T KOG1128|consen  610 YHRLLDL  616 (777)
T ss_pred             HHHHHHh
Confidence            7776543

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

Probab=98.79  E-value=5.6e-06  Score=64.97  Aligned_cols=117  Identities=17%  Similarity=0.117  Sum_probs=58.9

Q ss_pred             HHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc----
Q 042154          135 GACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYS----  210 (377)
Q Consensus       135 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  210 (377)
                      ..|+..+++++|++......       +......-...+.+..+.+-|.+.+++|.+-   .+..|.+.|..++.+    
T Consensus       116 ~i~~~~~~~deAl~~~~~~~-------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~g  185 (299)
T KOG3081|consen  116 IIYMHDGDFDEALKALHLGE-------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATG  185 (299)
T ss_pred             HHhhcCCChHHHHHHHhccc-------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhcc
Confidence            34556666666665554421       1122222223344555556666666666543   133444444444332    


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          211 NGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       211 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      .+.+..|.-+|++|.++ .+|+..+.+-...++...|++++|..++++.+..
T Consensus       186 gek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  186 GEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK  236 (299)
T ss_pred             chhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            23455566666666543 2355555555555555566666666666665554

>PLN02789 farnesyltranstransferase

Probab=98.78  E-value=6.4e-06  Score=69.27  Aligned_cols=215  Identities=9%  Similarity=-0.021  Sum_probs=118.1

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcC-ChHHHHHHHHHhhhhcCCCccchhHHHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAK-RFRWIEEILEHQKQYKDISKEGFTARLIAL  101 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  101 (377)
                      ++..+-..+...++.++|+..+.++.+..  |-+..+|+....++...| ++++++..++++.+..+.....++ .....
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~ln--P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~-~R~~~  115 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLN--PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWH-HRRWL  115 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhH-HHHHH
Confidence            34444455555667777777777777654  444555665555555555 467777777777665444333332 23333


Q ss_pred             HHccCC--HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHc---
Q 042154          102 YGKAAM--FENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDK---  176 (377)
Q Consensus       102 ~~~~~~--~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---  176 (377)
                      +.+.|+  .+++..+++++.+.. +-+..+|+...-.+...|+++++++.++++++. + .-+..+|+.....+.+.   
T Consensus       116 l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~-d-~~N~sAW~~R~~vl~~~~~l  192 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE-D-VRNNSAWNQRYFVITRSPLL  192 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-C-CCchhHHHHHHHHHHhcccc
Confidence            334444  255666666666654 345666776666666777777777777777653 1 22344555544444333   


Q ss_pred             CCH----HHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 042154          177 GSL----DSANTLLYEMEKKGIRLDLITFNTLLLGFYSN----GRFADAEKIWETMVNMNVRPNVRSYNARLDGLAI  245 (377)
Q Consensus       177 ~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  245 (377)
                      |..    ++.++...++....+ -|...|+-+...+...    ++..+|.+.+.+....+ +.+......++..|+.
T Consensus       193 ~~~~~~~e~el~y~~~aI~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        193 GGLEAMRDSELKYTIDAILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             ccccccHHHHHHHHHHHHHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence            212    345555555554432 2555666565555552    23344666666555443 2344555556666554

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

Probab=98.78  E-value=5.9e-06  Score=77.53  Aligned_cols=148  Identities=9%  Similarity=0.039  Sum_probs=71.5

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHH
Q 042154           56 NTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLG  135 (377)
Q Consensus        56 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  135 (377)
                      +...+..|+..+...+++++|.++.+......+..-..+| .+...+...++..++..+                 .++.
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy-~~G~l~~q~~~~~~~~lv-----------------~~l~   91 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALY-ISGILSLSRRPLNDSNLL-----------------NLID   91 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHH-HHHHHHHhhcchhhhhhh-----------------hhhh
Confidence            4455566666666666666666666654444322222222 233344444543333332                 1222


Q ss_pred             HHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHH
Q 042154          136 ACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFA  215 (377)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  215 (377)
                      ......++.-+..++..+..   ..-+..++..+..+|-+.|+.+++..+++++.+.. +-|..+.|.+...|... +++
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~---~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILL---YGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             hcccccchhHHHHHHHHHHh---hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHH
Confidence            23333333333333333321   11223345555555666666666666666666554 22555566666666555 666


Q ss_pred             HHHHHHHHHHh
Q 042154          216 DAEKIWETMVN  226 (377)
Q Consensus       216 ~a~~~~~~~~~  226 (377)
                      +|.+++.+...
T Consensus       167 KA~~m~~KAV~  177 (906)
T PRK14720        167 KAITYLKKAIY  177 (906)
T ss_pred             HHHHHHHHHHH
Confidence            66655555544

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

Probab=98.77  E-value=8.3e-06  Score=76.56  Aligned_cols=173  Identities=13%  Similarity=0.171  Sum_probs=118.2

Q ss_pred             CCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhH
Q 042154           17 TATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTA   96 (377)
Q Consensus        17 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   96 (377)
                      .|.+...+..|+..+...+++++|.++.+...+..  |-....|-.+...+.+.++.+.+..+                 
T Consensus        27 ~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~--P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------   87 (906)
T PRK14720         27 SLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEH--KKSISALYISGILSLSRRPLNDSNLL-----------------   87 (906)
T ss_pred             CcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CcceehHHHHHHHHHhhcchhhhhhh-----------------
Confidence            34568899999999999999999999999777654  44445555555566777775554444                 


Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHc
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDK  176 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  176 (377)
                      .++.......++.....+...|...+  -+..++..+..+|-+.|+.++|..+|+++.+- . +-|+.+.|.+...|...
T Consensus        88 ~~l~~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~-D-~~n~~aLNn~AY~~ae~  163 (906)
T PRK14720         88 NLIDSFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKA-D-RDNPEIVKKLATSYEEE  163 (906)
T ss_pred             hhhhhcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhc-C-cccHHHHHHHHHHHHHh
Confidence            24444444445544445555555543  44557777888888888888888888888754 2 34566777777777777


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 042154          177 GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  228 (377)
                       ++++|.+++.++...               +...+++.++..+|.++....
T Consensus       164 -dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~  199 (906)
T PRK14720        164 -DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYN  199 (906)
T ss_pred             -hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcC
Confidence             888888887777654               445556667777777766653

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

Probab=98.76  E-value=2.9e-06  Score=66.47  Aligned_cols=157  Identities=12%  Similarity=0.063  Sum_probs=79.5

Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      +...+.-.|+-+....+........ +.|....+..+....+.|++..|+..+++...  .-++|..+|+.+.-+|.+.|
T Consensus        72 ~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          72 LATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHHcc
Confidence            4444444555555555444433221 23344444455555555555555555555532  33445555555555555555


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      +.++|..-|.+..+.... +...++.+.-.+.-.|+++.|..++......+. -|...-..+.......|+++.|.++..
T Consensus       149 r~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         149 RFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            555555555555554222 344455555555555555555555555554431 244444445555555555555555544


Q ss_pred             HH
Q 042154          258 EM  259 (377)
Q Consensus       258 ~~  259 (377)
                      .-
T Consensus       227 ~e  228 (257)
T COG5010         227 QE  228 (257)
T ss_pred             cc
Confidence            43

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.71  E-value=9.2e-06  Score=72.74  Aligned_cols=169  Identities=18%  Similarity=0.213  Sum_probs=105.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCC
Q 042154           63 TVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKK  142 (377)
Q Consensus        63 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  142 (377)
                      .+.+....++|.+|+.+++.+...+  ....+|..+...|+..|+++.|+++|.+.-         .++..|.+|.++|+
T Consensus       738 aieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhcccc
Confidence            3445556777888888888776653  445677778888889999999988887643         34456778889999


Q ss_pred             hhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHH
Q 042154          143 FDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWE  222 (377)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  222 (377)
                      |+.|.++-.+..   |.......|-.-..-+-+.|++.+|++++-.+.    .|+     ..|..|-+.|..+..+++.+
T Consensus       807 w~da~kla~e~~---~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~  874 (1636)
T KOG3616|consen  807 WEDAFKLAEECH---GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVE  874 (1636)
T ss_pred             HHHHHHHHHHhc---CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHH
Confidence            998888877764   444455566666666667777777777664332    122     24556666666666666554


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          223 TMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       223 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      +-....   -..|...+..-+...|+...|..-|-
T Consensus       875 k~h~d~---l~dt~~~f~~e~e~~g~lkaae~~fl  906 (1636)
T KOG3616|consen  875 KHHGDH---LHDTHKHFAKELEAEGDLKAAEEHFL  906 (1636)
T ss_pred             HhChhh---hhHHHHHHHHHHHhccChhHHHHHHH
Confidence            432111   11233334444445555555554443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.70  E-value=5.8e-06  Score=74.81  Aligned_cols=242  Identities=12%  Similarity=0.108  Sum_probs=164.9

Q ss_pred             cchhhHHHHHH--HHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCC-CC--------
Q 042154           55 TNTGIYTGTVQ--RLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGR-NC--------  123 (377)
Q Consensus        55 ~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~--------  123 (377)
                      .|..|-..+++  .|...|+.+.|.+-.+-++...      +|..+.++|.+..+++-|.-.+..|... |.        
T Consensus       724 Cd~~TRkaml~FSfyvtiG~MD~AfksI~~IkS~~------vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q  797 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTIGSMDAAFKSIQFIKSDS------VWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQ  797 (1416)
T ss_pred             cCHHHHHhhhceeEEEEeccHHHHHHHHHHHhhhH------HHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHh
Confidence            45556555554  4566899999988887776654      2556888888888877777666666432 10        


Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHH
Q 042154          124 EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNT  203 (377)
Q Consensus       124 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  203 (377)
                      .|+ ..-..+.-.....|..++|..+|.+..+          |..+=+.|...|.|++|.++-+.-..-.   =..||..
T Consensus       798 ~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR----------~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~  863 (1416)
T KOG3617|consen  798 NGE-EDEAKVAVLAIELGMLEEALILYRQCKR----------YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYN  863 (1416)
T ss_pred             CCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH----------HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHH
Confidence            121 2222233345678999999999999854          4555567778899999998875433321   2345666


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHH----------hCC---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 042154          204 LLLGFYSNGRFADAEKIWETMV----------NMN---------VRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEI  264 (377)
Q Consensus       204 l~~~~~~~~~~~~a~~~~~~~~----------~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~  264 (377)
                      ....+-..+|.+.|++.|++..          ...         -..|...|.-....+...|+.+.|+.+|....+   
T Consensus       864 yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---  940 (1416)
T KOG3617|consen  864 YAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---  940 (1416)
T ss_pred             HHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---
Confidence            6777777788888888776432          111         113445555555666677888888888877653   


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          265 NPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       265 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                            |-+++...|-+|+.++|-++-++.|   |......|.+.|-..|++.+|..+|.++..
T Consensus       941 ------~fs~VrI~C~qGk~~kAa~iA~esg---d~AAcYhlaR~YEn~g~v~~Av~FfTrAqa  995 (1416)
T KOG3617|consen  941 ------YFSMVRIKCIQGKTDKAARIAEESG---DKAACYHLARMYENDGDVVKAVKFFTRAQA  995 (1416)
T ss_pred             ------hhhheeeEeeccCchHHHHHHHhcc---cHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence                  5567777888999999999988665   455566788899999999999988877653

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

Probab=98.69  E-value=5.2e-06  Score=64.95  Aligned_cols=119  Identities=8%  Similarity=0.072  Sum_probs=61.1

Q ss_pred             CCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHH-HcCCC--HHH
Q 042154          140 SKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGF-YSNGR--FAD  216 (377)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~  216 (377)
                      .++.+++...+++..+.  -+.+...|..+...|...|++++|...|++..+.... +...+..+..++ ...|+  .++
T Consensus        52 ~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         52 QQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             chhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHH
Confidence            33444444444444332  1334445555555555566666666666555554322 444555555542 44444  355


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          217 AEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       217 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      |.+++++..+.+ +-+...+..+...+...|++++|+..|+++.+.
T Consensus       129 A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        129 TREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            666666555544 224455555555555566666666666665554

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

Probab=98.69  E-value=5.8e-06  Score=64.72  Aligned_cols=154  Identities=9%  Similarity=0.044  Sum_probs=113.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 042154          170 IKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQT  249 (377)
Q Consensus       170 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  249 (377)
                      +-.|...|+++.+....+.+...    .        ..+...++.+++...++...+.+ +.|...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~----~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADP----L--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCc----c--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCH
Confidence            45678899988876555332211    1        01223667788888888887765 56788899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCC--HHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHH
Q 042154          250 KKALELVGEMRSKEINPDVFTFYALIKGF-VNEGN--LEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCK  324 (377)
Q Consensus       250 ~~a~~~~~~~~~~g~~p~~~~~~~l~~~~-~~~~~--~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~  324 (377)
                      ++|...|++..+.. +.+...+..+..++ ...|+  .++|.++++ .....| +...+..+...+.+.|++++|+..|+
T Consensus        90 ~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         90 DNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999998863 33567777777764 66676  589999999 444444 66778888889999999999999999


Q ss_pred             HHHhcCCCCChhhH
Q 042154          325 RTFSERCLVDQAPL  338 (377)
Q Consensus       325 ~~~~~~~~~~~~~~  338 (377)
                      ++.+... |+..-+
T Consensus       169 ~aL~l~~-~~~~r~  181 (198)
T PRK10370        169 KVLDLNS-PRVNRT  181 (198)
T ss_pred             HHHhhCC-CCccHH
Confidence            9988643 344433

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

Probab=98.67  E-value=7.5e-05  Score=58.88  Aligned_cols=247  Identities=12%  Similarity=0.063  Sum_probs=118.3

Q ss_pred             HHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChh
Q 042154           65 QRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFD  144 (377)
Q Consensus        65 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  144 (377)
                      +-+--.|++..++..-......+..+...+|  +.++|...|.......   +++... .|.......+......-++.+
T Consensus        16 Rn~fY~Gnyq~~ine~~~~~~~~~~~e~d~y--~~raylAlg~~~~~~~---eI~~~~-~~~lqAvr~~a~~~~~e~~~~   89 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKFSSSKTDVELDVY--MYRAYLALGQYQIVIS---EIKEGK-ATPLQAVRLLAEYLELESNKK   89 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhhccccchhHHHHH--HHHHHHHccccccccc---cccccc-CChHHHHHHHHHHhhCcchhH
Confidence            3344456666666555544433222222333  5556666665443332   222221 233333333333333333333


Q ss_pred             HHH-HHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHH
Q 042154          145 EVD-GLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWET  223 (377)
Q Consensus       145 ~a~-~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  223 (377)
                      .-+ ++.+.+... ....+......-...|+..+++++|++......      +......=+..+.+..+.+-|.+.+++
T Consensus        90 ~~~~~l~E~~a~~-~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~  162 (299)
T KOG3081|consen   90 SILASLYELVADS-TDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKK  162 (299)
T ss_pred             HHHHHHHHHHHhh-ccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            322 223333222 222332333333455666667777766665521      222222223344555566677777777


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCC
Q 042154          224 MVNMNVRPNVRSYNARLDGLAI----EKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCG  297 (377)
Q Consensus       224 ~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~  297 (377)
                      |.+-.   +..+.+.|..++.+    .+.+..|.-+|++|-+. ..|++.+.+....++...|++++|..+++  -....
T Consensus       163 mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~  238 (299)
T KOG3081|consen  163 MQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA  238 (299)
T ss_pred             HHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC
Confidence            76642   44555555555543    24566667777776654 45666666666666666777777777666  12222


Q ss_pred             CCHHHHHHHHHHHHhcCCh-HHHHHHHHHHHh
Q 042154          298 MNKAIFKLLVPFVCEKGDL-DFAFNLCKRTFS  328 (377)
Q Consensus       298 ~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~  328 (377)
                      .++.+...++.+-...|.. +...+.+.++..
T Consensus       239 ~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  239 KDPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             CCHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            3444444444433344433 333344444444

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.67  E-value=0.00019  Score=62.17  Aligned_cols=305  Identities=11%  Similarity=0.062  Sum_probs=198.3

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      |++-..|..-..+|...|++++|++=-.+.++..  |.-+..|+....++...|++++|+..|.+-.+.. +.+..+++-
T Consensus        33 p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~--p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~GL~~d-~~n~~L~~g  109 (539)
T KOG0548|consen   33 PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLN--PDWAKGYSRKGAALFGLGDYEEAILAYSEGLEKD-PSNKQLKTG  109 (539)
T ss_pred             CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcC--CchhhHHHHhHHHHHhcccHHHHHHHHHHHhhcC-CchHHHHHh
Confidence            3466677777788888888888887766666543  3346678888888888888888888887766542 233333333


Q ss_pred             HHHHHH---------------------------------------------------ccCCHHHHHHHHHhc-----CCC
Q 042154           98 LIALYG---------------------------------------------------KAAMFENARKVFDEM-----PGR  121 (377)
Q Consensus        98 l~~~~~---------------------------------------------------~~~~~~~A~~~~~~~-----~~~  121 (377)
                      +..++.                                                   ...++..|...+...     ...
T Consensus       110 l~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d~r~m~a~~~l~~~~~~~~~~~  189 (539)
T KOG0548|consen  110 LAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLNDPRLMKADGQLKGVDELLFYAS  189 (539)
T ss_pred             HHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccccHHHHHHHHHHhcCcccccccc
Confidence            333331                                                   100111122111110     000


Q ss_pred             -------CCCc------------c----------HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHH
Q 042154          122 -------NCEQ------------T----------VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKA  172 (377)
Q Consensus       122 -------~~~~------------~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  172 (377)
                             +..|            |          ..-...+.++..+..+++.|++-+......   .-+..-++....+
T Consensus       190 ~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el---~~~it~~~n~aA~  266 (539)
T KOG0548|consen  190 GIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHYAKALEL---ATDITYLNNIAAV  266 (539)
T ss_pred             ccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhH---hhhhHHHHHHHHH
Confidence                   0011            0          112445667777788888888888887653   3344456666678


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHhHHH-------HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHH--------
Q 042154          173 FVDKGSLDSANTLLYEMEKKGIRLDLITFNT-------LLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYN--------  237 (377)
Q Consensus       173 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--------  237 (377)
                      +...|.+..+...-....+.|.. ...-|+.       +..+|.+.++++.++..|.+.......|+...-.        
T Consensus       267 ~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k  345 (539)
T KOG0548|consen  267 YLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALK  345 (539)
T ss_pred             HHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHH
Confidence            88888888877777776665533 2222332       3345666788999999998877654444433211        


Q ss_pred             -----------------HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCC
Q 042154          238 -----------------ARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMN  299 (377)
Q Consensus       238 -----------------~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~  299 (377)
                                       .-...+.+.|++..|+..|.+++... +-|...|.....+|.+.|.+..|++-.+ .....|+
T Consensus       346 ~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~  424 (539)
T KOG0548|consen  346 EAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPN  424 (539)
T ss_pred             HHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCch
Confidence                             11344678899999999999999875 4567899999999999999999998877 3333444


Q ss_pred             -HHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          300 -KAIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       300 -~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                       ...|.-=..++....++++|.+.|++.++.+
T Consensus       425 ~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  425 FIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence             3455555667777789999999999998864

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

Probab=98.67  E-value=9.9e-06  Score=63.58  Aligned_cols=157  Identities=15%  Similarity=0.072  Sum_probs=110.4

Q ss_pred             HHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc
Q 042154          131 NALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYS  210 (377)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  210 (377)
                      ..+-..+...|+-+....+..+...  ...-|.......+....+.|++..|...+.+..... ++|...|+.+.-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHH
Confidence            4455666777777777766666432  223344455567777788888888888888877653 4577788888888888


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          211 NGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRW  290 (377)
Q Consensus       211 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~  290 (377)
                      .|+++.|..-|.+..+... -+...++.+.-.+.-.|+.+.|..++......+. -|...-..+..+....|++++|..+
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~i  224 (257)
T COG5010         147 LGRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDI  224 (257)
T ss_pred             ccChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhh
Confidence            8888888888887776542 3456677777777778888888888887776532 2555666677777778888888887


Q ss_pred             HH
Q 042154          291 YN  292 (377)
Q Consensus       291 ~~  292 (377)
                      ..
T Consensus       225 ~~  226 (257)
T COG5010         225 AV  226 (257)
T ss_pred             cc
Confidence            76

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.64  E-value=2.2e-05  Score=72.95  Aligned_cols=201  Identities=10%  Similarity=0.040  Sum_probs=143.5

Q ss_pred             hhhHHHHHHHHHhcCChHHHHH-HHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHH
Q 042154           57 TGIYTGTVQRLANAKRFRWIEE-ILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLG  135 (377)
Q Consensus        57 ~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  135 (377)
                      +.....+=.+++..|..++|-+ ++.++.            .++....+.....+++.-...... .++.++.++..|..
T Consensus        28 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~La~   94 (694)
T PRK15179         28 PTILDLLEAALAEPGESEEAGRELLQQAR------------QVLERHAAVHKPAAALPELLDYVR-RYPHTELFQVLVAR   94 (694)
T ss_pred             cHHHhHHHHHhcCcccchhHHHHHHHHHH------------HHHHHhhhhcchHhhHHHHHHHHH-hccccHHHHHHHHH
Confidence            3333334445556677776644 333222            233333333333333332222222 23456889999999


Q ss_pred             HHHhCCChhHHHHHHHhchhhcCCCcCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCH
Q 042154          136 ACVNSKKFDEVDGLFKDLPHKLGIEPDLV-SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRF  214 (377)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  214 (377)
                      ...+.|..++|..+++...+   ..|+.. ....+...+.+.+++++|+...++....... +......+..++.+.|++
T Consensus        95 i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~a~~l~~~g~~  170 (694)
T PRK15179         95 ALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLEAKSWDEIGQS  170 (694)
T ss_pred             HHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHhcch
Confidence            99999999999999999874   467654 6777888999999999999999999987543 677788888899999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 042154          215 ADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIK  276 (377)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~  276 (377)
                      ++|..+|+++...+ +-+..++..+..++-..|+.++|...|+...+. ..|....|+.++.
T Consensus       171 ~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~~  230 (694)
T PRK15179        171 EQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTRRLV  230 (694)
T ss_pred             HHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHHH
Confidence            99999999999854 344788888999999999999999999999876 2345566665543

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

Probab=98.63  E-value=0.00021  Score=61.37  Aligned_cols=200  Identities=14%  Similarity=0.051  Sum_probs=131.5

Q ss_pred             CHHHHHHHHHhcCCCC--CCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHH
Q 042154          107 MFENARKVFDEMPGRN--CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANT  184 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  184 (377)
                      ++.++...-+.+...+  -.|+...+...+.+......-..+..++.+..+.   .-...-|..-+ .+...|++++|+.
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~---~~~aa~YG~A~-~~~~~~~~d~A~~  327 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKR---GGLAAQYGRAL-QTYLAGQYDEALK  327 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCc---cchHHHHHHHH-HHHHhcccchHHH
Confidence            4555555556665432  1355556666666554443333333333222110   11222333333 4557788888888


Q ss_pred             HHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 042154          185 LLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPN-VRSYNARLDGLAIEKQTKKALELVGEMRSKE  263 (377)
Q Consensus       185 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g  263 (377)
                      .++.+.+.. +-|........+.+...++.++|.+.++++....  |+ ....-.+..++.+.|++.+|+.++++.... 
T Consensus       328 ~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~-  403 (484)
T COG4783         328 LLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQALLKGGKPQEAIRILNRYLFN-  403 (484)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHHHHHhcCChHHHHHHHHHHhhc-
Confidence            888887763 3466666777778888888888888888888764  44 455666778888888888888888888776 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          264 INPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       264 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      .+-|+..|..|.++|...|+..++...               ....|...|+++.|...+....+.
T Consensus       404 ~p~dp~~w~~LAqay~~~g~~~~a~~A---------------~AE~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         404 DPEDPNGWDLLAQAYAELGNRAEALLA---------------RAEGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             CCCCchHHHHHHHHHHHhCchHHHHHH---------------HHHHHHhCCCHHHHHHHHHHHHHh
Confidence            355778888888888888887666544               345567788888888888887765

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

Probab=98.61  E-value=7.6e-05  Score=63.92  Aligned_cols=207  Identities=13%  Similarity=0.071  Sum_probs=135.6

Q ss_pred             ChHHHHHHHHHhhhhcCC--CccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHH
Q 042154           72 RFRWIEEILEHQKQYKDI--SKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGL  149 (377)
Q Consensus        72 ~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  149 (377)
                      +...+....+.+...+..  ++..+....+........-..+..++.+..+.+   ......-..-.+...|++++|+..
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~---~~aa~YG~A~~~~~~~~~d~A~~~  328 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKRG---GLAAQYGRALQTYLAGQYDEALKL  328 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCcc---chHHHHHHHHHHHHhcccchHHHH
Confidence            444455455555443322  233334444443333333233333333333311   233333334446678999999999


Q ss_pred             HHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCC
Q 042154          150 FKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNV  229 (377)
Q Consensus       150 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  229 (377)
                      ++.+...  .+-|+..+......+.+.++.++|.+.++++...... .....-.+.++|.+.|++.+|+.+++...... 
T Consensus       329 l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~-~~~l~~~~a~all~~g~~~eai~~L~~~~~~~-  404 (484)
T COG4783         329 LQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPN-SPLLQLNLAQALLKGGKPQEAIRILNRYLFND-  404 (484)
T ss_pred             HHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-ccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC-
Confidence            9998764  2334455566678999999999999999999987332 25666778899999999999999999988765 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHH
Q 042154          230 RPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIF  303 (377)
Q Consensus       230 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~  303 (377)
                      +-|...|..|..+|...|+..++..-..+                  .+...|+++.|...+.  ....+++..+|
T Consensus       405 p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~~~~~~~~~~  462 (484)
T COG4783         405 PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQQVKLGFPDW  462 (484)
T ss_pred             CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHHhccCCcHHH
Confidence            56889999999999999998887665544                  4556788888888777  33344444443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.61  E-value=0.00047  Score=63.51  Aligned_cols=188  Identities=12%  Similarity=0.099  Sum_probs=106.7

Q ss_pred             hhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHH-
Q 042154           32 YKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFEN-  110 (377)
Q Consensus        32 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-  110 (377)
                      .+.|+.++|..+++.....+  +.|..|...+-..|.+.++.++|..+|+++.+..+  +......+..+|.+.+++.+ 
T Consensus        54 ~r~gk~~ea~~~Le~~~~~~--~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~P--~eell~~lFmayvR~~~yk~q  129 (932)
T KOG2053|consen   54 FRLGKGDEALKLLEALYGLK--GTDDLTLQFLQNVYRDLGKLDEAVHLYERANQKYP--SEELLYHLFMAYVREKSYKKQ  129 (932)
T ss_pred             HHhcCchhHHHHHhhhccCC--CCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhhCC--cHHHHHHHHHHHHHHHHHHHH
Confidence            45677777776666554443  23666667777777777777777777777665432  23333356666666665544 


Q ss_pred             ---HHHHHHhcCCCCCCccHHHHHHHHHHHHhCC-C---------hhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154          111 ---ARKVFDEMPGRNCEQTVLSFNALLGACVNSK-K---------FDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus       111 ---A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~---------~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                         |.+++....+     ....+=.+++...+.. .         ..-|.+.++.+.++.|..-+..-...-...+...|
T Consensus       130 Qkaa~~LyK~~pk-----~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~  204 (932)
T KOG2053|consen  130 QKAALQLYKNFPK-----RAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQG  204 (932)
T ss_pred             HHHHHHHHHhCCc-----ccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcc
Confidence               4444443322     2333323333333221 1         12244444555444331112222222233445678


Q ss_pred             CHHHHHHHHH-HHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 042154          178 SLDSANTLLY-EMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       178 ~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  228 (377)
                      ++++|.+++. ...+.-...+...-+.-+..+...+++.+..++-.++...|
T Consensus       205 k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  205 KYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             cHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            8899998884 33343344455556677888888999999999999999887

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.61  E-value=5.9e-05  Score=61.91  Aligned_cols=299  Identities=12%  Similarity=0.060  Sum_probs=167.1

Q ss_pred             HHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHH-HHHHHhcCChHHHHHHHHHhhhhcCCCccchh-HHHHHHHH
Q 042154           26 SVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGT-VQRLANAKRFRWIEEILEHQKQYKDISKEGFT-ARLIALYG  103 (377)
Q Consensus        26 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~  103 (377)
                      +|.+.---.-.+++|+++|......+   |+-...+.- .-+|.+..-++-+.+++.-..+.-  |+..+. |..+....
T Consensus       156 SLAsvhYmR~HYQeAIdvYkrvL~dn---~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~--pdStiA~NLkacn~f  230 (557)
T KOG3785|consen  156 SLASVHYMRMHYQEAIDVYKRVLQDN---PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQF--PDSTIAKNLKACNLF  230 (557)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhcC---hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhC--CCcHHHHHHHHHHHh
Confidence            44444444556899999999887543   344444433 334556666777777776655542  232222 11111111


Q ss_pred             c--cCCHHHHH--HHHHh----------cCCCC------------CCcc-----HHHHHHHHHHHHhCCChhHHHHHHHh
Q 042154          104 K--AAMFENAR--KVFDE----------MPGRN------------CEQT-----VLSFNALLGACVNSKKFDEVDGLFKD  152 (377)
Q Consensus       104 ~--~~~~~~A~--~~~~~----------~~~~~------------~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~  152 (377)
                      +  .|+..+++  .+-+.          +.+.+            +-|+     +.+--.++-.|.+.+++.+|..+.+.
T Consensus       231 Rl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kd  310 (557)
T KOG3785|consen  231 RLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKD  310 (557)
T ss_pred             hhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhh
Confidence            1  12211111  11111          11100            0111     12223344457888899999888877


Q ss_pred             chhhcCCCcCHHHHHHHHHHHHHcC-------CHHHHHHHHHHHHHCCCCCC-HHhHHHHHHHHHcCCCHHHHHHHHHHH
Q 042154          153 LPHKLGIEPDLVSYNTIIKAFVDKG-------SLDSANTLLYEMEKKGIRLD-LITFNTLLLGFYSNGRFADAEKIWETM  224 (377)
Q Consensus       153 ~~~~~~~~p~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  224 (377)
                      +.   ...|-......+.  ++..|       ...-|.+.|+-.-..+..-| ..--.++...+.-..++++.+-.+..+
T Consensus       311 l~---PttP~EyilKgvv--~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi  385 (557)
T KOG3785|consen  311 LD---PTTPYEYILKGVV--FAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSI  385 (557)
T ss_pred             cC---CCChHHHHHHHHH--HHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            63   2333332222222  22333       24456666665554443322 223444555555556788888888777


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHH
Q 042154          225 VNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTF-YALIKGFVNEGNLEEAKRWYNKSGCGMNKAIF  303 (377)
Q Consensus       225 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  303 (377)
                      ...=...|...+| +..+++..|.+.+|+++|-.+..-.++ |..+| ..|..+|.+.+.++.|+.++-...-+.+..+.
T Consensus       386 ~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsL  463 (557)
T KOG3785|consen  386 ESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSL  463 (557)
T ss_pred             HHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHH
Confidence            7654434444444 678888999999999999877654444 44455 55677888899999999988755434444443


Q ss_pred             H-HHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhH
Q 042154          304 K-LLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPL  338 (377)
Q Consensus       304 ~-~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  338 (377)
                      - .+..-|.+.+++--|-+.|+.+...  .|+++-|
T Consensus       464 LqlIAn~CYk~~eFyyaaKAFd~lE~l--DP~pEnW  497 (557)
T KOG3785|consen  464 LQLIANDCYKANEFYYAAKAFDELEIL--DPTPENW  497 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHcc--CCCcccc
Confidence            3 4445788888888888888887764  4444443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.60  E-value=3.5e-05  Score=71.59  Aligned_cols=234  Identities=9%  Similarity=0.067  Sum_probs=160.6

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhh--cCCCccchhHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQY--KDISKEGFTAR   97 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~   97 (377)
                      ++.....+=.++..-|..++|-+-+..               .+=....+.+.+..+.+.+-++...  ..+.+...+-.
T Consensus        27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (694)
T PRK15179         27 GPTILDLLEAALAEPGESEEAGRELLQ---------------QARQVLERHAAVHKPAAALPELLDYVRRYPHTELFQVL   91 (694)
T ss_pred             CcHHHhHHHHHhcCcccchhHHHHHHH---------------HHHHHHHHhhhhcchHhhHHHHHHHHHhccccHHHHHH
Confidence            445555555566666776666433221               1112233344444443333333221  24454566667


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCH-HHHHHHHHHHHHc
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDL-VSYNTIIKAFVDK  176 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~  176 (377)
                      |.....+.|..++|+.+++...+.. |-+......+...+.+.+++++|+..+++....   .|+. .....+..++.+.
T Consensus        92 La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~---~p~~~~~~~~~a~~l~~~  167 (694)
T PRK15179         92 VARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG---GSSSAREILLEAKSWDEI  167 (694)
T ss_pred             HHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc---CCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999875 445667888999999999999999999999753   5554 4677778899999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          177 GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELV  256 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  256 (377)
                      |++++|..+|+++...+ +-+..++..+..++...|+.++|...|++..+.. .|....|+..+      ++...-..++
T Consensus       168 g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~------~~~~~~~~~~  239 (694)
T PRK15179        168 GQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL------VDLNADLAAL  239 (694)
T ss_pred             cchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH------HHHHHHHHHH
Confidence            99999999999999853 3468889999999999999999999999998753 35556666543      3344556667


Q ss_pred             HHHHhCCCC----CCHHHHHHHHHHHHh
Q 042154          257 GEMRSKEIN----PDVFTFYALIKGFVN  280 (377)
Q Consensus       257 ~~~~~~g~~----p~~~~~~~l~~~~~~  280 (377)
                      +++.-.+..    .........+.-|.+
T Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~  267 (694)
T PRK15179        240 RRLGVEGDGRDVPVSILVLEKMLQEIGR  267 (694)
T ss_pred             HHcCcccccCCCceeeeeHHHHHHHHhh
Confidence            766544322    223334444544544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.59  E-value=1.3e-06  Score=64.67  Aligned_cols=90  Identities=3%  Similarity=-0.194  Sum_probs=41.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCC
Q 042154           63 TVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKK  142 (377)
Q Consensus        63 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  142 (377)
                      +...+...|++++|...|+......+. +...+..+..++...|++++|...|++....+ +.+...+..+..++...|+
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            344444445555555555444443222 22222334444455555555555555544433 2344444444444555555


Q ss_pred             hhHHHHHHHhch
Q 042154          143 FDEVDGLFKDLP  154 (377)
Q Consensus       143 ~~~a~~~~~~~~  154 (377)
                      +++|+..|+...
T Consensus       108 ~~eAi~~~~~Al  119 (144)
T PRK15359        108 PGLAREAFQTAI  119 (144)
T ss_pred             HHHHHHHHHHHH
Confidence            555555554443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.57  E-value=6.4e-05  Score=58.80  Aligned_cols=187  Identities=16%  Similarity=0.195  Sum_probs=120.9

Q ss_pred             CCChhHHHHHHHhchhhc--C-CCcCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHH
Q 042154          140 SKKFDEVDGLFKDLPHKL--G-IEPDLV-SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFA  215 (377)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~--~-~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  215 (377)
                      ..+.++..+++.++....  | ..++.. .|..++-+....|+.+.|...++.+... ++-+..+-..-.-.+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchh
Confidence            345677777777765432  3 344443 4555556667778888888888887765 2223333222233344567888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hc
Q 042154          216 DAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KS  294 (377)
Q Consensus       216 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~  294 (377)
                      +|.++++.+.+.+ +.|.+++-.=+...-..|+.-+|++-+.+..+. +..|...|..+...|...|++++|.-.++ -.
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            8888888888776 456666666666666677777777777777765 56678888888888888888888888888 33


Q ss_pred             CCCC-CHHHHHHHHHHHHh---cCChHHHHHHHHHHHhc
Q 042154          295 GCGM-NKAIFKLLVPFVCE---KGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       295 ~~~~-~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~  329 (377)
                      -+.| ++-.+..+...+.-   ..+.+.|.++|.+.++.
T Consensus       182 l~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  182 LIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            3344 44445555554433   33566677888777774

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.54  E-value=0.0003  Score=57.65  Aligned_cols=304  Identities=10%  Similarity=0.019  Sum_probs=225.1

Q ss_pred             CccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHH-
Q 042154           53 FRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFN-  131 (377)
Q Consensus        53 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~-  131 (377)
                      -+.++.-...+...+...|++..|+.-|..+....+..-..+| .-...|...|+-..|+.=+.+.++..  ||-..-. 
T Consensus        34 ~~advekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aif-rRaT~yLAmGksk~al~Dl~rVlelK--pDF~~ARi  110 (504)
T KOG0624|consen   34 SPADVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIF-RRATVYLAMGKSKAALQDLSRVLELK--PDFMAARI  110 (504)
T ss_pred             CHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHH-HHHHHHhhhcCCccchhhHHHHHhcC--ccHHHHHH
Confidence            3456666778889999999999999999988876655555556 46778889999999999999988864  7754332 


Q ss_pred             HHHHHHHhCCChhHHHHHHHhchhhcCCCcCHH----H------------HHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 042154          132 ALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLV----S------------YNTIIKAFVDKGSLDSANTLLYEMEKKGIR  195 (377)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~----~------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  195 (377)
                      .-...+.+.|.++.|..-|+..++.   .|+..    .            ....+..+...||...|+.....+++.. +
T Consensus       111 QRg~vllK~Gele~A~~DF~~vl~~---~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~  186 (504)
T KOG0624|consen  111 QRGVVLLKQGELEQAEADFDQVLQH---EPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-P  186 (504)
T ss_pred             HhchhhhhcccHHHHHHHHHHHHhc---CCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-c
Confidence            2345688999999999999999865   34211    1            1223445566889999999999999873 5


Q ss_pred             CCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH--
Q 042154          196 LDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYA--  273 (377)
Q Consensus       196 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~--  273 (377)
                      .|...|..-..+|...|++..|+.-++...+.. ..++.++--+-..+...|+.+.++...++.++.  .||......  
T Consensus       187 Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~Y  263 (504)
T KOG0624|consen  187 WDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFY  263 (504)
T ss_pred             chhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHH
Confidence            688899999999999999999998888777654 245566666777788999999999999998874  566543211  


Q ss_pred             -----HH------HHHHhcCCHHHHHHHHH-hcCCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChh
Q 042154          274 -----LI------KGFVNEGNLEEAKRWYN-KSGCGMN-----KAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQA  336 (377)
Q Consensus       274 -----l~------~~~~~~~~~~~a~~~~~-~~~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  336 (377)
                           +.      ......+++.++.+-.+ -....|.     ...+..+-.++...|++.+|++...+.++.... |..
T Consensus       264 KklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~-dv~  342 (504)
T KOG0624|consen  264 KKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPD-DVQ  342 (504)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCch-HHH
Confidence                 11      11234566666666555 2223343     223455666788889999999999999885322 477


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          337 PLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       337 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      ++.--..+|.-...++.|..-|+.+.+.+..
T Consensus       343 ~l~dRAeA~l~dE~YD~AI~dye~A~e~n~s  373 (504)
T KOG0624|consen  343 VLCDRAEAYLGDEMYDDAIHDYEKALELNES  373 (504)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHhcCcc
Confidence            8888889999999999999999999887653

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.54  E-value=1e-05  Score=59.91  Aligned_cols=92  Identities=10%  Similarity=-0.097  Sum_probs=54.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcC
Q 042154          237 NARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKG  314 (377)
Q Consensus       237 ~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g  314 (377)
                      ..+...+...|++++|...|+...... +.+...+..+..++...|++++|...++ .....| +...+..+..++...|
T Consensus        28 ~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         28 YASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            344555556666666666666665542 2245556666666666666666666666 222233 4455666666666666


Q ss_pred             ChHHHHHHHHHHHhc
Q 042154          315 DLDFAFNLCKRTFSE  329 (377)
Q Consensus       315 ~~~~a~~~~~~~~~~  329 (377)
                      ++++|+..|+..++.
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            666666666666654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.53  E-value=9.7e-05  Score=57.81  Aligned_cols=189  Identities=12%  Similarity=0.141  Sum_probs=99.9

Q ss_pred             cccHHHHHHHHHhcccC---CCCccch-hhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHH
Q 042154           34 ENNLKRLVDKFKKSSDL---GRFRTNT-GIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFE  109 (377)
Q Consensus        34 ~~~~~~A~~~~~~~~~~---~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  109 (377)
                      ..+.++.++++..+...   +...++. ..|..++-+....|+.+.|...++.+...- +.+..+...-...+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            34566666666665421   1122332 234455555556666666666666665543 233333322233344456666


Q ss_pred             HHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 042154          110 NARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEM  189 (377)
Q Consensus       110 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  189 (377)
                      +|.++++.+.+.+ |.|..++-.-+...-..|+--+|++-+....+  .+..|...|.-+...|...|++++|.-.++++
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            6666666666655 44555555555555555555566666655554  33456666666666666666666666666666


Q ss_pred             HHCCCCCCHHhHHHHHHHHHcCC---CHHHHHHHHHHHHhC
Q 042154          190 EKKGIRLDLITFNTLLLGFYSNG---RFADAEKIWETMVNM  227 (377)
Q Consensus       190 ~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~  227 (377)
                      .-..+ .+...+..+...+.-.|   ++..+.+.|.+..+.
T Consensus       181 ll~~P-~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  181 LLIQP-FNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            55422 23444444444333222   445555566555554

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.51  E-value=3.9e-05  Score=71.07  Aligned_cols=164  Identities=15%  Similarity=0.056  Sum_probs=122.2

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCC-CccchhHHHH
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDI-SKEGFTARLI   99 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~   99 (377)
                      ...|..|...|+...+...|...|+++.+.+  ..+......+.+.+++..+++.|..+.-...+.... ....-+....
T Consensus       492 apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD--atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG  569 (1238)
T KOG1127|consen  492 APAFAFLGQIYRDSDDMKRAKKCFDKAFELD--ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRG  569 (1238)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC--chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcc
Confidence            4578899999999889999999999998876  667888999999999999999999985443332111 1111122355


Q ss_pred             HHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHH--HHHHHHHcC
Q 042154          100 ALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNT--IIKAFVDKG  177 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~--l~~~~~~~~  177 (377)
                      -.|.+.++...|..-|+...... |-|...|..+..+|.+.|++..|+++|.+..   -+.|+.. |..  ..-.-+..|
T Consensus       570 ~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs---~LrP~s~-y~~fk~A~~ecd~G  644 (1238)
T KOG1127|consen  570 PYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKAS---LLRPLSK-YGRFKEAVMECDNG  644 (1238)
T ss_pred             ccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhH---hcCcHhH-HHHHHHHHHHHHhh
Confidence            56788899999999999988776 5588899999999999999999999998875   3455542 222  122345677


Q ss_pred             CHHHHHHHHHHHHH
Q 042154          178 SLDSANTLLYEMEK  191 (377)
Q Consensus       178 ~~~~a~~~~~~~~~  191 (377)
                      .+.++...+.....
T Consensus       645 kYkeald~l~~ii~  658 (1238)
T KOG1127|consen  645 KYKEALDALGLIIY  658 (1238)
T ss_pred             hHHHHHHHHHHHHH
Confidence            88888777776653

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

Probab=98.48  E-value=2.2e-05  Score=58.37  Aligned_cols=22  Identities=5%  Similarity=-0.050  Sum_probs=9.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 042154          241 DGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       241 ~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      ..+...|++++|...|+.....
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~~   77 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALAN   77 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhh
Confidence            3344444444444444444443

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

Probab=98.48  E-value=0.0003  Score=65.66  Aligned_cols=163  Identities=10%  Similarity=0.208  Sum_probs=112.5

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      ..+..|..+..+-.+.|...+|++-|-+.       .|+..|..+++...+.|.|++..+++....+....|...  +.|
T Consensus      1102 n~p~vWsqlakAQL~~~~v~dAieSyika-------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eL 1172 (1666)
T KOG0985|consen 1102 NEPAVWSQLAKAQLQGGLVKDAIESYIKA-------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SEL 1172 (1666)
T ss_pred             CChHHHHHHHHHHHhcCchHHHHHHHHhc-------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHH
Confidence            45678888888888888888888887544       255678899999999999999999888777665444433  458


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      +-+|++.+++.+-++.+.     |  |+......+.+-|...+.++.|.-+|...          .-|..+...+...|+
T Consensus      1173 i~AyAkt~rl~elE~fi~-----g--pN~A~i~~vGdrcf~~~~y~aAkl~y~~v----------SN~a~La~TLV~Lge 1235 (1666)
T KOG0985|consen 1173 IFAYAKTNRLTELEEFIA-----G--PNVANIQQVGDRCFEEKMYEAAKLLYSNV----------SNFAKLASTLVYLGE 1235 (1666)
T ss_pred             HHHHHHhchHHHHHHHhc-----C--CCchhHHHHhHHHhhhhhhHHHHHHHHHh----------hhHHHHHHHHHHHHH
Confidence            888999888887765542     3  67777777777788888888777766544          236666666667777


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR  213 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  213 (377)
                      ++.|.+.-+++.      +..||..+-.+|...+.
T Consensus      1236 yQ~AVD~aRKAn------s~ktWK~VcfaCvd~~E 1264 (1666)
T KOG0985|consen 1236 YQGAVDAARKAN------STKTWKEVCFACVDKEE 1264 (1666)
T ss_pred             HHHHHHHhhhcc------chhHHHHHHHHHhchhh
Confidence            766655443332      34455555445444433

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

Probab=98.43  E-value=1.6e-05  Score=58.41  Aligned_cols=92  Identities=13%  Similarity=-0.018  Sum_probs=38.8

Q ss_pred             HHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC
Q 042154          132 ALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN  211 (377)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  211 (377)
                      .+...+...|++++|...|+.+...  .+.+...+..+...+...|++++|...++...+.+ +.+...+..+..++...
T Consensus        22 ~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        22 ALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHc
Confidence            3334444444444444444444321  11233344444444444444444444444444332 12333344444444444


Q ss_pred             CCHHHHHHHHHHHHh
Q 042154          212 GRFADAEKIWETMVN  226 (377)
Q Consensus       212 ~~~~~a~~~~~~~~~  226 (377)
                      |++++|...|+...+
T Consensus        99 g~~~~A~~~~~~al~  113 (135)
T TIGR02552        99 GEPESALKALDLAIE  113 (135)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            444444444444444

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

>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=98.43  E-value=1.6e-05  Score=68.26  Aligned_cols=121  Identities=16%  Similarity=0.203  Sum_probs=71.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcC-CCCCHHHHHHHHHHHHhcC
Q 042154          237 NARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSG-CGMNKAIFKLLVPFVCEKG  314 (377)
Q Consensus       237 ~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~-~~~~~~~~~~l~~~~~~~g  314 (377)
                      ..++..+...++++.|+++++++.+..  |+  ....++..+...++-.+|.+++. ... .+.+......-...|.+.+
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcC
Confidence            344444555566666666666666542  33  23335555555566666666666 222 1224445555556667777


Q ss_pred             ChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          315 DLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       315 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      +++.|+++.+++.+..+. +..+|..|..+|.+.|++++|+-.++.+.
T Consensus       249 ~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            777777777777664322 44477777777777777777777777665

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

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.42  E-value=0.0001  Score=68.47  Aligned_cols=116  Identities=11%  Similarity=0.032  Sum_probs=60.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-------hcCCCCCHHHHHHHHHHHHhcCC
Q 042154          243 LAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-------KSGCGMNKAIFKLLVPFVCEKGD  315 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~~~~~~~~~~l~~~~~~~g~  315 (377)
                      +....+++-|...|...+... +.+...|..........|+.-++..+|.       ..|-.+....|..........|+
T Consensus       860 ~l~n~d~E~A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~  938 (1238)
T KOG1127|consen  860 VLENQDFEHAEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGN  938 (1238)
T ss_pred             EEecccHHHhhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccc
Confidence            344556677777777666542 2234445444444455666666666666       33334444444444444555555


Q ss_pred             hHHHHHHHHH----------HHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHh
Q 042154          316 LDFAFNLCKR----------TFSERCLVDQAPLQLVVDRLAKELRVEEAKELVEL  360 (377)
Q Consensus       316 ~~~a~~~~~~----------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  360 (377)
                      .++-+...+.          .... .+-+...|.+.+...-..+.++.|.++..+
T Consensus       939 ~e~~I~t~~ki~sAs~al~~yf~~-~p~~~fAy~~~gstlEhL~ey~~a~ela~R  992 (1238)
T KOG1127|consen  939 IEESINTARKISSASLALSYYFLG-HPQLCFAYAANGSTLEHLEEYRAALELATR  992 (1238)
T ss_pred             hHHHHHHhhhhhhhHHHHHHHHhc-CcchhHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            5443332222          2222 222444666666666666666666655544

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

Probab=98.39  E-value=4.5e-06  Score=61.30  Aligned_cols=95  Identities=7%  Similarity=-0.011  Sum_probs=46.9

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHH
Q 042154           58 GIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGAC  137 (377)
Q Consensus        58 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  137 (377)
                      .....+...+...|++++|.+.++.+....+. +...+..+..++...|++++|..+++...+.+ +.+...+..+...+
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            33444444455555555555555555443322 22333345555555555555555555554443 33344444455555


Q ss_pred             HhCCChhHHHHHHHhch
Q 042154          138 VNSKKFDEVDGLFKDLP  154 (377)
Q Consensus       138 ~~~~~~~~a~~~~~~~~  154 (377)
                      ...|++++|...|+...
T Consensus        96 ~~~g~~~~A~~~~~~al  112 (135)
T TIGR02552        96 LALGEPESALKALDLAI  112 (135)
T ss_pred             HHcCCHHHHHHHHHHHH
Confidence            55555555555555554

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

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

Probab=98.38  E-value=4.2e-05  Score=65.80  Aligned_cols=118  Identities=15%  Similarity=0.131  Sum_probs=52.4

Q ss_pred             HHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCH
Q 042154          135 GACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRF  214 (377)
Q Consensus       135 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  214 (377)
                      ..+...++++.|+.+|+++.+.   .|+  ....+++.+...++-.+|.+++++..+.. +.+..........+.+.+++
T Consensus       177 ~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~  250 (395)
T PF09295_consen  177 KYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKY  250 (395)
T ss_pred             HHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCH
Confidence            3333444455555555554432   132  22234444444444445555555444331 11333344444444455555


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 042154          215 ADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEM  259 (377)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  259 (377)
                      +.|+.+.+++.+.. +-+..+|..|..+|.+.|+++.|+..++.+
T Consensus       251 ~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  251 ELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             HHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            55555555554432 122234555555555555555555444443

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

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

Probab=98.34  E-value=0.0016  Score=56.78  Aligned_cols=343  Identities=11%  Similarity=0.154  Sum_probs=203.1

Q ss_pred             CCCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh
Q 042154           16 ATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT   95 (377)
Q Consensus        16 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   95 (377)
                      ..|-|..+|..||+-+..+ ..+++.+.++++...  +|.....|..-|..-...++++..+.+|.+.....  .+..+|
T Consensus        15 ~nP~di~sw~~lire~qt~-~~~~~R~~YEq~~~~--FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW   89 (656)
T KOG1914|consen   15 ENPYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV--FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLW   89 (656)
T ss_pred             cCCccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc--CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHH
Confidence            3467899999999998877 999999999999865  57778889999999999999999999999987753  335666


Q ss_pred             HHHHHHHHcc-CCHHH----HHHHHHhc-CCCCCCc-cHHHHHHHHHH---------HHhCCChhHHHHHHHhchhhcCC
Q 042154           96 ARLIALYGKA-AMFEN----ARKVFDEM-PGRNCEQ-TVLSFNALLGA---------CVNSKKFDEVDGLFKDLPHKLGI  159 (377)
Q Consensus        96 ~~l~~~~~~~-~~~~~----A~~~~~~~-~~~~~~~-~~~~~~~l~~~---------~~~~~~~~~a~~~~~~~~~~~~~  159 (377)
                      ...+..-.+. |+...    ..+.|+-. .+.|+.+ +...|+..+..         +..+.+++...++|+++... .+
T Consensus        90 ~lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~t-Pm  168 (656)
T KOG1914|consen   90 KLYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVT-PM  168 (656)
T ss_pred             HHHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcC-cc
Confidence            5444433222 33322    33344433 2344333 33446655554         33445667788888887653 11


Q ss_pred             Cc------CHHHHHHHHHHH-------HHcCCHHHHHHHHHHHHH--CCCCCCHH---------------hHHHHHH---
Q 042154          160 EP------DLVSYNTIIKAF-------VDKGSLDSANTLLYEMEK--KGIRLDLI---------------TFNTLLL---  206 (377)
Q Consensus       160 ~p------~~~~~~~l~~~~-------~~~~~~~~a~~~~~~~~~--~~~~~~~~---------------~~~~l~~---  206 (377)
                      .-      |-..|..=|+..       -+...+..|.++++++..  .|...+..               .|-.+|.   
T Consensus       169 ~nlEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEk  248 (656)
T KOG1914|consen  169 HNLEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEK  248 (656)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHh
Confidence            00      111121111111       122344555555555442  12110000               0111111   


Q ss_pred             -------------------------H---------------------HHcCCC-------HHHHHHHHHHHHhCCCCCCH
Q 042154          207 -------------------------G---------------------FYSNGR-------FADAEKIWETMVNMNVRPNV  233 (377)
Q Consensus       207 -------------------------~---------------------~~~~~~-------~~~a~~~~~~~~~~~~~~~~  233 (377)
                                               .                     +...|+       -+++..+++.....-...+.
T Consensus       249 sNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~  328 (656)
T KOG1914|consen  249 SNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENK  328 (656)
T ss_pred             cCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHH
Confidence                                     0                     111111       23344444433332111233


Q ss_pred             HHHHHHHHHHHhc---CCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---hcCCCC-CHHHHHH
Q 042154          234 RSYNARLDGLAIE---KQTKKALELVGEMRSK-EINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGM-NKAIFKL  305 (377)
Q Consensus       234 ~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~-g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~-~~~~~~~  305 (377)
                      .+|..+...--..   +..+.....+++++.. ...| ..+|..++..-.+...+..|+.+|.   +.+..+ ++.++++
T Consensus       329 ~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~-tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A  407 (656)
T KOG1914|consen  329 LLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDL-TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAA  407 (656)
T ss_pred             HHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCC-ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHH
Confidence            3333332211111   1355666777777654 2333 3468888888889999999999999   444444 6677888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          306 LVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       306 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      ++.-+| .++..-|.++|+--++. ..-++.-....++-+...|+-..|..+|++....+.+
T Consensus       408 ~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~  467 (656)
T KOG1914|consen  408 LMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLS  467 (656)
T ss_pred             HHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCC
Confidence            887666 46789999999887775 3334555566788888999999999999999887543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.32  E-value=1.2e-06  Score=47.14  Aligned_cols=33  Identities=42%  Similarity=0.695  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEINPD  267 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~  267 (377)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
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.

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

Probab=98.31  E-value=2.3e-05  Score=67.75  Aligned_cols=120  Identities=13%  Similarity=0.089  Sum_probs=90.8

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---hcCCCCCHHHH
Q 042154          229 VRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK--EINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIF  303 (377)
Q Consensus       229 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~~~~~~  303 (377)
                      .+.+......++..+....+.+.+..++.+.+..  ....-..|..++++.|.+.|..++++.+++   ..|+-||..++
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            3456677777888887778888888888887765  222223455688888888888888888888   78888888888


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 042154          304 KLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKE  348 (377)
Q Consensus       304 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  348 (377)
                      +.|++.+.+.|++..|.++...|..++...++.|+..-+.+|.+-
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            888888888888888888888888777666777766555555554

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=98.30  E-value=6.2e-05  Score=55.90  Aligned_cols=19  Identities=21%  Similarity=0.247  Sum_probs=7.6

Q ss_pred             HHHcCCHHHHHHHHHHHHH
Q 042154          173 FVDKGSLDSANTLLYEMEK  191 (377)
Q Consensus       173 ~~~~~~~~~a~~~~~~~~~  191 (377)
                      +...|++++|...|+.+..
T Consensus        58 ~~~~g~~~~A~~~l~~~~~   76 (145)
T PF09976_consen   58 AYEQGDYDEAKAALEKALA   76 (145)
T ss_pred             HHHCCCHHHHHHHHHHHHh
Confidence            3333444444444444333

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.28  E-value=0.00033  Score=58.83  Aligned_cols=58  Identities=14%  Similarity=0.166  Sum_probs=33.9

Q ss_pred             HHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhh
Q 042154           26 SVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQ   85 (377)
Q Consensus        26 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   85 (377)
                      .....+.+..++..|+..+....+..  +.++.-|..-+..+...++++++.--.++-.+
T Consensus        54 ~~gn~~yk~k~Y~nal~~yt~Ai~~~--pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r  111 (486)
T KOG0550|consen   54 EEGNAFYKQKTYGNALKNYTFAIDMC--PDNASYYSNRAATLMMLGRFEEALGDARQSVR  111 (486)
T ss_pred             hhcchHHHHhhHHHHHHHHHHHHHhC--ccchhhhchhHHHHHHHHhHhhcccchhhhee
Confidence            33445556666667777776666553  45555566666666666666666555544333

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.25  E-value=2.2e-06  Score=46.03  Aligned_cols=34  Identities=21%  Similarity=0.362  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCh
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQ  335 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  335 (377)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6888999999999999999999999988888873

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.25  E-value=2.3e-06  Score=45.59  Aligned_cols=32  Identities=34%  Similarity=0.538  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEINP  266 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p  266 (377)
                      +|+.++.+|++.|+++.|..+|++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            45555555555555555555555555555444

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

Probab=98.24  E-value=1.7e-05  Score=68.48  Aligned_cols=122  Identities=18%  Similarity=0.211  Sum_probs=70.2

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCC-CcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHH
Q 042154          124 EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGI-EPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFN  202 (377)
Q Consensus       124 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  202 (377)
                      +.+......+++.+....+++.+..++.+....... ..-..|..++++.|.+.|..+.++.++..=...|+-||..+++
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            345555555566665666666666666555432111 1122344566666666666666666666666666666666666


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 042154          203 TLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAI  245 (377)
Q Consensus       203 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  245 (377)
                      .||+.+.+.|++..|.++...|...+...+..|+..-+.+|.+
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            6666666666666666666666655544454555444444443

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.23  E-value=2.4e-06  Score=45.54  Aligned_cols=32  Identities=28%  Similarity=0.456  Sum_probs=17.3

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNMNVRP  231 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  231 (377)
                      +|+.++.+|++.|+++.|.++|++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            45555555555555555555555555555444

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.21  E-value=0.0014  Score=60.62  Aligned_cols=224  Identities=13%  Similarity=0.084  Sum_probs=139.0

Q ss_pred             HHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHH--HHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154          101 LYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGA--CVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus       101 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      -....+++..|.+-.+.+.+..  |+.. |..++.+  +.+.|+.++|..+++....- +. .|..|...+-.+|...++
T Consensus        18 d~ld~~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~-~~-~D~~tLq~l~~~y~d~~~   92 (932)
T KOG2053|consen   18 DLLDSSQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGL-KG-TDDLTLQFLQNVYRDLGK   92 (932)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccC-CC-CchHHHHHHHHHHHHHhh
Confidence            3456678888888888877654  4433 2223333  56788888888888776432 21 266688888888888899


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-C---------
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEK-Q---------  248 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~---------  248 (377)
                      .++|..+|++..+.  -|+......+..+|.+.+++.+-.+.--++-+. .+-+...+-++++.+.+.- .         
T Consensus        93 ~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~  169 (932)
T KOG2053|consen   93 LDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPIL  169 (932)
T ss_pred             hhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchh
Confidence            99999999888876  455777777788888887776544444444332 2233444444555444321 1         


Q ss_pred             HHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHH----hcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 042154          249 TKKALELVGEMRSKE-INPDVFTFYALIKGFVNEGNLEEAKRWYN----KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLC  323 (377)
Q Consensus       249 ~~~a~~~~~~~~~~g-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  323 (377)
                      ..-|.+.++.+.+.+ -.-+..-.......+...|++++|.+++.    ..-..-+...-+.-+..+...+++.+..++-
T Consensus       170 l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~  249 (932)
T KOG2053|consen  170 LALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELS  249 (932)
T ss_pred             HHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHH
Confidence            223555566666543 11122222233344556788888888886    2222234444456677788888888888888


Q ss_pred             HHHHhcCCC
Q 042154          324 KRTFSERCL  332 (377)
Q Consensus       324 ~~~~~~~~~  332 (377)
                      .++...+..
T Consensus       250 ~~Ll~k~~D  258 (932)
T KOG2053|consen  250 SRLLEKGND  258 (932)
T ss_pred             HHHHHhCCc
Confidence            888887643

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

Probab=98.15  E-value=5.5e-05  Score=51.35  Aligned_cols=76  Identities=17%  Similarity=0.362  Sum_probs=41.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCC-CCCHHhHHHHHHHHHcCC--------CHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 042154          169 IIKAFVDKGSLDSANTLLYEMEKKGI-RLDLITFNTLLLGFYSNG--------RFADAEKIWETMVNMNVRPNVRSYNAR  239 (377)
Q Consensus       169 l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~l  239 (377)
                      .|..|...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-..+.+|+.|...+++|+..+|+.+
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            34444455666666666666666665 556666666666555432        233444555555555555555555555


Q ss_pred             HHHHH
Q 042154          240 LDGLA  244 (377)
Q Consensus       240 ~~~~~  244 (377)
                      +..+.
T Consensus       111 l~~Ll  115 (120)
T PF08579_consen  111 LGSLL  115 (120)
T ss_pred             HHHHH
Confidence            55443

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=98.14  E-value=0.0034  Score=52.65  Aligned_cols=26  Identities=19%  Similarity=0.196  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEME  190 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~  190 (377)
                      .+...+...+..|+|+.|+++++.-.
T Consensus       190 A~~AtLe~r~~~gdWd~AlkLvd~~~  215 (531)
T COG3898         190 AARATLEARCAAGDWDGALKLVDAQR  215 (531)
T ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Confidence            34444444455555555555554433

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

Probab=98.10  E-value=7.5e-05  Score=50.69  Aligned_cols=79  Identities=14%  Similarity=0.309  Sum_probs=66.2

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHhCCCCCCHHHHH
Q 042154          202 NTLLLGFYSNGRFADAEKIWETMVNMNV-RPNVRSYNARLDGLAIEK--------QTKKALELVGEMRSKEINPDVFTFY  272 (377)
Q Consensus       202 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~g~~p~~~~~~  272 (377)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|++|+..+++|+..+|+
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            3455566666999999999999999999 899999999999887653        2446788999999999999999999


Q ss_pred             HHHHHHHh
Q 042154          273 ALIKGFVN  280 (377)
Q Consensus       273 ~l~~~~~~  280 (377)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99988764

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 [, , ].

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.09  E-value=7.8e-05  Score=50.48  Aligned_cols=92  Identities=16%  Similarity=0.061  Sum_probs=51.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 042154          272 YALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKEL  349 (377)
Q Consensus       272 ~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  349 (377)
                      ..+...+...|++++|...++ .....| +...+..+..++...|++++|.+.+++..+.... +..++..+...+...|
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~   82 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHHHH
Confidence            334445555566666666665 222222 2244555555666666666666666666654322 3345556666666666


Q ss_pred             CHHHHHHHHHhhccC
Q 042154          350 RVEEAKELVELGKTN  364 (377)
Q Consensus       350 ~~~~A~~~~~~~~~~  364 (377)
                      ++++|...++...+.
T Consensus        83 ~~~~a~~~~~~~~~~   97 (100)
T cd00189          83 KYEEALEAYEKALEL   97 (100)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            666666666665543

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.09  E-value=0.00012  Score=53.56  Aligned_cols=85  Identities=8%  Similarity=-0.099  Sum_probs=37.9

Q ss_pred             HHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHH
Q 042154          277 GFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEA  354 (377)
Q Consensus       277 ~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  354 (377)
                      .+...|++++|.++|+ -..+.| +..-|-.|.-++-..|++++|+..|..+....+. |+..+-.+..++...|+.+.|
T Consensus        44 ~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L~lG~~~~A  122 (157)
T PRK15363         44 QLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYLACDNVCYA  122 (157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHcCCHHHH
Confidence            3344445555555444 222222 2233444444444445555555555444444332 444444444445555555554


Q ss_pred             HHHHHhhc
Q 042154          355 KELVELGK  362 (377)
Q Consensus       355 ~~~~~~~~  362 (377)
                      .+-|+.++
T Consensus       123 ~~aF~~Ai  130 (157)
T PRK15363        123 IKALKAVV  130 (157)
T ss_pred             HHHHHHHH
Confidence            44444443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.07  E-value=8.3e-05  Score=53.08  Aligned_cols=99  Identities=7%  Similarity=-0.102  Sum_probs=50.5

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCC-ccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCC--ccchhHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRF-RTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDIS--KEGFTARLI   99 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~   99 (377)
                      ++..+...+.+.|++++|...|+.+.+..+- +.....+..+...+...|+++.|.+.++.+....+..  ....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            4455555566666666666666666543200 1112344455555666666666666666555432221  112223455


Q ss_pred             HHHHccCCHHHHHHHHHhcCCC
Q 042154          100 ALYGKAAMFENARKVFDEMPGR  121 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~  121 (377)
                      .++.+.|+.++|.+.++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            5555566666666666655554

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.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.05  E-value=0.0013  Score=54.87  Aligned_cols=26  Identities=15%  Similarity=0.193  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Q 042154          166 YNTIIKAFVDKGSLDSANTLLYEMEK  191 (377)
Q Consensus       166 ~~~l~~~~~~~~~~~~a~~~~~~~~~  191 (377)
                      +..+...+.+.|++++|.++|++...
T Consensus       158 ~~~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  158 LLKAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34444455555555555555555443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=98.04  E-value=0.00086  Score=60.23  Aligned_cols=247  Identities=13%  Similarity=0.069  Sum_probs=144.2

Q ss_pred             hhhccccCCCCCCCchHHHHHHHHhhhcccH------HHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHH
Q 042154            7 LLSCSFSTTATATGPKFIGSVIRGIYKENNL------KRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEIL   80 (377)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~------~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   80 (377)
                      ++...++.+..|.-....+..|.++....+.      ++|.++.+       -.|.+..|..+.......-.++.|+..|
T Consensus       643 lld~Il~~pE~pnk~~ii~~~ikslrD~~~Lve~vgledA~qfiE-------dnPHprLWrllAe~Al~Kl~l~tAE~AF  715 (1189)
T KOG2041|consen  643 LLDKILLTPENPNKTCIIEVMIKSLRDVMNLVEAVGLEDAIQFIE-------DNPHPRLWRLLAEYALFKLALDTAEHAF  715 (1189)
T ss_pred             EHhhHhcCcCCCCcceEEEEEehhhhhHHHHHHHhchHHHHHHHh-------cCCchHHHHHHHHHHHHHHhhhhHhhhh
Confidence            4555666666665555555555555444333      44444432       2577888999988888888888888888


Q ss_pred             HHhhhh-cCCCccchhH------HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhc
Q 042154           81 EHQKQY-KDISKEGFTA------RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDL  153 (377)
Q Consensus        81 ~~~~~~-~~~~~~~~~~------~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  153 (377)
                      -+.... |...-..+-.      .-...-+-.|.+++|+++|-++-.++         ..+..+.+.|+|-.+.++++.-
T Consensus       716 Vrc~dY~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g  786 (1189)
T KOG2041|consen  716 VRCGDYAGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNG  786 (1189)
T ss_pred             hhhccccchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHcc
Confidence            665543 1111111110      01122223588999999998887764         2356677888888888877542


Q ss_pred             hhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH
Q 042154          154 PHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNV  233 (377)
Q Consensus       154 ~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  233 (377)
                      -....-..-...|+.+...++....|++|.+.+..-...         ...+.++.+..++++-+.+-..+.     .+.
T Consensus       787 ~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------e~~~ecly~le~f~~LE~la~~Lp-----e~s  852 (1189)
T KOG2041|consen  787 GSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------ENQIECLYRLELFGELEVLARTLP-----EDS  852 (1189)
T ss_pred             CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------HhHHHHHHHHHhhhhHHHHHHhcC-----ccc
Confidence            111000111246888888888888888888777654321         124555555555555444444433     234


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          234 RSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       234 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ...-.+...+.+.|.-++|.+.+-+..    .|.     ..+..|...+++.+|.++-+
T Consensus       853 ~llp~~a~mf~svGMC~qAV~a~Lr~s----~pk-----aAv~tCv~LnQW~~avelaq  902 (1189)
T KOG2041|consen  853 ELLPVMADMFTSVGMCDQAVEAYLRRS----LPK-----AAVHTCVELNQWGEAVELAQ  902 (1189)
T ss_pred             chHHHHHHHHHhhchHHHHHHHHHhcc----CcH-----HHHHHHHHHHHHHHHHHHHH
Confidence            455566677777777777776654422    121     23455666677777776666

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.04  E-value=0.00015  Score=51.77  Aligned_cols=96  Identities=13%  Similarity=0.003  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCC----HHHHHHHH
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEI--NPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMN----KAIFKLLV  307 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~----~~~~~~l~  307 (377)
                      ++..+...+.+.|++++|...|..+.....  ......+..+..++...|+++.|...++ .....|+    ...+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            444555666667777777777777765421  1112344556666667777777777776 1111222    34455566


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcC
Q 042154          308 PFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       308 ~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      .++.+.|++++|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHC
Confidence            66666777777777777766653

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=97.99  E-value=1.1e-05  Score=53.60  Aligned_cols=48  Identities=15%  Similarity=0.200  Sum_probs=19.8

Q ss_pred             ccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHH
Q 042154           35 NNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEH   82 (377)
Q Consensus        35 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   82 (377)
                      |+++.|+.+|+++.+.....++...+..+..++.+.|++++|+++++.
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            444555555555443321011222333344444445555555554444

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.98  E-value=0.0025  Score=51.70  Aligned_cols=178  Identities=11%  Similarity=0.115  Sum_probs=100.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHh---HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 042154          169 IIKAFVDKGSLDSANTLLYEMEKKGIRLDLIT---FNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAI  245 (377)
Q Consensus       169 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  245 (377)
                      ....+...|++++|.+.|+.+...-..+ ...   .-.++.++.+.+++++|...+++..+.........|...+.+.+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            3344556677777777777776643221 222   134556667777777777777777765422222333333333321


Q ss_pred             --c---------------CC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHH
Q 042154          246 --E---------------KQ---TKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKL  305 (377)
Q Consensus       246 --~---------------~~---~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  305 (377)
                        .               .+   ..+|+..|+++++.  -|+.             .-..+|...+....... ...--.
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~l-a~~e~~  180 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDRL-AKYELS  180 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHHH-HHHHHH
Confidence              0               11   23444555555543  2332             22334433333000000 001114


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcC--CCCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          306 LVPFVCEKGDLDFAFNLCKRTFSER--CLVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       306 l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      +.+.|.+.|.+..|..-++.+++.-  .+........++.+|...|..++|.++......
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence            5667899999999999999999862  233445677888999999999999988776543

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

Probab=97.98  E-value=1e-05  Score=41.97  Aligned_cols=29  Identities=34%  Similarity=0.539  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKE  263 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g  263 (377)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            34455555555555555555555554443

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.

>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=0.00026  Score=47.78  Aligned_cols=92  Identities=14%  Similarity=0.161  Sum_probs=44.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042154          168 TIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEK  247 (377)
Q Consensus       168 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  247 (377)
                      .+...+...|++++|...++.+.+... .+...+..+...+...+++++|.+.++...... +.+...+..+...+...|
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHH
Confidence            334444455555555555555544321 122344444555555555555555555554433 122234444555555555


Q ss_pred             CHHHHHHHHHHHHh
Q 042154          248 QTKKALELVGEMRS  261 (377)
Q Consensus       248 ~~~~a~~~~~~~~~  261 (377)
                      ++++|...+....+
T Consensus        83 ~~~~a~~~~~~~~~   96 (100)
T cd00189          83 KYEEALEAYEKALE   96 (100)
T ss_pred             hHHHHHHHHHHHHc
Confidence            55555555555443

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

Probab=97.95  E-value=1.4e-05  Score=41.48  Aligned_cols=29  Identities=28%  Similarity=0.650  Sum_probs=17.4

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  228 (377)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45666666666666666666666665554

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.

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

Probab=97.94  E-value=0.00057  Score=56.88  Aligned_cols=126  Identities=15%  Similarity=0.149  Sum_probs=69.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHH-HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042154          164 VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLG-FYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDG  242 (377)
Q Consensus       164 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  242 (377)
                      .+|..+++...+.+..+.|..+|.++.+.+. .+..+|...... |...++.+.|.++|+...+. .+.+...|...+..
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            3566666666666677777777777764321 233334433333 22244555577777766654 33455666666666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          243 LAIEKQTKKALELVGEMRSKEINPDV---FTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~g~~p~~---~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      +...|+.+.|..+|++.... +.++.   ..|...+..=.+.|+.+.+.++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~  131 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEK  131 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            66677777777777776654 22222   355666655556666666666655

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=97.93  E-value=2.7e-05  Score=51.65  Aligned_cols=20  Identities=20%  Similarity=0.331  Sum_probs=7.9

Q ss_pred             HHHHHHhCCChhHHHHHHHh
Q 042154          133 LLGACVNSKKFDEVDGLFKD  152 (377)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~  152 (377)
                      +..+|.+.|++++|+.++++
T Consensus        31 la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen   31 LAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             HHHHHHHTTHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            33334444444444444333

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

Probab=97.93  E-value=0.00027  Score=58.77  Aligned_cols=129  Identities=13%  Similarity=0.096  Sum_probs=75.1

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHH-HHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQR-LANAKRFRWIEEILEHQKQYKDISKEGFTARLIAL  101 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  101 (377)
                      .|..+++...+.+..+.|..+|..+.+.+.+  +..+|...... +...++.+.|.++|+...+. ...+..++...+..
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~--~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKRC--TYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS---THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            5666777777777777777777777654422  33334333333 22245555677777776665 34445555566777


Q ss_pred             HHccCCHHHHHHHHHhcCCCCCCccH---HHHHHHHHHHHhCCChhHHHHHHHhchh
Q 042154          102 YGKAAMFENARKVFDEMPGRNCEQTV---LSFNALLGACVNSKKFDEVDGLFKDLPH  155 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~  155 (377)
                      +.+.|+.+.|..+|++.... ++++.   ..|...+..=.+.|+.+.+.++.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77777777777777776654 22222   3566666666666666666666665543

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.

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

Probab=97.91  E-value=0.00038  Score=53.58  Aligned_cols=105  Identities=22%  Similarity=0.313  Sum_probs=57.8

Q ss_pred             CcCHHHHHHHHHHHHH-----cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHH
Q 042154          160 EPDLVSYNTIIKAFVD-----KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVR  234 (377)
Q Consensus       160 ~p~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  234 (377)
                      ..+..+|..+++.+.+     .|.++-....+..|.+.|+..|..+|+.|++.+=+ |.+-               |...
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv---------------p~n~  107 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV---------------PRNF  107 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc---------------cccH
Confidence            3455566666666543     35666666777777777777777777777777654 2221               1111


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGN  283 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~  283 (377)
                      ....+ .-  .-.+-+-|++++++|...|+.||..++..+++.|.+.+.
T Consensus       108 fQ~~F-~h--yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  108 FQAEF-MH--YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHh-cc--CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            11100 00  112334456666666666666666666666666655543

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

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.91  E-value=0.0013  Score=50.46  Aligned_cols=62  Identities=8%  Similarity=-0.029  Sum_probs=25.6

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 042154          130 FNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKAFVDKGSLDSANTLLYEMEK  191 (377)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  191 (377)
                      +..+...+...|++++|...|++......-.++ ...+..+...+.+.|++++|...+.+..+
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  100 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE  100 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334444444445555555544444322000111 12344444444444444444444444444

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.90  E-value=0.00037  Score=62.85  Aligned_cols=64  Identities=16%  Similarity=0.025  Sum_probs=40.4

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 042154          126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKK  192 (377)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  192 (377)
                      +...|.++.-.....|++++|...+++....   .|+...|..+...+...|+.++|.+.+++....
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L---~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDL---EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            4455555555555566777777777666532   456666666666777777777777777666654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.88  E-value=0.00038  Score=51.05  Aligned_cols=96  Identities=10%  Similarity=-0.006  Sum_probs=60.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 042154           59 IYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACV  138 (377)
Q Consensus        59 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  138 (377)
                      ..-.+...+...|++++|.++|+-+....+.....++ .|.-++-..|++++|+..|....... +-++..+-.+..++.
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~-gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L  114 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWF-RLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHH-HHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            3444555556667777777777766666544444445 36666666777777777777666555 345666666666677


Q ss_pred             hCCChhHHHHHHHhchhh
Q 042154          139 NSKKFDEVDGLFKDLPHK  156 (377)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~  156 (377)
                      ..|+.+.|.+.|+..+..
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            777777777766665544

>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=97.88  E-value=5.2e-05  Score=48.09  Aligned_cols=66  Identities=17%  Similarity=0.023  Sum_probs=54.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-CHHHHHHHHHhhccCC
Q 042154          299 NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKEL-RVEEAKELVELGKTNS  365 (377)
Q Consensus       299 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~  365 (377)
                      ++..|..+...+...|++++|+..|++.++.... ++..|..+..++.+.| ++++|.+.++++.+..
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~   68 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLD   68 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Confidence            4567888888899999999999999999887544 6678888888999999 6999999998887644

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.86  E-value=0.00024  Score=54.53  Aligned_cols=65  Identities=6%  Similarity=-0.065  Sum_probs=29.6

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccc-hhhHHHHHHHHHhcCChHHHHHHHHHhhhh
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTN-TGIYTGTVQRLANAKRFRWIEEILEHQKQY   86 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   86 (377)
                      ..+..+...+...|++++|+..|++..+...-+++ ...+..+...+.+.|++++|...+++....
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  101 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL  101 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34444444455555555555555554432211111 234444445555555555555555544443

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

Probab=97.85  E-value=0.0002  Score=61.79  Aligned_cols=93  Identities=12%  Similarity=0.130  Sum_probs=72.4

Q ss_pred             HHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccC
Q 042154           27 VIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAA  106 (377)
Q Consensus        27 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  106 (377)
                      -...+...|++++|++.|+++.+..  +.+...|..+..++...|++++|+..++++....+..... +..+..+|...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~--P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a-~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD--PNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKA-YLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHH-HHHHHHHHHHhC
Confidence            3456677888999999998888765  5667788888888888889999988888888775443333 446788888888


Q ss_pred             CHHHHHHHHHhcCCCC
Q 042154          107 MFENARKVFDEMPGRN  122 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~  122 (377)
                      ++++|...|++..+.+
T Consensus        85 ~~~eA~~~~~~al~l~  100 (356)
T PLN03088         85 EYQTAKAALEKGASLA  100 (356)
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            8888888888887765

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.85  E-value=0.00059  Score=52.13  Aligned_cols=61  Identities=15%  Similarity=0.069  Sum_probs=25.1

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          201 FNTLLLGFYSNGRFADAEKIWETMVNMNVRP--NVRSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       201 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                      +..+...+...|++++|...|++.......+  ...++..+...+...|++++|+..+++...
T Consensus        38 ~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         38 YYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3334444444444444444444444321111  112344444444444444444444444443

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

Probab=97.84  E-value=0.00091  Score=57.77  Aligned_cols=93  Identities=9%  Similarity=-0.034  Sum_probs=70.9

Q ss_pred             HHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCC
Q 042154          133 LLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNG  212 (377)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  212 (377)
                      -...+...|++++|+..|++.++.  .+-+...|..+..+|.+.|++++|+..++++.+... .+...|..+..+|...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhC
Confidence            345567788888888888888753  123455777777888888888888888888887643 36667778888888888


Q ss_pred             CHHHHHHHHHHHHhCC
Q 042154          213 RFADAEKIWETMVNMN  228 (377)
Q Consensus       213 ~~~~a~~~~~~~~~~~  228 (377)
                      ++++|...|++..+.+
T Consensus        85 ~~~eA~~~~~~al~l~  100 (356)
T PLN03088         85 EYQTAKAALEKGASLA  100 (356)
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            8888888888888764

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.84  E-value=0.00062  Score=52.03  Aligned_cols=94  Identities=15%  Similarity=0.013  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRL--DLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARL  240 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  240 (377)
                      ...|..+...+...|++++|+..|+........+  ...++..+..++...|++++|+..+++..... +....++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            3345555666666677777777777666542221  22456666667777777777777777666542 22233444444


Q ss_pred             HHHH-------hcCCHHHHHHHHH
Q 042154          241 DGLA-------IEKQTKKALELVG  257 (377)
Q Consensus       241 ~~~~-------~~~~~~~a~~~~~  257 (377)
                      ..+.       ..|+++.|...++
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHH
Confidence            4444       5555554444333

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.83  E-value=0.01  Score=48.19  Aligned_cols=179  Identities=12%  Similarity=0.037  Sum_probs=97.6

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhhcCCCccch--hHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 042154           62 GTVQRLANAKRFRWIEEILEHQKQYKDISKEGF--TARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN  139 (377)
Q Consensus        62 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  139 (377)
                      .....+...|++++|++.|+.+...-+.+....  .-.++.++.+.+++++|...|++..+....-....+...+.+.+.
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            344445667888888888888776543332211  013667778888888888888887765421122233333333221


Q ss_pred             --CC---------------C---hhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 042154          140 --SK---------------K---FDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLI  199 (377)
Q Consensus       140 --~~---------------~---~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  199 (377)
                        .+               |   ..+|+..|+++.++   -|+             ..-..+|...+..+...    =..
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~---yP~-------------S~ya~~A~~rl~~l~~~----la~  176 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG---YPN-------------SQYTTDATKRLVFLKDR----LAK  176 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH---CcC-------------ChhHHHHHHHHHHHHHH----HHH
Confidence              11               1   12344444444443   233             22234444433333321    011


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNM--NVRPNVRSYNARLDGLAIEKQTKKALELVGEMR  260 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  260 (377)
                      .--.+...|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|......+.
T Consensus       177 ~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        177 YELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            1124666777788888888888877754  122234455667788888888888877766554

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

Probab=97.82  E-value=0.00036  Score=53.69  Aligned_cols=101  Identities=21%  Similarity=0.175  Sum_probs=70.0

Q ss_pred             CCHHhHHHHHHHHHc-----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 042154          196 LDLITFNTLLLGFYS-----NGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFT  270 (377)
Q Consensus       196 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~  270 (377)
                      .+-.+|..+++.|.+     .|..+-....+..|.+.|+.-|..+|+.|++.+=+ |.+-               |... 
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv---------------p~n~-  107 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV---------------PRNF-  107 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc---------------cccH-
Confidence            467777777777764     46777777888888888888888888888887743 3221               1111 


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHH---hcCCCCCHHHHHHHHHHHHhcCC
Q 042154          271 FYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEKGD  315 (377)
Q Consensus       271 ~~~l~~~~~~~~~~~~a~~~~~---~~~~~~~~~~~~~l~~~~~~~g~  315 (377)
                      +-.+..-  .-.+-+-|+++++   ..|+.||..++..++..+++.+.
T Consensus       108 fQ~~F~h--yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  108 FQAEFMH--YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHhcc--CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            1111111  1234566777777   89999999999999999987764

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

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.81  E-value=0.0044  Score=51.80  Aligned_cols=92  Identities=11%  Similarity=0.085  Sum_probs=45.9

Q ss_pred             HHHHHc-CCHHHHHHHHHHHHHC----CCC-CCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC-----CCHH-HHHH
Q 042154          171 KAFVDK-GSLDSANTLLYEMEKK----GIR-LDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVR-----PNVR-SYNA  238 (377)
Q Consensus       171 ~~~~~~-~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~-~~~~  238 (377)
                      ..|... |+++.|.+.|++..+.    +.. .-..++..+...+.+.|++++|.++|++.......     .+.. .+-.
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~  201 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLK  201 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHH
Confidence            344454 6777777777665531    210 01234555666677777777777777766653221     1111 1222


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          239 RLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       239 l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      .+-++...|++..|.+.+++....
T Consensus       202 a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  202 AILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh
Confidence            233444556666677776666543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.78  E-value=8.2e-05  Score=46.52  Aligned_cols=60  Identities=18%  Similarity=0.123  Sum_probs=44.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          306 LVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       306 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      +...+.+.|++++|.+.|+++++..+. +...+..+..++...|++++|..+++++.+..+
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P   62 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALELDP   62 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            445677888888888888888876533 666777788888888888888888888766543

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.77  E-value=0.00058  Score=55.06  Aligned_cols=98  Identities=15%  Similarity=0.183  Sum_probs=68.6

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHH
Q 042154          207 GFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD-VFTFYALIKGFVNEGNLE  285 (377)
Q Consensus       207 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~  285 (377)
                      -+.+.+++.+|+..|.+.++.. +-|.+.|..-..+|.+.|.++.|++-.+..+..  .|. ..+|..|..+|...|+++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcHH
Confidence            3556677888888888777764 345666777777788888888877777776663  333 457777777888888888


Q ss_pred             HHHHHHH-hcCCCCCHHHHHHHH
Q 042154          286 EAKRWYN-KSGCGMNKAIFKLLV  307 (377)
Q Consensus       286 ~a~~~~~-~~~~~~~~~~~~~l~  307 (377)
                      +|.+.|+ ...+.|+-.+|..=+
T Consensus       167 ~A~~aykKaLeldP~Ne~~K~nL  189 (304)
T KOG0553|consen  167 EAIEAYKKALELDPDNESYKSNL  189 (304)
T ss_pred             HHHHHHHhhhccCCCcHHHHHHH
Confidence            8887777 666677666654433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.75  E-value=0.0036  Score=56.70  Aligned_cols=141  Identities=15%  Similarity=0.111  Sum_probs=87.5

Q ss_pred             CCCCHHhHHHHHHHHHc--CC---CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcC--------CHHHHHHHHHHH
Q 042154          194 IRLDLITFNTLLLGFYS--NG---RFADAEKIWETMVNMNVRPN-VRSYNARLDGLAIEK--------QTKKALELVGEM  259 (377)
Q Consensus       194 ~~~~~~~~~~l~~~~~~--~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~--------~~~~a~~~~~~~  259 (377)
                      .+.+...|...+.+...  .+   +...|..+|++..+..  |+ ...|..+..++....        +...+.+...+.
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            45567777777776443  22   3668888888888764  44 344444433332221        123334444443


Q ss_pred             HhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhh
Q 042154          260 RSK-EINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAP  337 (377)
Q Consensus       260 ~~~-g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  337 (377)
                      ... ....+...|..+.-.....|++++|...++ .....|+...|..+...+...|+.++|.+.++++...  .|...+
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~pt  488 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGENT  488 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCch
Confidence            332 123345666666666666788888888888 5555677777888888888888888888888888774  344444


Q ss_pred             H
Q 042154          338 L  338 (377)
Q Consensus       338 ~  338 (377)
                      |
T Consensus       489 ~  489 (517)
T PRK10153        489 L  489 (517)
T ss_pred             H
Confidence            4

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.69  E-value=0.0055  Score=51.84  Aligned_cols=258  Identities=11%  Similarity=-0.002  Sum_probs=142.5

Q ss_pred             HHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhH
Q 042154           66 RLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDE  145 (377)
Q Consensus        66 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  145 (377)
                      .+.+..++..|+..+..+.+..+.. ...|..-+..+...|++++|.--.+.-.+.. +-........-+++...++..+
T Consensus        58 ~~yk~k~Y~nal~~yt~Ai~~~pd~-a~yy~nRAa~~m~~~~~~~a~~dar~~~r~k-d~~~k~~~r~~~c~~a~~~~i~  135 (486)
T KOG0550|consen   58 AFYKQKTYGNALKNYTFAIDMCPDN-ASYYSNRAATLMMLGRFEEALGDARQSVRLK-DGFSKGQLREGQCHLALSDLIE  135 (486)
T ss_pred             hHHHHhhHHHHHHHHHHHHHhCccc-hhhhchhHHHHHHHHhHhhcccchhhheecC-CCccccccchhhhhhhhHHHHH
Confidence            4455667777888777777765444 4444445566666777777765554433321 0011122222233333333333


Q ss_pred             HHHHHH---------------hchhhcCCCcCHHHHHHHH-HHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH--H
Q 042154          146 VDGLFK---------------DLPHKLGIEPDLVSYNTII-KAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLL--G  207 (377)
Q Consensus       146 a~~~~~---------------~~~~~~~~~p~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~  207 (377)
                      |.+.++               .......-+|.-.+|..+- .++...|+.++|.+.-....+.+.. +.  +..+++  +
T Consensus       136 A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~-n~--~al~vrg~~  212 (486)
T KOG0550|consen  136 AEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDAT-NA--EALYVRGLC  212 (486)
T ss_pred             HHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccc-hh--HHHHhcccc
Confidence            332222               2221111123333444443 4556778888888877777665322 22  333333  3


Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHH---HH----------HHHhcCCHHHHHHHHHHHHhC---CCCCCHHHH
Q 042154          208 FYSNGRFADAEKIWETMVNMNVRPNVRSYNAR---LD----------GLAIEKQTKKALELVGEMRSK---EINPDVFTF  271 (377)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---~~----------~~~~~~~~~~a~~~~~~~~~~---g~~p~~~~~  271 (377)
                      +.-.++.+.+..-|++.+..+  |+...--.+   ..          -..+.|++.+|.+.|.+.+..   ...|+...|
T Consensus       213 ~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY  290 (486)
T KOG0550|consen  213 LYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLY  290 (486)
T ss_pred             cccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHH
Confidence            445667888888888888765  444332221   11          124667888888888887764   334555666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHH-hcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          272 YALIKGFVNEGNLEEAKRWYN-KSGCGMNK-AIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       272 ~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      .....+..+.|+.++|+.--+ ...+.+.. ..|..-..++...++|++|.+-++...+..
T Consensus       291 ~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  291 GNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            666667777888888877666 43333321 233333446667778888888888777653

>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=97.67  E-value=0.00013  Score=46.11  Aligned_cols=55  Identities=22%  Similarity=0.218  Sum_probs=34.7

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          311 CEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       311 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      .+.|++++|+++|+++.+..+. +......+..+|.+.|++++|.++++++....+
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~   56 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQDP   56 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGT
T ss_pred             hhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            3556677777777776665443 555555666777777777777777776665544

...

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.61  E-value=0.036  Score=47.46  Aligned_cols=161  Identities=14%  Similarity=0.100  Sum_probs=100.7

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCC---CCCCHHhHHHHHHHHHc---CCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 042154          167 NTIIKAFVDKGSLDSANTLLYEMEKKG---IRLDLITFNTLLLGFYS---NGRFADAEKIWETMVNMNVRPNVRSYNARL  240 (377)
Q Consensus       167 ~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  240 (377)
                      ..++-+|....+++...++.+.+....   +..+..+-.....++.+   .|+.++|++++..+......++..+|..+.
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            344456888888888888888887652   22233333445556666   788889998888866555567777887777


Q ss_pred             HHHHh---------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-HH---HHHHHH---H----hcC---CC
Q 042154          241 DGLAI---------EKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGN-LE---EAKRWY---N----KSG---CG  297 (377)
Q Consensus       241 ~~~~~---------~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~-~~---~a~~~~---~----~~~---~~  297 (377)
                      +.|-.         ....++|+..|.+.-+.  .|+...--.++..+...|. .+   +..++-   .    +.|   -.
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            66532         22367788888776653  3554333223333333332 11   222222   1    222   23


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          298 MNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       298 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      .+...+..++.++.-.|+.++|.+..++|.+.
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            45566778888899999999999999999876

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.60  E-value=0.034  Score=47.02  Aligned_cols=103  Identities=19%  Similarity=0.215  Sum_probs=50.0

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042154          203 TLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEG  282 (377)
Q Consensus       203 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~  282 (377)
                      .-+.-+...|+...|.++-.+.   .+ |+...|-..+.+++..++|++...+-..   .   -++.-|..++.+|.+.|
T Consensus       182 ~Ti~~li~~~~~k~A~kl~k~F---kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~~~~  251 (319)
T PF04840_consen  182 DTIRKLIEMGQEKQAEKLKKEF---KV-PDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEACLKYG  251 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHc---CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHHHHCC
Confidence            3344444455555555543333   12 5555555556666666666555443322   1   12244555555555556


Q ss_pred             CHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 042154          283 NLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNL  322 (377)
Q Consensus       283 ~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  322 (377)
                      +..+|..++...       .+..-+..|.+.|++.+|.+.
T Consensus       252 ~~~eA~~yI~k~-------~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  252 NKKEASKYIPKI-------PDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             CHHHHHHHHHhC-------ChHHHHHHHHHCCCHHHHHHH
Confidence            655555554431       112334455555555555544

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

>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=97.59  E-value=0.00023  Score=45.07  Aligned_cols=65  Identities=11%  Similarity=0.121  Sum_probs=45.8

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcC-ChHHHHHHHHHhhhh
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAK-RFRWIEEILEHQKQY   86 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~   86 (377)
                      ++..|..+...+...|++++|+..|++..+.+  +.+...|..+..++...| ++++|++.+++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            34566777777777777777777777777665  556667777777777777 677777777766554

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.59  E-value=0.00061  Score=54.96  Aligned_cols=104  Identities=17%  Similarity=0.209  Sum_probs=77.9

Q ss_pred             HHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChh
Q 042154           65 QRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFD  144 (377)
Q Consensus        65 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  144 (377)
                      .-+.+.+++.+|+..|.++.... +.+..+|..-..+|.+.|.++.|++-.+..+..+ +-...+|..|..+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHH
Confidence            44567888888888888888764 3455566667888888888888888887777765 334668888888888888888


Q ss_pred             HHHHHHHhchhhcCCCcCHHHHHHHHHHH
Q 042154          145 EVDGLFKDLPHKLGIEPDLVSYNTIIKAF  173 (377)
Q Consensus       145 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  173 (377)
                      +|++.|++.+   .+.|+..+|-.=++..
T Consensus       167 ~A~~aykKaL---eldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  167 EAIEAYKKAL---ELDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHHhhh---ccCCCcHHHHHHHHHH
Confidence            8888888776   5678777776666544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.59  E-value=0.017  Score=43.40  Aligned_cols=129  Identities=9%  Similarity=0.041  Sum_probs=81.8

Q ss_pred             CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHH
Q 042154          195 RLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK---EINPDVFTF  271 (377)
Q Consensus       195 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---g~~p~~~~~  271 (377)
                      .|+...-..|..++...|+..+|...|++...--...|....-.+.++....+++..|...++++-+.   +-.||.  .
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~--~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG--H  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc--h
Confidence            46666666677777777777777777777765444556666666777777777777777777776654   222332  3


Q ss_pred             HHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 042154          272 YALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKR  325 (377)
Q Consensus       272 ~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  325 (377)
                      ..+...+...|....|+..|+ ....-|+...-......+.+.|+.+++..-+..
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            345566667777777777777 444556655544445556666766655544333

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.58  E-value=0.026  Score=48.24  Aligned_cols=173  Identities=14%  Similarity=0.049  Sum_probs=111.7

Q ss_pred             HHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCHHHH
Q 042154          198 LITFNTLLLGFYSNGRFADAEKIWETMVNMN---VRPNVRSYNARLDGLAI---EKQTKKALELVGEMRSKEINPDVFTF  271 (377)
Q Consensus       198 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~g~~p~~~~~  271 (377)
                      ..+...++-+|....+++..+++.+.+...-   +.-....-....-++.+   .|+.++|+.++..+......+++.+|
T Consensus       141 ~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~  220 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTL  220 (374)
T ss_pred             hhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHH
Confidence            3344456667999999999999999998751   11222333344556666   89999999999997666667888899


Q ss_pred             HHHHHHHHh---------cCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCC-hH---HHHHHH----HHHHhcC---
Q 042154          272 YALIKGFVN---------EGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGD-LD---FAFNLC----KRTFSER---  330 (377)
Q Consensus       272 ~~l~~~~~~---------~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~-~~---~a~~~~----~~~~~~~---  330 (377)
                      ..+...|-.         ....++|...+. ...+.|+...=-.++..+...|. .+   +..++-    ....+.|   
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~  300 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLE  300 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccc
Confidence            888877642         234778888888 44444554321112222222232 21   222332    1222333   


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCceeee
Q 042154          331 CLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYN  370 (377)
Q Consensus       331 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  370 (377)
                      ...+-..+..++.+..-.|+.++|.+..++|.+..++.+.
T Consensus       301 ~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W~  340 (374)
T PF13281_consen  301 KMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAWE  340 (374)
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcchh
Confidence            2335556678899999999999999999999988776664

>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=97.56  E-value=0.00027  Score=44.58  Aligned_cols=21  Identities=19%  Similarity=0.474  Sum_probs=7.5

Q ss_pred             HHHHHHccCCHHHHHHHHHhc
Q 042154           98 LIALYGKAAMFENARKVFDEM  118 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~  118 (377)
                      ++.+|.+.|++++|..+++.+
T Consensus        31 la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen   31 LAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             HHHHHHHTT-HHHHHHHHHCC
T ss_pred             HHHHHHHcCCHHHHHHHHHHH
Confidence            333333333333333333333

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.56  E-value=0.006  Score=43.14  Aligned_cols=88  Identities=13%  Similarity=0.014  Sum_probs=48.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCC----HHHHHHHHHHHHh
Q 042154          240 LDGLAIEKQTKKALELVGEMRSKEINPD--VFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMN----KAIFKLLVPFVCE  312 (377)
Q Consensus       240 ~~~~~~~~~~~~a~~~~~~~~~~g~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~----~~~~~~l~~~~~~  312 (377)
                      ..++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..+++ ...-.|+    ......+.-++..
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            4455566666666666666666655433  2345556666666677777776666 1111222    1222222335566


Q ss_pred             cCChHHHHHHHHHHH
Q 042154          313 KGDLDFAFNLCKRTF  327 (377)
Q Consensus       313 ~g~~~~a~~~~~~~~  327 (377)
                      .|+.++|+..+-...
T Consensus        88 ~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   88 LGRPKEALEWLLEAL  102 (120)
T ss_pred             CCCHHHHHHHHHHHH
Confidence            677777766665444

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.55  E-value=0.00042  Score=43.21  Aligned_cols=59  Identities=12%  Similarity=0.184  Sum_probs=45.8

Q ss_pred             HHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhc
Q 042154           27 VIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYK   87 (377)
Q Consensus        27 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   87 (377)
                      +...+.+.|++++|+..|+.+.+..  |-+...+..+..++...|++++|...++++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            4566778888888888888888765  5577788888888888888888888888876653

>PRK15331 chaperone protein SicA; Provisional

Probab=97.54  E-value=0.0046  Score=45.74  Aligned_cols=83  Identities=6%  Similarity=-0.193  Sum_probs=49.4

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---hcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 042154          244 AIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEKGDLDFAF  320 (377)
Q Consensus       244 ~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~~~~~~~~l~~~~~~~g~~~~a~  320 (377)
                      ...|++++|..+|.-+...+. -+..-+..|..++-..+++++|...+.   ... .-|+..+-....++...|+.+.|.
T Consensus        48 y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHHH
Confidence            356777777777776665432 244445566666666777777777776   111 123333344556667777777777


Q ss_pred             HHHHHHHh
Q 042154          321 NLCKRTFS  328 (377)
Q Consensus       321 ~~~~~~~~  328 (377)
                      ..|...++
T Consensus       126 ~~f~~a~~  133 (165)
T PRK15331        126 QCFELVNE  133 (165)
T ss_pred             HHHHHHHh
Confidence            77766665

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.51  E-value=0.015  Score=41.12  Aligned_cols=88  Identities=19%  Similarity=0.075  Sum_probs=43.5

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCC--HHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHH
Q 042154          171 KAFVDKGSLDSANTLLYEMEKKGIRLD--LITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPN----VRSYNARLDGLA  244 (377)
Q Consensus       171 ~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~  244 (377)
                      .++-..|+.++|+.+|++....|....  ...+-.+...+...|++++|..++++.....  |+    ......+..++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHH
Confidence            344455666666666666665554432  2234444555555666666666666555432  22    111122233444


Q ss_pred             hcCCHHHHHHHHHHHH
Q 042154          245 IEKQTKKALELVGEMR  260 (377)
Q Consensus       245 ~~~~~~~a~~~~~~~~  260 (377)
                      ..|+.++|++.+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            5566666665554444

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.47  E-value=0.052  Score=45.93  Aligned_cols=107  Identities=19%  Similarity=0.144  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc
Q 042154          234 RSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEK  313 (377)
Q Consensus       234 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~  313 (377)
                      .+.+..+.-+...|+...|.++-++..    -|+..-|...+.+++..++|++-.++....   ..+.-|..++.+|.+.
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~sk---KsPIGyepFv~~~~~~  250 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKSK---KSPIGYEPFVEACLKY  250 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhCC---CCCCChHHHHHHHHHC
Confidence            455666777788999999999887774    478889999999999999999988876532   2346788899999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 042154          314 GDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKEL  357 (377)
Q Consensus       314 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  357 (377)
                      |+..+|..+..+     ++     +..-+..|.+.|++.+|.+.
T Consensus       251 ~~~~eA~~yI~k-----~~-----~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  251 GNKKEASKYIPK-----IP-----DEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             CCHHHHHHHHHh-----CC-----hHHHHHHHHHCCCHHHHHHH
Confidence            999999988866     22     24456677778888777655

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.44  E-value=0.002  Score=54.43  Aligned_cols=283  Identities=14%  Similarity=0.064  Sum_probs=144.4

Q ss_pred             HHhhhcccHHHHHHHHHhcccCCCCccc----hhhHHHHHHHHHhcCChHHHHHHHHHhhh----hcCCC-ccchhHHHH
Q 042154           29 RGIYKENNLKRLVDKFKKSSDLGRFRTN----TGIYTGTVQRLANAKRFRWIEEILEHQKQ----YKDIS-KEGFTARLI   99 (377)
Q Consensus        29 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~   99 (377)
                      .-+|+.|+....+.+|+...+.|  ..|    ..+|+.|..+|.-.+++++|+++...=..    .|... .......|.
T Consensus        25 ERLck~gdcraGv~ff~aA~qvG--TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLG  102 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVG--TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLG  102 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhc--chHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhcccccccccc
Confidence            45889999999999999998877  333    34577777788888889998887643211    11000 001111244


Q ss_pred             HHHHccCCHHHHHHHHHh----cCCCCC-CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHH
Q 042154          100 ALYGKAAMFENARKVFDE----MPGRNC-EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFV  174 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~----~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  174 (377)
                      ..+--.|.+++|.-.-.+    ..+.|- .....++..+...|...|+.-...     -.+..|-.++.++         
T Consensus       103 NtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~-----~pee~g~f~~ev~---------  168 (639)
T KOG1130|consen  103 NTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLE-----APEEKGAFNAEVT---------  168 (639)
T ss_pred             chhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCC-----ChhhcccccHHHH---------
Confidence            445555666665543222    111110 011234444555555555421100     0000011121111         


Q ss_pred             HcCCHHHHHHHHHHH----HHCCC-CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHH----hCCCC-CCHHHHHHHHHHHH
Q 042154          175 DKGSLDSANTLLYEM----EKKGI-RLDLITFNTLLLGFYSNGRFADAEKIWETMV----NMNVR-PNVRSYNARLDGLA  244 (377)
Q Consensus       175 ~~~~~~~a~~~~~~~----~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~l~~~~~  244 (377)
                        ..++.|.++|.+=    .+.|- ...-..|..|.+.|.-.|+++.|+...+.-+    +.|-+ .....+..+..++.
T Consensus       169 --~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hi  246 (639)
T KOG1130|consen  169 --SALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHI  246 (639)
T ss_pred             --HHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhh
Confidence              0122233333221    11110 1123456667777777788888877655332    22311 22345667777777


Q ss_pred             hcCCHHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHH-------hcCC-CCCHHHHHHHHHHHH
Q 042154          245 IEKQTKKALELVGEMRSK----EIN-PDVFTFYALIKGFVNEGNLEEAKRWYN-------KSGC-GMNKAIFKLLVPFVC  311 (377)
Q Consensus       245 ~~~~~~~a~~~~~~~~~~----g~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~-~~~~~~~~~l~~~~~  311 (377)
                      -.|+++.|.+.|+.-...    |-+ ....+..+|...|.-..++++|+.++.       ..+- .-....+-+|..++.
T Consensus       247 flg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~  326 (639)
T KOG1130|consen  247 FLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFN  326 (639)
T ss_pred             hhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            778888887777664322    211 123344456666666666777776666       1111 112345556666666


Q ss_pred             hcCChHHHHHHHHHHHhc
Q 042154          312 EKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       312 ~~g~~~~a~~~~~~~~~~  329 (377)
                      ..|.-++|+.+...-++.
T Consensus       327 alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  327 ALGEHRKALYFAELHLRS  344 (639)
T ss_pred             hhhhHHHHHHHHHHHHHH
Confidence            666667776666655554

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.43  E-value=0.0049  Score=50.10  Aligned_cols=101  Identities=11%  Similarity=0.046  Sum_probs=75.5

Q ss_pred             CcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCC---CHHHHHHHHHHHHhCCCCCCHHHH
Q 042154          160 EPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNG---RFADAEKIWETMVNMNVRPNVRSY  236 (377)
Q Consensus       160 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~  236 (377)
                      +-|...|-.|..+|...|+.+.|..-|....+.. .++...+..+..++....   .-.++..+|+++...+ +-|..+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            4466788888888888888888888888888763 346666766766654432   4567888888888765 3466677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          237 NARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       237 ~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      ..+...+...|++.+|...|+.|.+.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            77777888888888888888888886

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.40  E-value=0.016  Score=45.76  Aligned_cols=171  Identities=17%  Similarity=0.175  Sum_probs=83.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-
Q 042154          170 IKAFVDKGSLDSANTLLYEMEKKGI--RLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIE-  246 (377)
Q Consensus       170 ~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  246 (377)
                      ...+...|++++|.+.|+.+...-.  +--....-.++.++.+.|+++.|...+++..+.-.......+...+.+.+.. 
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~   91 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYK   91 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHH
Confidence            3444556666666666666654311  1112334445556666666666666666665432111112222222222111 


Q ss_pred             ------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 042154          247 ------------KQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKG  314 (377)
Q Consensus       247 ------------~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g  314 (377)
                                  +...+|...|               ..++.-|-.+.-..+|...+....... ...--.+.+.|.+.|
T Consensus        92 ~~~~~~~~~~D~~~~~~A~~~~---------------~~li~~yP~S~y~~~A~~~l~~l~~~l-a~~e~~ia~~Y~~~~  155 (203)
T PF13525_consen   92 QIPGILRSDRDQTSTRKAIEEF---------------EELIKRYPNSEYAEEAKKRLAELRNRL-AEHELYIARFYYKRG  155 (203)
T ss_dssp             HHHHHH-TT---HHHHHHHHHH---------------HHHHHH-TTSTTHHHHHHHHHHHHHHH-HHHHHHHHHHHHCTT
T ss_pred             hCccchhcccChHHHHHHHHHH---------------HHHHHHCcCchHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHcc
Confidence                        1122333333               344444444555555555444110000 011112567789999


Q ss_pred             ChHHHHHHHHHHHhcCCC--CChhhHHHHHHHHHhcCCHHHHHH
Q 042154          315 DLDFAFNLCKRTFSERCL--VDQAPLQLVVDRLAKELRVEEAKE  356 (377)
Q Consensus       315 ~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~  356 (377)
                      .+..|..-++.+++.-+.  ........++.+|.+.|..+.|..
T Consensus       156 ~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  156 KYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             -HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             cHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            999999999999886222  112245677889999998885543

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.39  E-value=0.0025  Score=51.74  Aligned_cols=129  Identities=9%  Similarity=0.036  Sum_probs=89.3

Q ss_pred             HHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHcc---CCHHHHHH
Q 042154           37 LKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKA---AMFENARK  113 (377)
Q Consensus        37 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~A~~  113 (377)
                      ++..+.-++.-.+.+  |-|...|-.|...|...|+++.|...|.+..+..+.. ...+..+...+...   ....++..
T Consensus       138 ~~~l~a~Le~~L~~n--P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n-~~~~~g~aeaL~~~a~~~~ta~a~~  214 (287)
T COG4235         138 MEALIARLETHLQQN--PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDN-PEILLGLAEALYYQAGQQMTAKARA  214 (287)
T ss_pred             HHHHHHHHHHHHHhC--CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCC-HHHHHHHHHHHHHhcCCcccHHHHH
Confidence            333334444444444  6788899999999999999999999999988875433 33333455544333   34677889


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHH
Q 042154          114 VFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKA  172 (377)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  172 (377)
                      +|+++.... +-++.+...+...+...|++.+|...++.|.+.   .|....+..++..
T Consensus       215 ll~~al~~D-~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~---lp~~~~rr~~ie~  269 (287)
T COG4235         215 LLRQALALD-PANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL---LPADDPRRSLIER  269 (287)
T ss_pred             HHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc---CCCCCchHHHHHH
Confidence            999988876 456777777888899999999999999998753   3443445555543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.39  E-value=0.00067  Score=43.46  Aligned_cols=58  Identities=21%  Similarity=0.039  Sum_probs=35.9

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          308 PFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       308 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      ..|.+.+++++|.+++++++..++. ++..+.....++.+.|++++|.+.++.+.+.++
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            3456666666666666666665433 555555566666666666666666666665554

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.32  E-value=0.012  Score=46.90  Aligned_cols=129  Identities=14%  Similarity=0.122  Sum_probs=70.3

Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHH-----HH
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTI-----IK  171 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l-----~~  171 (377)
                      .++.++...+.+.-...++.++.+...+.++.....+++.-.+.||.+.|...|+...+. .-..|..+.+.+     ..
T Consensus       182 ~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~-~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  182 SMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHhhhhh
Confidence            456666666666666666666666554555666666666666666666666666655332 222232222222     22


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          172 AFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       172 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      .+.-.+++..|...+.+....+.. |....|.-.-+..-.|+..+|++.++.|.+.
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             heecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            334455666666666666554322 4444443333333446666777777766664

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.29  E-value=0.14  Score=46.87  Aligned_cols=53  Identities=9%  Similarity=0.059  Sum_probs=31.1

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 042154          126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYE  188 (377)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  188 (377)
                      +....-.+..++...|..++|.+.|-+..     .|.     ..+..|...++|.+|.++-+.
T Consensus       851 ~s~llp~~a~mf~svGMC~qAV~a~Lr~s-----~pk-----aAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  851 DSELLPVMADMFTSVGMCDQAVEAYLRRS-----LPK-----AAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             ccchHHHHHHHHHhhchHHHHHHHHHhcc-----CcH-----HHHHHHHHHHHHHHHHHHHHh
Confidence            44555666777777777777776664431     121     233556666667666665544

>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=97.28  E-value=0.0081  Score=42.92  Aligned_cols=101  Identities=8%  Similarity=-0.045  Sum_probs=65.6

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHH
Q 042154           57 TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGA  136 (377)
Q Consensus        57 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  136 (377)
                      ..++..++.++++.|+.+....+++..-...  .+...-         .+.         .-......|+.....+++.+
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~--~~~~~~---------~~~---------~~~~spl~Pt~~lL~AIv~s   61 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGID--VNGKKK---------EGD---------YPPSSPLYPTSRLLIAIVHS   61 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCC--CCCccc---------cCc---------cCCCCCCCCCHHHHHHHHHH
Confidence            4456666666666666666666665432211  111000         000         12233456888889999999


Q ss_pred             HHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154          137 CVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      |+.+|++..|+++.+...+.++++.+..+|..|++-+...-
T Consensus        62 f~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~s  102 (126)
T PF12921_consen   62 FGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVLS  102 (126)
T ss_pred             HHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhc
Confidence            99999999999999988888888888888888887654433

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

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.28  E-value=0.1  Score=47.25  Aligned_cols=86  Identities=13%  Similarity=0.020  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHH-----------
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAI-----------  302 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~-----------  302 (377)
                      +...+..-+-+...+..|-++|..|-+         ...+++.....+++++|..+-+ .....|++..           
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~Dr  819 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDR  819 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhh
Confidence            333344444455556666677766643         2245666677777777777777 3334444321           


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          303 FKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       303 ~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      |.-.-++|.+.|+-.+|.++++++...
T Consensus       820 FeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  820 FEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            112223566777777777777776554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.26  E-value=0.064  Score=42.37  Aligned_cols=59  Identities=14%  Similarity=0.088  Sum_probs=27.9

Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCC--CCccHHHHHHHHHHHHhCCChhHHHHHHHhchhh
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRN--CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK  156 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (377)
                      ....+...|++++|.+.|+.+....  -+-...+.-.++.++.+.|+++.|...++++.+.
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4444555555666666555554432  0111223334455555555555555555555544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.19  E-value=0.005  Score=50.42  Aligned_cols=94  Identities=17%  Similarity=0.145  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC----CHHHHH
Q 042154          234 RSYNARLDGLAIEKQTKKALELVGEMRSKEINPD----VFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM----NKAIFK  304 (377)
Q Consensus       234 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~----~~~~~~  304 (377)
                      ..|...+..+.+.|++++|...|+.+.+.  .|+    ...+..+..+|...|++++|...|+ -....|    ....+-
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            34554444445567777777777777764  233    2355566677777777777777777 111111    233444


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          305 LLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       305 ~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      .+..++...|+.++|.++|+++++.
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4555666777777777777777664

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.17  E-value=0.014  Score=47.92  Aligned_cols=95  Identities=16%  Similarity=0.157  Sum_probs=46.2

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCCHHhHHH
Q 042154          130 FNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDL----VSYNTIIKAFVDKGSLDSANTLLYEMEKKGI--RLDLITFNT  203 (377)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~  203 (377)
                      |...+..+.+.|++++|+..|+.+...   -|+.    .++..+..+|...|++++|...|+.+.+.-.  +.....+..
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~---yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKK---YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH---CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            333333334455666666666555543   2221    2444555555556666666666655554311  112223333


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          204 LLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       204 l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      +..++...|+.++|..+|+.+.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444455555555555555555543

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.16  E-value=0.001  Score=43.32  Aligned_cols=62  Identities=18%  Similarity=0.101  Sum_probs=42.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcC--CC---CC-hhhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          301 AIFKLLVPFVCEKGDLDFAFNLCKRTFSER--CL---VD-QAPLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       301 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~---~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      .+++.+...|...|++++|+..|++.++..  ..   |+ ..++..+..++...|++++|.+.++++.
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            356777777888888888888887776541  11   11 3356677778888888888888887764

...

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.14  E-value=0.029  Score=50.46  Aligned_cols=178  Identities=17%  Similarity=0.043  Sum_probs=115.1

Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC-CCCCH-----HHHHHHHHHHHh----cCCHHHH
Q 042154          183 NTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN-VRPNV-----RSYNARLDGLAI----EKQTKKA  252 (377)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~----~~~~~~a  252 (377)
                      .-+|.-+... ++|   .+..++....-.||-+.+++.+.+..+.+ +.-..     ..|..++..++.    ....+.|
T Consensus       177 ~G~f~L~lSl-LPp---~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a  252 (468)
T PF10300_consen  177 FGLFNLVLSL-LPP---KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEA  252 (468)
T ss_pred             HHHHHHHHHh-CCH---HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHH
Confidence            4444444444 232   24556777777899999999988876543 22111     224444444443    4567889


Q ss_pred             HHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHh-cC----C-CCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 042154          253 LELVGEMRSKEINPDVFTFY-ALIKGFVNEGNLEEAKRWYNK-SG----C-GMNKAIFKLLVPFVCEKGDLDFAFNLCKR  325 (377)
Q Consensus       253 ~~~~~~~~~~g~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~-~~----~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  325 (377)
                      .+++..+.+.  -|+...|. .-.+.+...|++++|.+.++. ..    . ......+--+..++.-.++|++|.+.|..
T Consensus       253 ~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~  330 (468)
T PF10300_consen  253 EELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLR  330 (468)
T ss_pred             HHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHH
Confidence            9999999885  56765554 334456678999999999991 11    1 11223444567788899999999999999


Q ss_pred             HHhcCCCCChhhHHHHH-HHHHhcCCH-------HHHHHHHHhhccCCce
Q 042154          326 TFSERCLVDQAPLQLVV-DRLAKELRV-------EEAKELVELGKTNSYC  367 (377)
Q Consensus       326 ~~~~~~~~~~~~~~~l~-~~~~~~g~~-------~~A~~~~~~~~~~~~~  367 (377)
                      +.+..-- +..+|..+. .++...|+.       ++|.+++.++......
T Consensus       331 L~~~s~W-Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l~~k  379 (468)
T PF10300_consen  331 LLKESKW-SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPKLKQK  379 (468)
T ss_pred             HHhcccc-HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHHHHhh
Confidence            9986432 444554433 355668888       8899999888765443

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

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

Probab=97.13  E-value=0.016  Score=43.04  Aligned_cols=69  Identities=17%  Similarity=0.306  Sum_probs=34.1

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHH
Q 042154          201 FNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRS-----KEINPDVFT  270 (377)
Q Consensus       201 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~g~~p~~~~  270 (377)
                      ...++..+...|++++|..+.+.+.... +-+...|..+|.+|...|+...|.+.|+.+.+     .|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3344555555666666666666665543 34555566666666666666666666555432     255555544

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

>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=97.10  E-value=0.004  Score=46.29  Aligned_cols=69  Identities=19%  Similarity=0.342  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHH-----hCCCCCCHHH
Q 042154          166 YNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMV-----NMNVRPNVRS  235 (377)
Q Consensus       166 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~  235 (377)
                      ...++..+...|+++.|..+.+.+....+ .+...|..+|.+|...|+...|.++|+.+.     +.|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~dP-~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALDP-YDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHST-T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            33444455556666666666666665532 255566666666666666666666665553     2355555444

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

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=97.10  E-value=0.025  Score=50.17  Aligned_cols=156  Identities=13%  Similarity=0.165  Sum_probs=74.5

Q ss_pred             HhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHH
Q 042154           68 ANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVD  147 (377)
Q Consensus        68 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  147 (377)
                      .-.++++.+.++.+.-.-.+..| ....+.++..+-+.|-.+.|+++...         +   ..-.....+.|+++.|.
T Consensus       272 v~~~d~~~v~~~i~~~~ll~~i~-~~~~~~i~~fL~~~G~~e~AL~~~~D---------~---~~rFeLAl~lg~L~~A~  338 (443)
T PF04053_consen  272 VLRGDFEEVLRMIAASNLLPNIP-KDQGQSIARFLEKKGYPELALQFVTD---------P---DHRFELALQLGNLDIAL  338 (443)
T ss_dssp             HHTT-HHH-----HHHHTGGG---HHHHHHHHHHHHHTT-HHHHHHHSS----------H---HHHHHHHHHCT-HHHHH
T ss_pred             HHcCChhhhhhhhhhhhhcccCC-hhHHHHHHHHHHHCCCHHHHHhhcCC---------h---HHHhHHHHhcCCHHHHH
Confidence            34555666555543211111112 33344566666666666666655322         1   11234445666666666


Q ss_pred             HHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          148 GLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       148 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      ++.++.       .+...|..|.....+.|+++-|++.|.+...         +..|+-.|.-.|+.++..++.+.....
T Consensus       339 ~~a~~~-------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  339 EIAKEL-------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHCCCC-------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHhc-------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            554433       1444666666666666666666666655442         445555566666666666666555554


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042154          228 NVRPNVRSYNARLDGLAIEKQTKKALELVGE  258 (377)
Q Consensus       228 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (377)
                      |      -++....++...|+.++..+++.+
T Consensus       403 ~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  403 G------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             T-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             c------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4      133344444455666665555544

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.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.10  E-value=0.074  Score=40.18  Aligned_cols=130  Identities=18%  Similarity=0.145  Sum_probs=83.7

Q ss_pred             CCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC---CCCCHH
Q 042154          158 GIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN---VRPNVR  234 (377)
Q Consensus       158 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~  234 (377)
                      ...|++..-..+..++...|+..+|...|++...--+..|......+.++....+++..|...++.+.+..   -.||  
T Consensus        84 ~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--  161 (251)
T COG4700          84 AIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--  161 (251)
T ss_pred             hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--
Confidence            44666666666777777777777777777777765555667777777777777777777777777776543   1232  


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWY  291 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~  291 (377)
                      +.-.+.+.+...|.+..|..-|+.....  -|+...-......+.++|+.+++..-+
T Consensus       162 ~~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         162 GHLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             chHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHH
Confidence            3344566777777777777777777664  455444444444556666665555433

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=97.04  E-value=0.038  Score=39.02  Aligned_cols=137  Identities=15%  Similarity=0.155  Sum_probs=83.7

Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH---HHHHHHHHHHhcCCHH
Q 042154          209 YSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVF---TFYALIKGFVNEGNLE  285 (377)
Q Consensus       209 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~---~~~~l~~~~~~~~~~~  285 (377)
                      .-.|..++..++..+....   .+..-+|-+|--....-+-+-..+.++.+-+.   .|..   ..-.++.+|...|   
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGki---FDis~C~NlKrVi~C~~~~n---   83 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKI---FDISKCGNLKRVIECYAKRN---   83 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGG---S-GGG-S-THHHHHHHHHTT---
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCchhhcchHHHHHHHHHhc---
Confidence            3467778888888777764   24555666655555555555555555554332   2221   1223444444433   


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          286 EAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       286 ~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                                  .+.......+..+...|+-+.-.++++++.+ +-.+++...-.+..+|.+.|+..++.++++++.++|
T Consensus        84 ------------~~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   84 ------------KLSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             ---------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             ------------chHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence                        2345566678888999999999999999876 356788888899999999999999999999999988


Q ss_pred             ce
Q 042154          366 YC  367 (377)
Q Consensus       366 ~~  367 (377)
                      ..
T Consensus       151 ~k  152 (161)
T PF09205_consen  151 LK  152 (161)
T ss_dssp             -H
T ss_pred             hH
Confidence            64

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.02  E-value=0.016  Score=41.42  Aligned_cols=94  Identities=13%  Similarity=0.061  Sum_probs=52.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHH
Q 042154          232 NVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFV  310 (377)
Q Consensus       232 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~  310 (377)
                      |..++..++.++++.|+.+....+++..-.  +.++...-         .+.       +. .....|+..+..+++.+|
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~Wg--I~~~~~~~---------~~~-------~~~~spl~Pt~~lL~AIv~sf   62 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWG--IDVNGKKK---------EGD-------YPPSSPLYPTSRLLIAIVHSF   62 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcC--CCCCCccc---------cCc-------cCCCCCCCCCHHHHHHHHHHH
Confidence            456777788888888888877777765432  11111000         000       11 333456666666666666


Q ss_pred             HhcCChHHHHHHHHHHHhc-CCCCChhhHHHHHH
Q 042154          311 CEKGDLDFAFNLCKRTFSE-RCLVDQAPLQLVVD  343 (377)
Q Consensus       311 ~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~  343 (377)
                      +..|++..|+++.+...+. +++.+..+|..|+.
T Consensus        63 ~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   63 GYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             HhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            6666666666666665554 34444556665555

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

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.02  E-value=0.0021  Score=41.07  Aligned_cols=57  Identities=11%  Similarity=0.188  Sum_probs=38.7

Q ss_pred             HHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhc
Q 042154           29 RGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYK   87 (377)
Q Consensus        29 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   87 (377)
                      ..+.+.+++++|++.++.+...+  |.+...+.....++...|++++|.+.++...+..
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD--PDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC--cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            45666777777777777776654  5566666667777777777777777777766654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.95  E-value=0.14  Score=40.98  Aligned_cols=141  Identities=9%  Similarity=-0.043  Sum_probs=98.7

Q ss_pred             HhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH-----
Q 042154          199 ITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYA-----  273 (377)
Q Consensus       199 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~-----  273 (377)
                      .+.+.++..+...|.+.-....+.+.++...+.++.....+.+.-.+.|+.+.|...|++..+..-..+..+.+.     
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            345667777888889999999999999887667788888899999999999999999998776533333333333     


Q ss_pred             HHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHH
Q 042154          274 LIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLV  341 (377)
Q Consensus       274 l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  341 (377)
                      ....|.-++++..|...+.  -.....++...|.-.-++.-.|+...|++.++.|...  .|.+.+-+++
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~  325 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESV  325 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhH
Confidence            3334556778888888876  2222334444444444556678999999999999885  4444444433

>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=96.92  E-value=0.0012  Score=42.87  Aligned_cols=64  Identities=9%  Similarity=0.082  Sum_probs=38.5

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcccC----CCCccc-hhhHHHHHHHHHhcCChHHHHHHHHHhh
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSSDL----GRFRTN-TGIYTGTVQRLANAKRFRWIEEILEHQK   84 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~   84 (377)
                      ..+++.+...|...|++++|++.|++..+.    |.-.|+ ..++..+..++...|++++|++.+++..
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345667777777777777777777666521    111122 4456666666667777777777666554

...

>PRK15331 chaperone protein SicA; Provisional

Probab=96.91  E-value=0.025  Score=41.98  Aligned_cols=87  Identities=11%  Similarity=-0.021  Sum_probs=54.2

Q ss_pred             hhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHH
Q 042154           31 IYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFEN  110 (377)
Q Consensus        31 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  110 (377)
                      +...|++++|..+|+-+.-.+  +.+..-+..|..++-..+++++|+..|............+.| ....++...|+.+.
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d--~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f-~agqC~l~l~~~~~  123 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYD--FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVF-FTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccc-hHHHHHHHhCCHHH
Confidence            445677777777777666544  344445556666666677777777777665554333333333 26777777777777


Q ss_pred             HHHHHHhcCC
Q 042154          111 ARKVFDEMPG  120 (377)
Q Consensus       111 A~~~~~~~~~  120 (377)
                      |...|+...+
T Consensus       124 A~~~f~~a~~  133 (165)
T PRK15331        124 ARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHh
Confidence            7777776665

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.88  E-value=0.019  Score=49.85  Aligned_cols=66  Identities=9%  Similarity=0.077  Sum_probs=55.7

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccch---hhHHHHHHHHHhcCChHHHHHHHHHhhhh
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNT---GIYTGTVQRLANAKRFRWIEEILEHQKQY   86 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   86 (377)
                      .++..++.+..+|.+.|++++|+..|++..+.+  |.+.   .+|..+..+|...|+.++|++.++++...
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            457789999999999999999999999988764  3333   35899999999999999999999998875

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.85  E-value=0.063  Score=43.76  Aligned_cols=150  Identities=18%  Similarity=0.160  Sum_probs=106.6

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCCh
Q 042154           64 VQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKF  143 (377)
Q Consensus        64 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  143 (377)
                      .......|++.+|..+|............... .++.+|...|+.+.|..++..+...--.........-|..+.+....
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~~~~~~~~~-~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAAPENSEAKL-LLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhCcccchHHH-HHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            33457789999999999998887666655555 69999999999999999999987654222333333456666677666


Q ss_pred             hHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCCHHhHHHHHHHHHcCCCHHHHHH
Q 042154          144 DEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKK--GIRLDLITFNTLLLGFYSNGRFADAEK  219 (377)
Q Consensus       144 ~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~  219 (377)
                      .+...+-.+.-.    .| |...-..+...+...|+.+.|.+.+-.+.+.  |.. |...-..++..+.--|.-+.+..
T Consensus       220 ~~~~~l~~~~aa----dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g~~Dp~~~  293 (304)
T COG3118         220 PEIQDLQRRLAA----DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFGPADPLVL  293 (304)
T ss_pred             CCHHHHHHHHHh----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcCCCCHHHH
Confidence            666666655533    35 6666777888899999999999888777654  333 56677778888777774443333

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.82  E-value=0.29  Score=42.50  Aligned_cols=127  Identities=12%  Similarity=0.119  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHH-HHHHHHH
Q 042154          234 RSYNARLDGLAIEKQTKKALELVGEMRSKE-INPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIF-KLLVPFV  310 (377)
Q Consensus       234 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~-~~l~~~~  310 (377)
                      ..|...+.+-.+..-.+.|..+|-++.+.| +.+++..+++++..++ +|+...|.++|+ .....||...| .-.+..+
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fL  476 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFL  476 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            345556666667777899999999999988 5678888999988665 788999999999 44445666554 4566778


Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          311 CEKGDLDFAFNLCKRTFSERCLVD--QAPLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       311 ~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      ...++-+.|..+|+..+.. +..+  ..+|..+|+.-..-|+...+..+=+++.
T Consensus       477 i~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~  529 (660)
T COG5107         477 IRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFR  529 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHH
Confidence            8899999999999976654 2223  4588889988888898877766555543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.80  E-value=0.3  Score=42.43  Aligned_cols=69  Identities=14%  Similarity=0.108  Sum_probs=51.9

Q ss_pred             hcCCCC----CHHHHHHHHHH--HHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          293 KSGCGM----NKAIFKLLVPF--VCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       293 ~~~~~~----~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      ..|+.|    +...-|.|.++  +...|++.++.-.-..+.+  +.|++.+|..++-++....++++|.+++....-
T Consensus       449 e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~  523 (549)
T PF07079_consen  449 EVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLPP  523 (549)
T ss_pred             hcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCCC
Confidence            555555    23344555443  5678888888776666555  788999999999999999999999999998765

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=96.79  E-value=0.09  Score=46.74  Aligned_cols=159  Identities=8%  Similarity=0.097  Sum_probs=109.5

Q ss_pred             HHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCH
Q 042154           29 RGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMF  108 (377)
Q Consensus        29 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  108 (377)
                      ....-+++++++.++.+.-.-.+.+|  ....+.++..+-+.|-.+.|+++...-.            .-.....+.|++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L  334 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNL  334 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-H
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCH
Confidence            44456888999877775221111122  3457889999999999999999854321            345667789999


Q ss_pred             HHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 042154          109 ENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYE  188 (377)
Q Consensus       109 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  188 (377)
                      +.|.++.++..      +...|..|.....+.|+++-|.+.|.+...          |..++-.|.-.|+.+...++.+.
T Consensus       335 ~~A~~~a~~~~------~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d----------~~~L~lLy~~~g~~~~L~kl~~~  398 (443)
T PF04053_consen  335 DIALEIAKELD------DPEKWKQLGDEALRQGNIELAEECYQKAKD----------FSGLLLLYSSTGDREKLSKLAKI  398 (443)
T ss_dssp             HHHHHHCCCCS------THHHHHHHHHHHHHTTBHHHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHhcC------cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC----------ccccHHHHHHhCCHHHHHHHHHH
Confidence            99998766553      677999999999999999999999998843          67788888899999998888888


Q ss_pred             HHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHH
Q 042154          189 MEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWET  223 (377)
Q Consensus       189 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  223 (377)
                      ....|-      ++....++.-.|+.+++.+++.+
T Consensus       399 a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  399 AEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            877642      55566666667888888877754

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.70  E-value=0.33  Score=41.39  Aligned_cols=295  Identities=15%  Similarity=0.108  Sum_probs=145.2

Q ss_pred             HHHHHHHHhhh--cccHHHHHHHHHhcccCCCCccchhhHHHHHHHHH--hcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           23 FIGSVIRGIYK--ENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLA--NAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        23 ~~~~li~~~~~--~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      .|..|-.++..  .|+-..|.++-.+..+.  +..|....-.++.+-.  -.|+.+.|.+-|+.|.......-..+- .|
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~l--lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~dPEtRllGLR-gL  160 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKL--LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDDPETRLLGLR-GL  160 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhh--hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcChHHHHHhHH-HH
Confidence            34444444443  45555665555444321  2334444444444332  357777777777777664322222222 23


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHH--HHHHHHHHHH-
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVS--YNTIIKAFVD-  175 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~--~~~l~~~~~~-  175 (377)
                      .-..-+.|+.+.|.++-+..-..- +.-...+...+...+..|+|+.|+++++.-....-+.++..-  -..++.+-.. 
T Consensus       161 yleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s  239 (531)
T COG3898         161 YLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMS  239 (531)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHH
Confidence            333345677777777666655443 223566777777777788888888777766554445555431  2222222111 


Q ss_pred             --cCCHHHHHHHHHHHHHCCCCCCHHh-HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 042154          176 --KGSLDSANTLLYEMEKKGIRLDLIT-FNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKA  252 (377)
Q Consensus       176 --~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  252 (377)
                        ..+...|...-.+..+.  .|+..- -..-..++.+.|+..++-.+++.+-+....|+  .+..  ..+.+.|+  .+
T Consensus       240 ~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~--ia~l--Y~~ar~gd--ta  311 (531)
T COG3898         240 LLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD--IALL--YVRARSGD--TA  311 (531)
T ss_pred             HhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH--HHHH--HHHhcCCC--cH
Confidence              12344444444333332  333221 22234456666666666666666665543333  2211  11223333  22


Q ss_pred             HHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHH-hcCChHHHHHHHHHHHh
Q 042154          253 LELVGEMRSK-EINPD-VFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVC-EKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       253 ~~~~~~~~~~-g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~-~~g~~~~a~~~~~~~~~  328 (377)
                      ..-+++..+. .++|| ......+..+-...|++..|..--+ .....|....|..|.+.-. ..||-.++.+.+.+.++
T Consensus       312 ~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         312 LDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPRESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             HHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCchhhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            2222222211 12232 3444455555556666666665555 4444555666655555433 33666666666666655


Q ss_pred             c
Q 042154          329 E  329 (377)
Q Consensus       329 ~  329 (377)
                      .
T Consensus       392 A  392 (531)
T COG3898         392 A  392 (531)
T ss_pred             C
Confidence            4

>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=96.65  E-value=0.31  Score=40.65  Aligned_cols=62  Identities=10%  Similarity=0.139  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHhCCCh---hHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 042154          129 SFNALLGACVNSKKF---DEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKK  192 (377)
Q Consensus       129 ~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  192 (377)
                      ++..++.+|...+..   ++|..+++.+....+-+  +..+..-++.+.+.++.+.+.+.+.+|...
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~--~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEYGNK--PEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCC--cHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            455566666666653   34555555554432322  233444455555577777777777777765

It is also involved in sporulation [].

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.63  E-value=0.29  Score=40.07  Aligned_cols=184  Identities=9%  Similarity=0.013  Sum_probs=121.6

Q ss_pred             HHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChh
Q 042154           65 QRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFD  144 (377)
Q Consensus        65 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  144 (377)
                      +.+.....-+...+++++....   +....+ .-.......|++.+|..+|....... +-+...-..+..+|...|+.+
T Consensus       111 dgF~G~qPesqlr~~ld~~~~~---~~e~~~-~~~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e  185 (304)
T COG3118         111 DGFQGAQPESQLRQFLDKVLPA---EEEEAL-AEAKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVE  185 (304)
T ss_pred             cccCCCCcHHHHHHHHHHhcCh---HHHHHH-HHhhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChH
Confidence            3333333334555555554433   223333 35566778999999999999887754 334667778899999999999


Q ss_pred             HHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHH
Q 042154          145 EVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETM  224 (377)
Q Consensus       145 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  224 (377)
                      .|..++..+..+ --.........-|..+.+.....+...+-.+.-..  +-|...-..+...+...|+.+.|.+.+-.+
T Consensus       186 ~A~~iL~~lP~~-~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~  262 (304)
T COG3118         186 AAQAILAALPLQ-AQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLAL  262 (304)
T ss_pred             HHHHHHHhCccc-chhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999998654 11112222334456666666666666666666554  337778888999999999999999888777


Q ss_pred             HhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          225 VNMN-VRPNVRSYNARLDGLAIEKQTKKALELV  256 (377)
Q Consensus       225 ~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~  256 (377)
                      .+++ -.-|...-..++..+.-.|.-+.+...+
T Consensus       263 l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~~~  295 (304)
T COG3118         263 LRRDRGFEDGEARKTLLELFEAFGPADPLVLAY  295 (304)
T ss_pred             HHhcccccCcHHHHHHHHHHHhcCCCCHHHHHH
Confidence            6542 1235566777888887777554444333

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

Probab=96.55  E-value=0.039  Score=44.52  Aligned_cols=34  Identities=18%  Similarity=0.068  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 042154          215 ADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQ  248 (377)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  248 (377)
                      +-+++++++|...|+.||..+-..++.++.+.+-
T Consensus       140 ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  140 NCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            4456666777777777776666666666665553

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.53  E-value=0.013  Score=50.76  Aligned_cols=97  Identities=12%  Similarity=0.049  Sum_probs=68.2

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHH----HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHH
Q 042154          266 PDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKA----IFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQL  340 (377)
Q Consensus       266 p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  340 (377)
                      .+...++.+..+|...|++++|+..++ ...+.|+..    +|..+..+|...|+.++|++.++++++.+ .+   .|..
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---~f~~  148 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---KFST  148 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---hHHH
Confidence            356788899999999999999999999 566677643    58889999999999999999999998852 11   2321


Q ss_pred             HHH--HHHhcCCHHHHHHHHHhhccCCc
Q 042154          341 VVD--RLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       341 l~~--~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      +..  .+....+.++..++++.+.+-|.
T Consensus       149 i~~DpdL~plR~~pef~eLlee~rk~G~  176 (453)
T PLN03098        149 ILNDPDLAPFRASPEFKELQEEARKGGE  176 (453)
T ss_pred             HHhCcchhhhcccHHHHHHHHHHHHhCC
Confidence            111  11222334466667776666553

>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=96.52  E-value=0.099  Score=37.03  Aligned_cols=137  Identities=12%  Similarity=0.133  Sum_probs=59.7

Q ss_pred             cCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHH
Q 042154          105 AAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANT  184 (377)
Q Consensus       105 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  184 (377)
                      .|.+++..++..+....   .+..-+|-+|--....-+-+-..++++.+-+-+.+.+- .-...++.+++..|       
T Consensus        15 dG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C-~NlKrVi~C~~~~n-------   83 (161)
T PF09205_consen   15 DGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKC-GNLKRVIECYAKRN-------   83 (161)
T ss_dssp             TT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG--S-THHHHHHHHHTT-------
T ss_pred             hchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchhh-cchHHHHHHHHHhc-------
Confidence            45556666666555443   23444555555555555555555555554322111110 01111222222221       


Q ss_pred             HHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 042154          185 LLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEI  264 (377)
Q Consensus       185 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~  264 (377)
                                 .+.......++.+...|+-++-.+++..+.+.+ .+++...-.+..+|.+.|+..++-+++.+.-+.|+
T Consensus        84 -----------~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   84 -----------KLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             --------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             -----------chHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence                       123334445555556666666666666655422 34555555666666666666666666666665554

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.45  E-value=0.25  Score=44.61  Aligned_cols=164  Identities=11%  Similarity=0.050  Sum_probs=104.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccc------hhHHHHHHHHc----cCCHHHHHHHHHhcCCCCCCccHHH
Q 042154           60 YTGTVQRLANAKRFRWIEEILEHQKQYKDISKEG------FTARLIALYGK----AAMFENARKVFDEMPGRNCEQTVLS  129 (377)
Q Consensus        60 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~  129 (377)
                      +..++....-.|+-+.+++.+.+..+.+.....-      .|...+..++.    ..+.+.|.++++.+.++-  |+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y--P~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY--PNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC--CCcHH
Confidence            4567777788888888888888776643222211      12223333332    457888999999988864  55555


Q ss_pred             HHH-HHHHHHhCCChhHHHHHHHhchhhcCCCc--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHH-
Q 042154          130 FNA-LLGACVNSKKFDEVDGLFKDLPHKLGIEP--DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLL-  205 (377)
Q Consensus       130 ~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-  205 (377)
                      |.. -.+.+...|++++|++.|++......--+  ....+--+.-.+.-..+|++|.+.|..+.+.. ..+..+|.-+. 
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHH
Confidence            543 35567778999999999986543111111  22345555667888899999999999998753 22333333332 


Q ss_pred             HHHHcCCCH-------HHHHHHHHHHHh
Q 042154          206 LGFYSNGRF-------ADAEKIWETMVN  226 (377)
Q Consensus       206 ~~~~~~~~~-------~~a~~~~~~~~~  226 (377)
                      .++...|+.       ++|.++|.+...
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            234456666       888888887763

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.43  E-value=0.36  Score=38.73  Aligned_cols=76  Identities=5%  Similarity=-0.050  Sum_probs=45.0

Q ss_pred             HHHhhhcccHHHHHHHHHhcccCCCCc-cchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHH
Q 042154           28 IRGIYKENNLKRLVDKFKKSSDLGRFR-TNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYG  103 (377)
Q Consensus        28 i~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  103 (377)
                      +..-.+.|++++|.+.|+.+....... -...+.-.++.++-+.++++.|+...++..+.-+.....-|-..+.+++
T Consensus        41 g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs  117 (254)
T COG4105          41 GLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLS  117 (254)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHH
Confidence            334456788888888888776543222 2344555666677777888888888877776643333333323444443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.39  E-value=0.6  Score=42.57  Aligned_cols=195  Identities=13%  Similarity=0.128  Sum_probs=96.1

Q ss_pred             HHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHH-----HHHHHHhCCChhHHHHH
Q 042154           75 WIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNA-----LLGACVNSKKFDEVDGL  149 (377)
Q Consensus        75 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~  149 (377)
                      +.+.-++++++.+..|+..+   +...++-.|.+.+|.++|.+--..+  .-...|+.     ...-+...|+.++-..+
T Consensus       618 ~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~en--RAlEmyTDlRMFD~aQE~~~~g~~~eKKmL  692 (1081)
T KOG1538|consen  618 ELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHEN--RALEMYTDLRMFDYAQEFLGSGDPKEKKML  692 (1081)
T ss_pred             HHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCchh--hHHHHHHHHHHHHHHHHHhhcCChHHHHHH
Confidence            34444556666665555433   4455666777777777776644322  11111111     12223344443333333


Q ss_pred             HHhchh--hcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHH------HHHHCCC---CCCHHhHHHHHHHHHcCCCHHHHH
Q 042154          150 FKDLPH--KLGIEPDLVSYNTIIKAFVDKGSLDSANTLLY------EMEKKGI---RLDLITFNTLLLGFYSNGRFADAE  218 (377)
Q Consensus       150 ~~~~~~--~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~------~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~  218 (377)
                      .++-.+  ..--+|.     +....+...|+.++|..+.-      -+.+-+.   ..+..+...+...+.+...+..|-
T Consensus       693 ~RKRA~WAr~~kePk-----aAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAa  767 (1081)
T KOG1538|consen  693 IRKRADWARNIKEPK-----AAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAA  767 (1081)
T ss_pred             HHHHHHHhhhcCCcH-----HHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHH
Confidence            222110  0011222     22344455676666655431      1111111   123445555555556666777888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          219 KIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ++|..|-..         ..+++.....+++++|..+-+..-+.  .||+  |.-..+.++...++++|.+.|.
T Consensus       768 eIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dV--y~pyaqwLAE~DrFeEAqkAfh  828 (1081)
T KOG1538|consen  768 EIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDV--YMPYAQWLAENDRFEEAQKAFH  828 (1081)
T ss_pred             HHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccc--cchHHHHhhhhhhHHHHHHHHH
Confidence            888777542         24567777889999999888876553  3443  2223333344444444444444

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.37  E-value=0.27  Score=36.75  Aligned_cols=131  Identities=14%  Similarity=0.097  Sum_probs=59.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhH-HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHH---H
Q 042154           59 IYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTA-RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNAL---L  134 (377)
Q Consensus        59 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l---~  134 (377)
                      .|...++ +++.+..++|+.-|..+.+.|...-+.+-. .........|+...|...|+++-.....|-..-=.+-   .
T Consensus        61 ~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa  139 (221)
T COG4649          61 AFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAA  139 (221)
T ss_pred             HHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHH
Confidence            3444443 344555555555555555544322221110 2333445556666666666665443322222100111   1


Q ss_pred             HHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 042154          135 GACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEK  191 (377)
Q Consensus       135 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  191 (377)
                      -.+..+|.++......+.+... +.+-....-..|.-+-.+.|++.+|.++|..+..
T Consensus       140 ~lLvD~gsy~dV~srvepLa~d-~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         140 YLLVDNGSYDDVSSRVEPLAGD-GNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHhccccHHHHHHHhhhccCC-CChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            1244555666655555555332 3233333444555555566666666666665554

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.36  E-value=0.18  Score=47.12  Aligned_cols=244  Identities=13%  Similarity=0.059  Sum_probs=118.5

Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHH----HHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHH
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNA----LLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKA  172 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  172 (377)
                      .-+..+.+..-++-|..+-+.-..     +..+...    ..+.+.+.|++++|...|-+...  -+.|.     .++.-
T Consensus       339 ~kL~iL~kK~ly~~Ai~LAk~~~~-----d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~--~le~s-----~Vi~k  406 (933)
T KOG2114|consen  339 TKLDILFKKNLYKVAINLAKSQHL-----DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIG--FLEPS-----EVIKK  406 (933)
T ss_pred             HHHHHHHHhhhHHHHHHHHHhcCC-----CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcc--cCChH-----HHHHH
Confidence            455666666666666665443321     2222222    23335566777777777665542  12222     23344


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 042154          173 FVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKA  252 (377)
Q Consensus       173 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  252 (377)
                      |........-..+++.+.+.|.. +...-+.|+.+|.+.++.++-.++.+... .|..  ..-....+..+-+.+-.++|
T Consensus       407 fLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a  482 (933)
T KOG2114|consen  407 FLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEA  482 (933)
T ss_pred             hcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHH
Confidence            44455556666667777777665 55556667777777777776666555444 2211  11233344555555556666


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 042154          253 LELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCL  332 (377)
Q Consensus       253 ~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  332 (377)
                      ..+-.....     .......+   +-..+++++|++++....+.--..+.+...+.+.. ..+++-.+++-+......+
T Consensus       483 ~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~slp~~e~l~~l~kyGk~Ll~-h~P~~t~~ili~~~t~~~~  553 (933)
T KOG2114|consen  483 ELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSLPISELLRTLNKYGKILLE-HDPEETMKILIELITELNS  553 (933)
T ss_pred             HHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcCCHHHHHHHHHHHHHHHHh-hChHHHHHHHHHHHhhcCC
Confidence            555544332     22222322   33566777777777633321111222222222222 3345555554444443322


Q ss_pred             CChhhHHHHH-----HHHHhcCCHHHHHHHHHhhccCC
Q 042154          333 VDQAPLQLVV-----DRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       333 ~~~~~~~~l~-----~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      ++.......+     ....-.+.++.-...++.|.+..
T Consensus       554 ~~~~~~~s~~~~~~~~i~if~~~~~~~~~Fl~~~~E~s  591 (933)
T KOG2114|consen  554 QGKGKSLSNIPDSIEFIGIFSQNYQILLNFLESMSEIS  591 (933)
T ss_pred             CCCCchhhcCccchhheeeeccCHHHHHHHHHHHHhcC
Confidence            2222222111     12233455666666666554443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.23  E-value=0.73  Score=40.18  Aligned_cols=145  Identities=15%  Similarity=0.142  Sum_probs=103.9

Q ss_pred             CHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH-HHHH
Q 042154          197 DLITFNTLLLGFYSNGRFADAEKIWETMVNMN-VRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFT-FYAL  274 (377)
Q Consensus       197 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~-~~~l  274 (377)
                      -..+|...++...+..-++.|..+|-++.+.+ +.+++..+++++..+ ..|+...|..+|+--...  -||... ....
T Consensus       396 ~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~--f~d~~~y~~ky  472 (660)
T COG5107         396 LTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLK--FPDSTLYKEKY  472 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHh--CCCchHHHHHH
Confidence            34567777888788888899999999999887 667888889888877 457888889998876554  344433 3556


Q ss_pred             HHHHHhcCCHHHHHHHHH--hcCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 042154          275 IKGFVNEGNLEEAKRWYN--KSGCGMN--KAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLA  346 (377)
Q Consensus       275 ~~~~~~~~~~~~a~~~~~--~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  346 (377)
                      +..+...++-+.|..+|+  ...+..+  ...|..+|.--..-|+...+..+-++|...  .|...+.....+.|.
T Consensus       473 l~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         473 LLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            667778899999999998  2222222  467888888888889998888887777763  444444444444443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.23  E-value=0.66  Score=41.02  Aligned_cols=165  Identities=15%  Similarity=0.222  Sum_probs=83.6

Q ss_pred             HHHHHhhhcccHHHHHHHHHhcccCCCCccc-hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHc
Q 042154           26 SVIRGIYKENNLKRLVDKFKKSSDLGRFRTN-TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGK  104 (377)
Q Consensus        26 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  104 (377)
                      .++.-.-+..+++.-++.-+++.+..   |+ +..|..|..  -......++++++++..+.+...    +   -.    
T Consensus       173 ~IMq~AWRERnp~aRIkaA~eALei~---pdCAdAYILLAE--EeA~Ti~Eae~l~rqAvkAgE~~----l---g~----  236 (539)
T PF04184_consen  173 EIMQKAWRERNPQARIKAAKEALEIN---PDCADAYILLAE--EEASTIVEAEELLRQAVKAGEAS----L---GK----  236 (539)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhh---hhhhHHHhhccc--ccccCHHHHHHHHHHHHHHHHHh----h---ch----
Confidence            34444445666666666666665533   33 233333322  23445778888888766643211    0   00    


Q ss_pred             cCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHH
Q 042154          105 AAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANT  184 (377)
Q Consensus       105 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  184 (377)
                      ....+..-..++.+..+...|-..+-..+..++.+.|+.++|++.++++.+.....-.......++.++...+.+.++..
T Consensus       237 s~~~~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~  316 (539)
T PF04184_consen  237 SQFLQHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQA  316 (539)
T ss_pred             hhhhhcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHH
Confidence            00000000111112222222333344456666777788888888888876542211223366677788888888888888


Q ss_pred             HHHHHHHCCCCC-CHHhHHHHHH
Q 042154          185 LLYEMEKKGIRL-DLITFNTLLL  206 (377)
Q Consensus       185 ~~~~~~~~~~~~-~~~~~~~l~~  206 (377)
                      ++.+..+...+. -...|+..+-
T Consensus       317 lL~kYdDi~lpkSAti~YTaALL  339 (539)
T PF04184_consen  317 LLAKYDDISLPKSATICYTAALL  339 (539)
T ss_pred             HHHHhccccCCchHHHHHHHHHH
Confidence            887765432221 2334555443

The molecular function of this protein is uncertain.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.11  E-value=0.24  Score=41.67  Aligned_cols=52  Identities=15%  Similarity=-0.050  Sum_probs=23.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCC-----CCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          239 RLDGLAIEKQTKKALELVGEMRSKEI-----NPDVFTFYALIKGFVNEGNLEEAKRW  290 (377)
Q Consensus       239 l~~~~~~~~~~~~a~~~~~~~~~~g~-----~p~~~~~~~l~~~~~~~~~~~~a~~~  290 (377)
                      +..++...+.++++++.|+...+...     .....++..|...|....|+++|.-+
T Consensus       128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f  184 (518)
T KOG1941|consen  128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFF  184 (518)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhh
Confidence            33444444455555555554433210     11123445555555555555554433

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.11  E-value=0.35  Score=35.47  Aligned_cols=42  Identities=21%  Similarity=0.268  Sum_probs=17.7

Q ss_pred             HHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHh
Q 042154           26 SVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLAN   69 (377)
Q Consensus        26 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   69 (377)
                      .++..+...+.+..+..+++.+...+  +.+...++.++..+++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~--~~~~~~~~~li~ly~~   53 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN--SENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC--ccchhHHHHHHHHHHH
Confidence            34444444444444444444444333  1233344444444443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.11  E-value=0.3  Score=40.71  Aligned_cols=153  Identities=15%  Similarity=0.151  Sum_probs=104.4

Q ss_pred             HHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCCCCHHhHHHHHHHHHcCCC
Q 042154          137 CVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKK---GIRLDLITFNTLLLGFYSNGR  213 (377)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~  213 (377)
                      ...+|+..+|-..++++.+  ..+.|...+.-.=.+|.-.|+.+.-...++++...   +.+-.+..-..+..++...|-
T Consensus       113 ~~~~g~~h~a~~~wdklL~--d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  113 LWGRGKHHEAAIEWDKLLD--DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             hhccccccHHHHHHHHHHH--hCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhcc
Confidence            4457788888888888877  44667777777778888899888888888888754   222223333444555667888


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          214 FADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK---EINPDVFTFYALIKGFVNEGNLEEAKRW  290 (377)
Q Consensus       214 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---g~~p~~~~~~~l~~~~~~~~~~~~a~~~  290 (377)
                      +++|++.-++..+.+ +-|.-.-.+....+...|+..++.+...+-...   +...-...|-...-.+...+.++.|+++
T Consensus       191 y~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  191 YDDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEI  269 (491)
T ss_pred             chhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHH
Confidence            999999888888766 345566667777777888888888877664332   1111122333334455666888999999


Q ss_pred             HH
Q 042154          291 YN  292 (377)
Q Consensus       291 ~~  292 (377)
                      |+
T Consensus       270 yD  271 (491)
T KOG2610|consen  270 YD  271 (491)
T ss_pred             HH
Confidence            88

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.10  E-value=0.046  Score=46.53  Aligned_cols=240  Identities=10%  Similarity=0.006  Sum_probs=139.7

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcc----cCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhh----hhc--CCC
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSS----DLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQK----QYK--DIS   90 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~--~~~   90 (377)
                      ...|..|.++|.-.+++++|+++-..=.    ..|.-.-.+..-..|...+--.|.+++|+-.-.+-.    +.+  +..
T Consensus        55 SAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e  134 (639)
T KOG1130|consen   55 SAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDRVLE  134 (639)
T ss_pred             HHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchhhhhcccchHHHHHHHHhHHHHHHhHHHhh
Confidence            4578888889999999999998643211    011001122233345555556677777765443322    222  223


Q ss_pred             ccchhHHHHHHHHccCC--------------------HHHHHHHHHhcC----CCCC-CccHHHHHHHHHHHHhCCChhH
Q 042154           91 KEGFTARLIALYGKAAM--------------------FENARKVFDEMP----GRNC-EQTVLSFNALLGACVNSKKFDE  145 (377)
Q Consensus        91 ~~~~~~~l~~~~~~~~~--------------------~~~A~~~~~~~~----~~~~-~~~~~~~~~l~~~~~~~~~~~~  145 (377)
                      ...+|| +...|...|+                    ++.|.+.|.+=.    +.|- -.--.+|..|.+.|.-.|+++.
T Consensus       135 ~RAlYN-lgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~  213 (639)
T KOG1130|consen  135 SRALYN-LGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQ  213 (639)
T ss_pred             hHHHhh-hhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHH
Confidence            345564 6777665543                    233444444311    1110 0011245555555666778888


Q ss_pred             HHHHHHhc---hhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH----CC-CCCCHHhHHHHHHHHHcCCCHHH
Q 042154          146 VDGLFKDL---PHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEK----KG-IRLDLITFNTLLLGFYSNGRFAD  216 (377)
Q Consensus       146 a~~~~~~~---~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~-~~~~~~~~~~l~~~~~~~~~~~~  216 (377)
                      |+..-+.-   .+.+|-+. ....+..+..+++-.|+++.|.+.|+....    .| -.....+..+|.+.|.-..++++
T Consensus       214 ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~k  293 (639)
T KOG1130|consen  214 AIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQK  293 (639)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHH
Confidence            87665432   12233322 234677888888889999999888876542    22 12345667778888888888888


Q ss_pred             HHHHHHHHHhC----C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          217 AEKIWETMVNM----N-VRPNVRSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       217 a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                      |+.++.+-+..    + ..-....+-++..+|...|..++|+.+.+.-++
T Consensus       294 AI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  294 AITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            88887654321    1 112446677788888888888888877665443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.04  E-value=0.23  Score=40.22  Aligned_cols=94  Identities=17%  Similarity=0.096  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHH----hcCCCC-CHHHHHHHH
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEI--NPDVFTFYALIKGFVNEGNLEEAKRWYN----KSGCGM-NKAIFKLLV  307 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~----~~~~~~-~~~~~~~l~  307 (377)
                      .|+.-+..+ +.|++..|...|...++...  .-....+..|..++...|+++.|..+|.    ..+-.| -+..+--|.
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            566555554 56667777777777776521  1123345567777777777777777776    222222 234556666


Q ss_pred             HHHHhcCChHHHHHHHHHHHhc
Q 042154          308 PFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       308 ~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      .+..+.|+.++|..+|++..+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            6777777777777777777765

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.04  E-value=0.02  Score=32.21  Aligned_cols=40  Identities=20%  Similarity=0.104  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHH
Q 042154          301 AIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLV  341 (377)
Q Consensus       301 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  341 (377)
                      .++..+...|.+.|++++|+++|+++++..+. |+..+..+
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~-~~~a~~~L   41 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPD-DPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-CHHHHHHh
Confidence            35667788888888888888888888886543 55555444

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.03  E-value=1.3  Score=41.23  Aligned_cols=318  Identities=15%  Similarity=0.100  Sum_probs=176.1

Q ss_pred             HHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCC--hHHHHHHHHHhhhhcCCCccchhHHHHHH
Q 042154           24 IGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKR--FRWIEEILEHQKQYKDISKEGFTARLIAL  101 (377)
Q Consensus        24 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  101 (377)
                      ...+|+-+...+.+..|+++-+++...- ... ...|......+.+..+  -+++.+..++-.+....+...+. .+++.
T Consensus       440 ~~~vi~Rl~~r~~Y~vaIQva~~l~~p~-~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~~~iSy~-~iA~~  516 (829)
T KOG2280|consen  440 EEVVIDRLVDRHLYSVAIQVAKLLNLPE-SQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLTPGISYA-AIARR  516 (829)
T ss_pred             hhhhhHHHHhcchhHHHHHHHHHhCCcc-ccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhcccCCCceeHH-HHHHH
Confidence            3456677778888899999988885322 111 4566666666665532  22333333222222223444444 56777


Q ss_pred             HHccCCHHHHHHHHHhcCCCCCC----ccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcC---------CCcC-HHHHH
Q 042154          102 YGKAAMFENARKVFDEMPGRNCE----QTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLG---------IEPD-LVSYN  167 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------~~p~-~~~~~  167 (377)
                      ....|+.+-|..+++.=...+..    .+..-+..-+.-..+.|+.+-...++-.+..+..         ..|. ...|.
T Consensus       517 Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~  596 (829)
T KOG2280|consen  517 AYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYR  596 (829)
T ss_pred             HHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHH
Confidence            77889999998887764433211    1122334445556777777777776666544310         0111 11222


Q ss_pred             HHHH--------HHHHcCCHHHHHHHH--HHHHHC-CCCCCHHhHHHHHHHHHcCCCHH----------HHHHHHHHHH-
Q 042154          168 TIIK--------AFVDKGSLDSANTLL--YEMEKK-GIRLDLITFNTLLLGFYSNGRFA----------DAEKIWETMV-  225 (377)
Q Consensus       168 ~l~~--------~~~~~~~~~~a~~~~--~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~----------~a~~~~~~~~-  225 (377)
                      -+++        .+.+.++-.++...|  +..... .+.+-........+.+.+.....          +-+++.+.+. 
T Consensus       597 ~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~  676 (829)
T KOG2280|consen  597 QFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLED  676 (829)
T ss_pred             HHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            2222        011112222222211  110000 01111222233344444443311          1122222222 


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHH
Q 042154          226 NMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKL  305 (377)
Q Consensus       226 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  305 (377)
                      +.|..-...+.+--+.-+...|+..+|.++-.+.+    -||...|-.=+.+++..+++++-+++-+...   .+.-|..
T Consensus       677 q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~P  749 (829)
T KOG2280|consen  677 QFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLP  749 (829)
T ss_pred             HhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchh
Confidence            12322333455666677778899999999888876    4788888888899999999998888866322   1445777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHh
Q 042154          306 LVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVEL  360 (377)
Q Consensus       306 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  360 (377)
                      .+.+|.+.|+.++|.+++.+.-.     ..    -...+|.+.|++.+|.++--+
T Consensus       750 FVe~c~~~~n~~EA~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  750 FVEACLKQGNKDEAKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHHHhcccHHHHhhhhhccCC-----hH----HHHHHHHHhccHHHHHHHHHH
Confidence            88899999999999998755321     11    567788888888887765433

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.00  E-value=0.11  Score=41.85  Aligned_cols=98  Identities=14%  Similarity=0.119  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHhchhhcCC-CcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCCHHhHHHHH
Q 042154          129 SFNALLGACVNSKKFDEVDGLFKDLPHKLGI-EPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGI--RLDLITFNTLL  205 (377)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~  205 (377)
                      .|+.-+. +.+.|++..|...|....+++.- .-....+-.|..++...|++++|..+|..+.+.-.  +.-+..+.-|.
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            5555444 44566688888888777664211 11233566677888888888888888877775421  11235566677


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhC
Q 042154          206 LGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       206 ~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      .+..+.|+.++|...|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            7777788888888888887765

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.98  E-value=0.018  Score=32.43  Aligned_cols=40  Identities=5%  Similarity=0.028  Sum_probs=26.5

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHH
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGT   63 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l   63 (377)
                      .++..+..+|.+.|++++|++.|+++.+..  |.|...+..+
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~--P~~~~a~~~L   41 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALD--PDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCCHHHHHHh
Confidence            456667777777777777777777777654  4455554444

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.96  E-value=0.33  Score=34.43  Aligned_cols=91  Identities=16%  Similarity=0.048  Sum_probs=50.3

Q ss_pred             HHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH---hHHHHHHHHHcCC
Q 042154          136 ACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLI---TFNTLLLGFYSNG  212 (377)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~  212 (377)
                      ++...|+.+.|++.|.+...  -.+-....||.-..++.-.|+.++|++=+++..+..-..+..   .|..-...|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            35556666666666666543  222345566666666666666666666666665432111222   2333333555666


Q ss_pred             CHHHHHHHHHHHHhCC
Q 042154          213 RFADAEKIWETMVNMN  228 (377)
Q Consensus       213 ~~~~a~~~~~~~~~~~  228 (377)
                      +.+.|..-|+..-+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            6666666666665554

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.93  E-value=0.43  Score=34.99  Aligned_cols=35  Identities=11%  Similarity=-0.037  Sum_probs=13.8

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 042154          174 VDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFY  209 (377)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  209 (377)
                      ...+.+.....+++.+...+. .+....+.++..|+
T Consensus        18 ~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~   52 (140)
T smart00299       18 EKRNLLEELIPYLESALKLNS-ENPALQTKLIELYA   52 (140)
T ss_pred             HhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHH
Confidence            333344444444444443331 23334444444444

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=95.90  E-value=1.2  Score=39.66  Aligned_cols=193  Identities=12%  Similarity=0.076  Sum_probs=133.8

Q ss_pred             hhccccCCCCCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhc
Q 042154            8 LSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYK   87 (377)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   87 (377)
                      ++..++-+..|-|....-+++..+..+...+-...+..+|...|   .+...|..++.+|... .-+....+++++.+..
T Consensus        53 isg~~~~s~~~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~---e~kmal~el~q~y~en-~n~~l~~lWer~ve~d  128 (711)
T COG1747          53 ISGIISLSKQLLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG---ESKMALLELLQCYKEN-GNEQLYSLWERLVEYD  128 (711)
T ss_pred             HHHHHHhhhccccchHHHHHHHHhccchHHHHHHHHHHHHHHhc---chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhc
Confidence            34445566777788888899999999999999999999998765   4566788899988888 5677778888777653


Q ss_pred             CCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCc-----cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC
Q 042154           88 DISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQ-----TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD  162 (377)
Q Consensus        88 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~  162 (377)
                      . .+......|+..|-+ ++.+.+...|.+...+-++.     -...|.-+...-  ..+.+..+.+..++..+.|...-
T Consensus       129 f-nDvv~~ReLa~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~  204 (711)
T COG1747         129 F-NDVVIGRELADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRG  204 (711)
T ss_pred             c-hhHHHHHHHHHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchH
Confidence            2 334444456666655 88888888887765432221     122444444321  45677788888887766666666


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFY  209 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  209 (377)
                      ...+.-+-.-|....++.+|++++..+.+.+-. |...-..++..+.
T Consensus       205 ~Vl~qdv~~~Ys~~eN~~eai~Ilk~il~~d~k-~~~ar~~~i~~lR  250 (711)
T COG1747         205 SVLMQDVYKKYSENENWTEAIRILKHILEHDEK-DVWARKEIIENLR  250 (711)
T ss_pred             HHHHHHHHHHhccccCHHHHHHHHHHHhhhcch-hhhHHHHHHHHHH
Confidence            667777778888899999999999988876433 5555555555443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.89  E-value=0.063  Score=45.72  Aligned_cols=57  Identities=16%  Similarity=0.120  Sum_probs=35.4

Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhch
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLP  154 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  154 (377)
                      .+.-++.+.+++..|++.-++.+..+ ++++-....-..++...|+++.|...|+++.
T Consensus       262 NlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~  318 (397)
T KOG0543|consen  262 NLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKAL  318 (397)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHH
Confidence            46666666666666666666665554 4455555556666666666666666666665

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.86  E-value=0.7  Score=36.81  Aligned_cols=22  Identities=18%  Similarity=0.354  Sum_probs=11.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHH
Q 042154          271 FYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       271 ~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      |...|-.+....++..|.+.++
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r  214 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYR  214 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhc
Confidence            3344444444555666666655

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.86  E-value=0.92  Score=38.11  Aligned_cols=131  Identities=9%  Similarity=0.216  Sum_probs=67.4

Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh--CCC----hhHHHHHHHhchhhcCC--CcCHHHHHHHHHHHHHcCCH
Q 042154          108 FENARKVFDEMPGRNCEQTVLSFNALLGACVN--SKK----FDEVDGLFKDLPHKLGI--EPDLVSYNTIIKAFVDKGSL  179 (377)
Q Consensus       108 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~----~~~a~~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~  179 (377)
                      +++...+++.|.+.|+.-+..+|-+..-....  ..+    ...+..+|+.|+++..+  .++...+..++..  ..+++
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            34455677777777777666555442222222  222    45677777777665332  2334445555433  33332


Q ss_pred             ----HHHHHHHHHHHHCCCCCC--HHhHHHHHHHHHcCCC--HHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 042154          180 ----DSANTLLYEMEKKGIRLD--LITFNTLLLGFYSNGR--FADAEKIWETMVNMNVRPNVRSYNARL  240 (377)
Q Consensus       180 ----~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~  240 (377)
                          +.++.+|+.+.+.|+..+  .+..+.++........  ..++.++++.+.+.|+++....|..+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence                345666666666565432  2233333333222222  335666677777777666666655443

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

Probab=95.80  E-value=0.12  Score=41.77  Aligned_cols=107  Identities=19%  Similarity=0.198  Sum_probs=69.1

Q ss_pred             CcCHHHHHHHHHHHHH-----cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHH
Q 042154          160 EPDLVSYNTIIKAFVD-----KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVR  234 (377)
Q Consensus       160 ~p~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  234 (377)
                      +.|..+|-..+..+..     .+.++-....++.|.+.|+.-|..+|+.|++.+-+-.                ..|...
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgk----------------fiP~nv  127 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGK----------------FIPQNV  127 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccc----------------cccHHH
Confidence            4466666666665543     3456666666777777777777777777776654321                112211


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLE  285 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~  285 (377)
                       +....-.|-  .+-+-++.++++|...|+.||..+-..|+++|.+.+..-
T Consensus       128 -fQ~~F~HYP--~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~  175 (406)
T KOG3941|consen  128 -FQKVFLHYP--QQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPT  175 (406)
T ss_pred             -HHHHHhhCc--hhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccH
Confidence             111111221  233457899999999999999999999999999887543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.79  E-value=1.8  Score=40.94  Aligned_cols=55  Identities=16%  Similarity=0.204  Sum_probs=25.7

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcC
Q 042154           64 VQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMP  119 (377)
Q Consensus        64 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  119 (377)
                      +.-+....+......+++.+.+.|......+. .|+.+|.+.++.++-.+..+...
T Consensus       404 i~kfLdaq~IknLt~YLe~L~~~gla~~dhtt-lLLncYiKlkd~~kL~efI~~~~  458 (933)
T KOG2114|consen  404 IKKFLDAQRIKNLTSYLEALHKKGLANSDHTT-LLLNCYIKLKDVEKLTEFISKCD  458 (933)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHcccccchhHH-HHHHHHHHhcchHHHHHHHhcCC
Confidence            33334444444444444444444443333333 45555555555555555444443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.75  E-value=1.1  Score=38.05  Aligned_cols=48  Identities=10%  Similarity=0.169  Sum_probs=23.9

Q ss_pred             hhhcccHHHHHHHHHhcccCC-CCccchhhHHHHHHHHHhcCChHHHHH
Q 042154           31 IYKENNLKRLVDKFKKSSDLG-RFRTNTGIYTGTVQRLANAKRFRWIEE   78 (377)
Q Consensus        31 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~   78 (377)
                      +..+++.++|+..+.+...+- ..-..-.+|..+..+.++.|++++++.
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~   64 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLK   64 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHH
Confidence            344566666666665554321 011122345555556666666555544

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.71  E-value=0.82  Score=36.45  Aligned_cols=54  Identities=15%  Similarity=0.225  Sum_probs=25.7

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          201 FNTLLLGFYSNGRFADAEKIWETMVNMN---VRPNVRSYNARLDGLAIEKQTKKALEL  255 (377)
Q Consensus       201 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~  255 (377)
                      |...|-.+.-..++..|.+.++.-.+.+   -.-+..+...|+.+| ..|+.+++-.+
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kv  249 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKV  249 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHH
Confidence            3333444444556666666665533221   122344555555555 44555544433

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.68  E-value=1.8  Score=40.29  Aligned_cols=298  Identities=13%  Similarity=0.109  Sum_probs=168.3

Q ss_pred             CccchhhHH-----HHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccC---CHHHHHHHHHhcCCCCCC
Q 042154           53 FRTNTGIYT-----GTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAA---MFENARKVFDEMPGRNCE  124 (377)
Q Consensus        53 ~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~  124 (377)
                      ++.+..-|.     .+++-+...+.+..|+++-..+...-... ..++......+.+..   +-+-+..+-+++... . 
T Consensus       428 IplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~-~-  504 (829)
T KOG2280|consen  428 IPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK-L-  504 (829)
T ss_pred             ccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhccc-C-
Confidence            555555454     34666677788888888876665432222 455555666666653   233344444444432 2 


Q ss_pred             ccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCc---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--------
Q 042154          125 QTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP---DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKG--------  193 (377)
Q Consensus       125 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------  193 (377)
                      .+-.+|..+.+-....|+++-|..+++.=.......|   +..-+...+.-+...||.+....++-.+.+.-        
T Consensus       505 ~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~  584 (829)
T KOG2280|consen  505 TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMT  584 (829)
T ss_pred             CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHH
Confidence            3455677777777788888888888754322211111   22234555666777888887777776665431        


Q ss_pred             ---CCCCHHhHHHHHH--------HHHcCCCHHHHHHHHH--HHH----hCCCCCCHHHHHHHHHHHHhcCC--------
Q 042154          194 ---IRLDLITFNTLLL--------GFYSNGRFADAEKIWE--TMV----NMNVRPNVRSYNARLDGLAIEKQ--------  248 (377)
Q Consensus       194 ---~~~~~~~~~~l~~--------~~~~~~~~~~a~~~~~--~~~----~~~~~~~~~~~~~l~~~~~~~~~--------  248 (377)
                         .+.....|.-++.        .+.+.++-.++...|.  ...    ..+..|+   ......++.+...        
T Consensus       585 l~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~---lk~~a~~~a~sk~~s~e~ka~  661 (829)
T KOG2280|consen  585 LRNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPA---LKTAANAFAKSKEKSFEAKAL  661 (829)
T ss_pred             HHhchhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchh---HHHHHHHHhhhhhhhhHHHHH
Confidence               0111111221111        0111112122221111  100    0111222   2223334443332        


Q ss_pred             --HHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 042154          249 --TKKALELVGEMRSK-EINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKR  325 (377)
Q Consensus       249 --~~~a~~~~~~~~~~-g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  325 (377)
                        ..+-+.+.+.+... |......+.+--+.-+...|+..+|.++-.+.. -||...|-.-+.+++..+++++-+++-+.
T Consensus       662 ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-ipdKr~~wLk~~aLa~~~kweeLekfAks  740 (829)
T KOG2280|consen  662 EDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-IPDKRLWWLKLTALADIKKWEELEKFAKS  740 (829)
T ss_pred             HHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-CcchhhHHHHHHHHHhhhhHHHHHHHHhc
Confidence              12223333444333 434444566666777888999999999988665 47788888888899999999988877654


Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          326 TFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       326 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      ..      .+.-|.-...+|.+.|+.++|.+++.+...
T Consensus       741 kk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~~  772 (829)
T KOG2280|consen  741 KK------SPIGYLPFVEACLKQGNKDEAKKYIPRVGG  772 (829)
T ss_pred             cC------CCCCchhHHHHHHhcccHHHHhhhhhccCC
Confidence            32      255677788999999999999999887653

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.61  E-value=0.89  Score=36.22  Aligned_cols=223  Identities=15%  Similarity=0.086  Sum_probs=133.7

Q ss_pred             cCCHHHHHHHHHhcCCCCCC-ccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHH
Q 042154          105 AAMFENARKVFDEMPGRNCE-QTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSAN  183 (377)
Q Consensus       105 ~~~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  183 (377)
                      .+....+...+......... .....+......+...+++..+...+...............+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            35556666666666554311 12566667777777888888887777766531012334445666666777777788888


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHH-HHHcCCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 042154          184 TLLYEMEKKGIRLDLITFNTLLL-GFYSNGRFADAEKIWETMVNMNV--RPNVRSYNARLDGLAIEKQTKKALELVGEMR  260 (377)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  260 (377)
                      +.+.........+ ......... .+...|+++.|...+.+......  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            8887777654332 122222223 67777888888888887755221  0122333334444566777888888877777


Q ss_pred             hCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          261 SKEINP-DVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMN-KAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       261 ~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      ... .. ....+..+...+...++.+.|...+. .....|+ ...+..+...+...+..+.+...+.+....
T Consensus       195 ~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         195 KLN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             hhC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            652 22 35566667777777777777777777 3333443 334444444444666677777777776664

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=95.58  E-value=4  Score=43.49  Aligned_cols=323  Identities=9%  Similarity=0.031  Sum_probs=178.5

Q ss_pred             HHHHHhhhcccHHHHHHHHHhcccCCC-CccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHc
Q 042154           26 SVIRGIYKENNLKRLVDKFKKSSDLGR-FRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGK  104 (377)
Q Consensus        26 ~li~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  104 (377)
                      .+..+=.+.+.+.+|+..++.-..... -.-....|-.+...|+..++.|...-+...-     ..+..++ .-+.....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r-----~a~~sl~-~qil~~e~ 1461 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARR-----FADPSLY-QQILEHEA 1461 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHh-----hcCccHH-HHHHHHHh
Confidence            444556678889999999988421110 0112233444555999999999888877641     1233445 36666778


Q ss_pred             cCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHH-HHHHHHcCCHHHHH
Q 042154          105 AAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTI-IKAFVDKGSLDSAN  183 (377)
Q Consensus       105 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l-~~~~~~~~~~~~a~  183 (377)
                      .|++..|...|+.+.+.+ ++...+++-++......+.++.++...+-...  ...+....++.+ +.+-.+.++++...
T Consensus      1462 ~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~--~~se~~~~~~s~~~eaaW~l~qwD~~e 1538 (2382)
T KOG0890|consen 1462 SGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLII--NRSEEVDELNSLGVEAAWRLSQWDLLE 1538 (2382)
T ss_pred             hccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhh--ccCHHHHHHHHHHHHHHhhhcchhhhh
Confidence            999999999999999987 34477888888888888888888887666543  333444444443 35557888888888


Q ss_pred             HHHHHHHHCCCCCCHHhHHH--HHHHHHcCC--CHHHHHHHHHHHHhCCCCC---------CHHHHHHHHHHHHhcCCHH
Q 042154          184 TLLYEMEKKGIRLDLITFNT--LLLGFYSNG--RFADAEKIWETMVNMNVRP---------NVRSYNARLDGLAIEKQTK  250 (377)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~--~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~  250 (377)
                      ..+.  . .    +..+|..  +...+.+..  |.-.-.+..+.+.+.-+.|         =...|..++..+.-.. .+
T Consensus      1539 ~~l~--~-~----n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~e-l~ 1610 (2382)
T KOG0890|consen 1539 SYLS--D-R----NIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLE-LE 1610 (2382)
T ss_pred             hhhh--c-c----cccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHH-HH
Confidence            7766  2 1    2222222  233333322  2222222333333221111         0123444443332111 11


Q ss_pred             HHHHHHHHHHh-CCCCCCHHHHHHHH---HHHHhcCCHHHHHHHHH-hc----CCCC-CHHHHHHHHHHHHhcCChHHHH
Q 042154          251 KALELVGEMRS-KEINPDVFTFYALI---KGFVNEGNLEEAKRWYN-KS----GCGM-NKAIFKLLVPFVCEKGDLDFAF  320 (377)
Q Consensus       251 ~a~~~~~~~~~-~g~~p~~~~~~~l~---~~~~~~~~~~~a~~~~~-~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~  320 (377)
                      ...+.+..... .....+...|..-+   +.+.+..++--|.+--- ..    +... -..+|-...+.....|.++.|.
T Consensus      1611 ~~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~ 1690 (2382)
T KOG0890|consen 1611 NSIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQ 1690 (2382)
T ss_pred             HHHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHH
Confidence            11111111100 00011111121111   11222111111111111 11    1111 2357888888888899999999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCcee
Q 042154          321 NLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCR  368 (377)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  368 (377)
                      ..+-.+.+.+   -+..+-.....+...|+...|..++++..+...+.
T Consensus      1691 nall~A~e~r---~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~~~ 1735 (2382)
T KOG0890|consen 1691 NALLNAKESR---LPEIVLERAKLLWQTGDELNALSVLQEILSKNFPD 1735 (2382)
T ss_pred             HHHHhhhhcc---cchHHHHHHHHHHhhccHHHHHHHHHHHHHhhccc
Confidence            8876666654   34566678888999999999999999988776655

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.55  E-value=0.99  Score=36.34  Aligned_cols=176  Identities=14%  Similarity=0.136  Sum_probs=99.4

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---
Q 042154          172 AFVDKGSLDSANTLLYEMEKKGI--RLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIE---  246 (377)
Q Consensus       172 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  246 (377)
                      .-.+.|++++|.+.|+.+...-+  +....+.-.++.++.+.++++.|+...++....-.......|...|.+++..   
T Consensus        43 ~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i  122 (254)
T COG4105          43 TELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQI  122 (254)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccC
Confidence            34567888888888888875421  2234555666677778888888888888777654332334455555554421   


Q ss_pred             ----CCHH---HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChH
Q 042154          247 ----KQTK---KALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLD  317 (377)
Q Consensus       247 ----~~~~---~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~  317 (377)
                          .+..   .|..-|+++++.  -||..             =...|..-+.  ...+   ...=..+.+-|.+.|.+.
T Consensus       123 ~~~~rDq~~~~~A~~~f~~~i~r--yPnS~-------------Ya~dA~~~i~~~~d~L---A~~Em~IaryY~kr~~~~  184 (254)
T COG4105         123 DDVTRDQSAARAAFAAFKELVQR--YPNSR-------------YAPDAKARIVKLNDAL---AGHEMAIARYYLKRGAYV  184 (254)
T ss_pred             CccccCHHHHHHHHHHHHHHHHH--CCCCc-------------chhhHHHHHHHHHHHH---HHHHHHHHHHHHHhcChH
Confidence                2222   334444444443  22221             1111111111  0000   001123566788899999


Q ss_pred             HHHHHHHHHHhcCCCCCh---hhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          318 FAFNLCKRTFSERCLVDQ---APLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       318 ~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      .|..-+++|++. .+-..   ..+-.+..+|...|-.++|...-.-+..+-+
T Consensus       185 AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N~p  235 (254)
T COG4105         185 AAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANYP  235 (254)
T ss_pred             HHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCC
Confidence            999999998886 22222   2455667788889988888877666655443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.54  E-value=0.5  Score=40.48  Aligned_cols=92  Identities=8%  Similarity=0.068  Sum_probs=51.8

Q ss_pred             HHHHhCCChhHHHHHHHhchhhcC----CCc---------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhH
Q 042154          135 GACVNSKKFDEVDGLFKDLPHKLG----IEP---------DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITF  201 (377)
Q Consensus       135 ~~~~~~~~~~~a~~~~~~~~~~~~----~~p---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  201 (377)
                      +.|.+.|++..|..-|++.....+    ..+         -..++..+.-++.+.+++..|++.-...+..+. +|....
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            457777777777777776543211    111         112344455555666666666666666555532 255555


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          202 NTLLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       202 ~~l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      ..-..++...|+++.|+..|+++++.
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            55555666666666666666666654

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.49  E-value=1.7  Score=38.63  Aligned_cols=59  Identities=17%  Similarity=0.001  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHH-h-cCCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          270 TFYALIKGFVNEGNLEEAKRWYN-K-SGCGM--NKAIFKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       270 ~~~~l~~~~~~~~~~~~a~~~~~-~-~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      +-..+..++.+.|+.++|.+.++ - ...+.  +......|+.++...+.+.++..++.+..+
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            33456666667777777777777 1 11111  233555677777777777777777766543

The molecular function of this protein is uncertain.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.41  E-value=1.7  Score=38.10  Aligned_cols=308  Identities=9%  Similarity=0.096  Sum_probs=158.6

Q ss_pred             HHHHHHHhhhcccHHHHHHHHHhcccCC---CCccchhhHHHHHHHHHhc--------CChHHHHHHH-------HHhhh
Q 042154           24 IGSVIRGIYKENNLKRLVDKFKKSSDLG---RFRTNTGIYTGTVQRLANA--------KRFRWIEEIL-------EHQKQ   85 (377)
Q Consensus        24 ~~~li~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~-------~~~~~   85 (377)
                      =+..++.+...|++.++..+++++...-   ...-+..+|+.++-.+++.        ...+-....+       .++..
T Consensus       131 ~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~  210 (549)
T PF07079_consen  131 DEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHA  210 (549)
T ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHH
Confidence            3556678889999999999999886532   1336788888866555442        1122222222       22222


Q ss_pred             h------cCCCccchhHHHHHHHHccC--CHHHHHHHHHhcCCCCCCccHH-HHHHHHHHHHhCCChhHHHHHHHhchhh
Q 042154           86 Y------KDISKEGFTARLIALYGKAA--MFENARKVFDEMPGRNCEQTVL-SFNALLGACVNSKKFDEVDGLFKDLPHK  156 (377)
Q Consensus        86 ~------~~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (377)
                      .      ...|...+...++....-..  +..--.+++......-+.|+-. ....+...+..  +.+++..+-+.+...
T Consensus       211 ~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~  288 (549)
T PF07079_consen  211 FDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASS  288 (549)
T ss_pred             HhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHH
Confidence            1      12344444444443332221  1122222222222222233322 23333333333  344444444333211


Q ss_pred             cCCCc----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-------------------CHHhH------------
Q 042154          157 LGIEP----DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRL-------------------DLITF------------  201 (377)
Q Consensus       157 ~~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-------------------~~~~~------------  201 (377)
                       .+.+    =..++..++....+.++...|.+.+.-+.......                   |-..+            
T Consensus       289 -~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~  367 (549)
T PF07079_consen  289 -KIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEE  367 (549)
T ss_pred             -hHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHH
Confidence             1111    12356666666666666666666655444321110                   00000            


Q ss_pred             ------------HHHH---HHHHcCCC-HHHHHHHHHHHHhCCCCCCHHHHHHHH----HHHHhc---CCHHHHHHHHHH
Q 042154          202 ------------NTLL---LGFYSNGR-FADAEKIWETMVNMNVRPNVRSYNARL----DGLAIE---KQTKKALELVGE  258 (377)
Q Consensus       202 ------------~~l~---~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~---~~~~~a~~~~~~  258 (377)
                                  ..|+   .-+.+.|. -++|+++++.+.+-. .-|...-|.+.    .+|.+.   ..+.+-+.+-+-
T Consensus       368 ~qs~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~f  446 (549)
T PF07079_consen  368 IQSYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDF  446 (549)
T ss_pred             HHhhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence                        1111   11223343 566777777666532 12333322222    233222   233444444444


Q ss_pred             HHhCCCCCCH----HHHHHHHHH--HHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 042154          259 MRSKEINPDV----FTFYALIKG--FVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERC  331 (377)
Q Consensus       259 ~~~~g~~p~~----~~~~~l~~~--~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  331 (377)
                      +.+.|++|-.    ..-|.|.++  +..+|++.++.-.-. -..+.|.+.+|..+.-++....++++|..++..     +
T Consensus       447 i~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~-----L  521 (549)
T PF07079_consen  447 ITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAPSPQAYRLLGLCLMENKRYQEAWEYLQK-----L  521 (549)
T ss_pred             HHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHhhHHHHHHHHHh-----C
Confidence            5566777643    233444443  456899998887666 666789999999999999999999999999975     4


Q ss_pred             CCChhhHHH
Q 042154          332 LVDQAPLQL  340 (377)
Q Consensus       332 ~~~~~~~~~  340 (377)
                      +|+..++++
T Consensus       522 P~n~~~~ds  530 (549)
T PF07079_consen  522 PPNERMRDS  530 (549)
T ss_pred             CCchhhHHH
Confidence            667777754

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.27  E-value=0.48  Score=33.65  Aligned_cols=95  Identities=12%  Similarity=0.012  Sum_probs=68.4

Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCH--HHHHHHHHHHHHc
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDL--VSYNTIIKAFVDK  176 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~  176 (377)
                      .-+++..|+++.|++.|.+....- |....+||.-..++.-.|+.++|++-+++..+-.|-....  ..|..-...|...
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            345677888888888888876652 4567888888888888888888888888776654433221  2344445567778


Q ss_pred             CCHHHHHHHHHHHHHCCC
Q 042154          177 GSLDSANTLLYEMEKKGI  194 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~  194 (377)
                      |+-+.|..=|+..-+.|.
T Consensus       129 g~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLGS  146 (175)
T ss_pred             CchHHHHHhHHHHHHhCC
Confidence            888888888888777653

>PRK11906 transcriptional regulator; Provisional

Probab=95.27  E-value=1.2  Score=39.33  Aligned_cols=111  Identities=10%  Similarity=0.016  Sum_probs=55.9

Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHH-HHHHHHHHHHHcCCHHHHHHHH
Q 042154          108 FENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLV-SYNTIIKAFVDKGSLDSANTLL  186 (377)
Q Consensus       108 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~  186 (377)
                      ..+|.++-++..+.+ +.|+.+...+..+..-.++++.|..+|++..   ...||.. +|......+.-.|+.++|.+.+
T Consensus       320 ~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~---~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i  395 (458)
T PRK11906        320 AQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAK---IHSTDIASLYYYRALVHFHNEKIEEARICI  395 (458)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHh---hcCCccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            344555555555554 3455555555555555556666666666654   3344432 4444444455566666666666


Q ss_pred             HHHHHCCC-CCCHHhHHHHHHHHHcCCCHHHHHHHHHH
Q 042154          187 YEMEKKGI-RLDLITFNTLLLGFYSNGRFADAEKIWET  223 (377)
Q Consensus       187 ~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  223 (377)
                      ++..+..+ ..-.......++.|+.. ..+.|+++|-+
T Consensus       396 ~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  432 (458)
T PRK11906        396 DKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIKLYYK  432 (458)
T ss_pred             HHHhccCchhhHHHHHHHHHHHHcCC-chhhhHHHHhh
Confidence            66554321 11122233333345443 35555555543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.20  E-value=0.82  Score=33.27  Aligned_cols=54  Identities=15%  Similarity=0.321  Sum_probs=24.3

Q ss_pred             HHcCCHHHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          174 VDKGSLDSANTLLYEMEKKGI--RLDLITFNTLLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      .+.|++++|.+.|+.+...-.  +-....-..++.+|.+.+++++|...+++.++.
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            344555555555555443311  112223334444555555555555555555544

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.06  E-value=1.1  Score=33.78  Aligned_cols=131  Identities=15%  Similarity=0.188  Sum_probs=88.4

Q ss_pred             HHHccCCHHHHHHHHHhcCCCCCCccH-HHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHH-HHHHH--HHHHHHc
Q 042154          101 LYGKAAMFENARKVFDEMPGRNCEQTV-LSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLV-SYNTI--IKAFVDK  176 (377)
Q Consensus       101 ~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l--~~~~~~~  176 (377)
                      -+.+.+..++|+.-|..+.+.|...-+ ...-.+.....+.|+...|...|+++-.. ...|-.. -...+  .-.+...
T Consensus        67 ~lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d-t~~P~~~rd~ARlraa~lLvD~  145 (221)
T COG4649          67 KLAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD-TSIPQIGRDLARLRAAYLLVDN  145 (221)
T ss_pred             HHHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc-CCCcchhhHHHHHHHHHHHhcc
Confidence            356778889999999999887643211 12222344467889999999999988544 3333322 11111  2245678


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC
Q 042154          177 GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPN  232 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  232 (377)
                      |.++.+....+-+-..+-+.....-..|.-+-.+.|++.+|.+.|.++......|-
T Consensus       146 gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~apr  201 (221)
T COG4649         146 GSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPR  201 (221)
T ss_pred             ccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcH
Confidence            88998888888777666555566667777788899999999999998886443443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.99  E-value=1.3  Score=34.62  Aligned_cols=86  Identities=14%  Similarity=0.093  Sum_probs=40.2

Q ss_pred             HhCCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHH
Q 042154          138 VNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFAD  216 (377)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  216 (377)
                      -..|-+.-|.--|.+..   .+.|+ +.+||.+.-.+...|+++.|.+.|+...+.+..-+-...|.-|..| --|++.-
T Consensus        76 DSlGL~~LAR~DftQaL---ai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~Y-Y~gR~~L  151 (297)
T COG4785          76 DSLGLRALARNDFSQAL---AIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALY-YGGRYKL  151 (297)
T ss_pred             hhhhHHHHHhhhhhhhh---hcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeee-ecCchHh
Confidence            33344444444444333   33444 2355555555566666666666666665553332222222222222 2355665


Q ss_pred             HHHHHHHHHhC
Q 042154          217 AEKIWETMVNM  227 (377)
Q Consensus       217 a~~~~~~~~~~  227 (377)
                      |.+-|.+.-+.
T Consensus       152 Aq~d~~~fYQ~  162 (297)
T COG4785         152 AQDDLLAFYQD  162 (297)
T ss_pred             hHHHHHHHHhc
Confidence            55555544443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.83  E-value=0.038  Score=29.01  Aligned_cols=32  Identities=13%  Similarity=0.039  Sum_probs=21.1

Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHH
Q 042154          323 CKRTFSERCLVDQAPLQLVVDRLAKELRVEEAK  355 (377)
Q Consensus       323 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  355 (377)
                      |++.++..+. ++..|..+...|...|++++|+
T Consensus         2 y~kAie~~P~-n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPN-NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCC-CHHHHHHHHHHHHHCcCHHhhc
Confidence            3455554443 6667777777777777777775

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.78  E-value=0.54  Score=38.69  Aligned_cols=77  Identities=10%  Similarity=0.139  Sum_probs=50.5

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHHHHH
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRS-----KEINPDVFTFYAL  274 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~g~~p~~~~~~~l  274 (377)
                      ++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            45556666666777777777777777665 34666777777777777777777777766654     3666666665555


Q ss_pred             HHH
Q 042154          275 IKG  277 (377)
Q Consensus       275 ~~~  277 (377)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            444

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.64  E-value=1.2  Score=32.43  Aligned_cols=84  Identities=4%  Similarity=-0.100  Sum_probs=53.3

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCcc-chhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRT-NTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIAL  101 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  101 (377)
                      .+-.-.....+.|++++|++.|+.+..+-...+ ...+.-.++.++-+.+++++|...+++..+..+.....-|...+.+
T Consensus        12 ~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~g   91 (142)
T PF13512_consen   12 ELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRG   91 (142)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHH
Confidence            333444555667888888888888875532222 3445567778888888888888888888777655444444445555


Q ss_pred             HHccC
Q 042154          102 YGKAA  106 (377)
Q Consensus       102 ~~~~~  106 (377)
                      ++...
T Consensus        92 L~~~~   96 (142)
T PF13512_consen   92 LSYYE   96 (142)
T ss_pred             HHHHH
Confidence            44333

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.49  E-value=2.9  Score=36.21  Aligned_cols=61  Identities=13%  Similarity=-0.008  Sum_probs=38.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          232 NVRSYNARLDGLAIEKQTKKALELVGEMRSKEINP---DVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       232 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ...+|..++..+.+.|.++.|...+..+...+...   ++.....-+......|+..+|...++
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~  208 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLR  208 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHH
Confidence            34566777777777788888877777776643111   23334444555666777777777776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.47  E-value=0.11  Score=27.69  Aligned_cols=25  Identities=16%  Similarity=0.272  Sum_probs=14.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 042154          303 FKLLVPFVCEKGDLDFAFNLCKRTF  327 (377)
Q Consensus       303 ~~~l~~~~~~~g~~~~a~~~~~~~~  327 (377)
                      |..|...|.+.|++++|+++|++.+
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666666666666666666643

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.46  E-value=1.7  Score=33.42  Aligned_cols=86  Identities=17%  Similarity=0.076  Sum_probs=39.4

Q ss_pred             HHHhcCCHHHHHHHHH-hcCCCCCHHHHH-----HHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 042154          277 GFVNEGNLEEAKRWYN-KSGCGMNKAIFK-----LLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELR  350 (377)
Q Consensus       277 ~~~~~~~~~~a~~~~~-~~~~~~~~~~~~-----~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  350 (377)
                      .+...|++++|...++ ..+.+.| ..+.     -|.+.....|.+++|+..++.....+..  ......-.+++...|+
T Consensus        98 ~~ve~~~~d~A~aqL~~~l~~t~D-e~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~kg~  174 (207)
T COG2976          98 AEVEANNLDKAEAQLKQALAQTKD-ENLKALAALRLARVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLAKGD  174 (207)
T ss_pred             HHHhhccHHHHHHHHHHHHccchh-HHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHHcCc
Confidence            3445555555555555 2221111 1222     1233445555555555555544433221  1122334455555566


Q ss_pred             HHHHHHHHHhhccCC
Q 042154          351 VEEAKELVELGKTNS  365 (377)
Q Consensus       351 ~~~A~~~~~~~~~~~  365 (377)
                      .++|+.-|+++.+.+
T Consensus       175 k~~Ar~ay~kAl~~~  189 (207)
T COG2976         175 KQEARAAYEKALESD  189 (207)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            666655555555543

>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=94.44  E-value=0.82  Score=35.11  Aligned_cols=60  Identities=5%  Similarity=0.013  Sum_probs=31.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCc--cchhHHHHHHHHccCCHHHHHHHHHhc
Q 042154           59 IYTGTVQRLANAKRFRWIEEILEHQKQYKDISK--EGFTARLIALYGKAAMFENARKVFDEM  118 (377)
Q Consensus        59 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~  118 (377)
                      .+..+...|++.|+.+.|.+.+.++......+.  ...+-.+++.....+++..+.....+.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            455566666666666666666666554422221  122224555555566665555555443

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.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.30  E-value=6.2  Score=39.16  Aligned_cols=28  Identities=21%  Similarity=0.256  Sum_probs=19.4

Q ss_pred             chhHHHHHHHHccC--CHHHHHHHHHhcCC
Q 042154           93 GFTARLIALYGKAA--MFENARKVFDEMPG  120 (377)
Q Consensus        93 ~~~~~l~~~~~~~~--~~~~A~~~~~~~~~  120 (377)
                      .+...++..|.+.+  .+++|+....++..
T Consensus       791 ~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~  820 (1265)
T KOG1920|consen  791 KFNLFILTSYVKSNPPEIEEALQKIKELQL  820 (1265)
T ss_pred             hhhHHHHHHHHhcCcHHHHHHHHHHHHHHh
Confidence            44456788888777  67777777766664

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.29  E-value=1.6  Score=32.47  Aligned_cols=54  Identities=13%  Similarity=-0.063  Sum_probs=29.1

Q ss_pred             HhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCC
Q 042154           68 ANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRN  122 (377)
Q Consensus        68 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  122 (377)
                      ...++.+.+..++..+....+.....- ..-...+...|++.+|.++|+++.+..
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~-~~~~~l~i~r~~w~dA~rlLr~l~~~~   74 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELD-LFDGWLHIVRGDWDDALRLLRELEERA   74 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHH-HHHHHHHHHhCCHHHHHHHHHHHhccC
Confidence            345566666666666655433222211 124455566666666666666665543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.28  E-value=0.9  Score=37.45  Aligned_cols=78  Identities=14%  Similarity=0.190  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHh-----CCCCCCHHHHHH
Q 042154          164 VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVN-----MNVRPNVRSYNA  238 (377)
Q Consensus       164 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  238 (377)
                      .++..++..+...|+.+.+.+.++++..... -+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            3577788888999999999999999998744 4888999999999999999999999988764     578888777666


Q ss_pred             HHHH
Q 042154          239 RLDG  242 (377)
Q Consensus       239 l~~~  242 (377)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5555

>PRK11906 transcriptional regulator; Provisional

Probab=94.23  E-value=3.7  Score=36.36  Aligned_cols=107  Identities=12%  Similarity=0.070  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          214 FADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD-VFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       214 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ..+|.++-+...+.+ +-|......+..+....++++.|..+|++....  .|| ..+|......+.-.|+.++|.+.++
T Consensus       320 ~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~  396 (458)
T PRK11906        320 AQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICID  396 (458)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            445555666666555 345555555555555566666666666666653  343 3344444444555666666666666


Q ss_pred             -hcCCCCCH---HHHHHHHHHHHhcCChHHHHHHHH
Q 042154          293 -KSGCGMNK---AIFKLLVPFVCEKGDLDFAFNLCK  324 (377)
Q Consensus       293 -~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~  324 (377)
                       .....|..   ......++.|+..+ .+.|+++|-
T Consensus       397 ~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        397 KSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             HHhccCchhhHHHHHHHHHHHHcCCc-hhhhHHHHh
Confidence             34444432   22333344454443 455655553

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.18  E-value=3  Score=35.10  Aligned_cols=155  Identities=12%  Similarity=0.005  Sum_probs=110.7

Q ss_pred             HHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCH----HHHHHHHHHHHHcC
Q 042154          102 YGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDL----VSYNTIIKAFVDKG  177 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~  177 (377)
                      .-..|...+|-..++++.+. .|.|..++...=.+|.-+|+.+.-...++++..+.  .||.    ..-....-++...|
T Consensus       113 ~~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~w--n~dlp~~sYv~GmyaFgL~E~g  189 (491)
T KOG2610|consen  113 LWGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKW--NADLPCYSYVHGMYAFGLEECG  189 (491)
T ss_pred             hhccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhcccc--CCCCcHHHHHHHHHHhhHHHhc
Confidence            34567788888888888875 47788899988899999999888888888876542  3333    33344455667899


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM---NVRPNVRSYNARLDGLAIEKQTKKALE  254 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~  254 (377)
                      -+++|++.-++..+.+. .|...-.++...+--.|+..++.+...+-...   +--.-..-|-...-.+...+.++.|++
T Consensus       190 ~y~dAEk~A~ralqiN~-~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~ale  268 (491)
T KOG2610|consen  190 IYDDAEKQADRALQINR-FDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALE  268 (491)
T ss_pred             cchhHHHHHHhhccCCC-cchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHH
Confidence            99999999999988753 37777788888888899999999887765431   100111223333444566789999999


Q ss_pred             HHHHHH
Q 042154          255 LVGEMR  260 (377)
Q Consensus       255 ~~~~~~  260 (377)
                      +|+.=.
T Consensus       269 IyD~ei  274 (491)
T KOG2610|consen  269 IYDREI  274 (491)
T ss_pred             HHHHHH
Confidence            997643

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.17  E-value=0.096  Score=27.85  Aligned_cols=26  Identities=19%  Similarity=0.036  Sum_probs=22.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          337 PLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       337 ~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      +|..|..+|.+.|++++|.++++++.
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            46789999999999999999999954

>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=94.16  E-value=0.96  Score=34.74  Aligned_cols=60  Identities=10%  Similarity=0.096  Sum_probs=26.3

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCH--HHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 042154          130 FNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDL--VSYNTIIKAFVDKGSLDSANTLLYEME  190 (377)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~  190 (377)
                      +..+...|.+.|+.+.|++.|.++.+. ...+..  ..+-.+|+.....+++..+...+.++.
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~-~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDY-CTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhh-cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            444444455555555555555544332 222221  233444444444555555544444443

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.10  E-value=3.6  Score=35.67  Aligned_cols=65  Identities=12%  Similarity=0.009  Sum_probs=48.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          299 NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLV---DQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       299 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      ...+|..+++.+.+.|.++.|...+.++...+...   .+.....-...+...|+.++|...++...+
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44577788888889999999998888887754221   344555567778888888888888887776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=94.08  E-value=3.1  Score=34.81  Aligned_cols=19  Identities=32%  Similarity=0.235  Sum_probs=13.7

Q ss_pred             HHHhcCCHHHHHHHHHhhc
Q 042154          344 RLAKELRVEEAKELVELGK  362 (377)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~~  362 (377)
                      .+.+.+++++|.++++-..
T Consensus       255 ~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  255 KHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHhhcCHHHHHHHHHHHH
Confidence            4556778888888887554

It is also involved in sporulation [].

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.03  E-value=0.62  Score=38.53  Aligned_cols=98  Identities=21%  Similarity=0.225  Sum_probs=50.6

Q ss_pred             CCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 042154          193 GIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN---VRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVF  269 (377)
Q Consensus       193 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~  269 (377)
                      |......+...++..-....+++.++..+-++...-   ..|+...+ .+++.+ ..-++++++.++..=++.|+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            334444455555555555556666666665555321   11221111 112222 2234556666666666666666666


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHH
Q 042154          270 TFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       270 ~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      +++.+++.+.+.+++..|.++..
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt  159 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVT  159 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHH
Confidence            66666666666666666665544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.02  E-value=2.5  Score=33.56  Aligned_cols=217  Identities=17%  Similarity=0.080  Sum_probs=119.6

Q ss_pred             CChHHHHHHHHHhhhhcCCC-ccchhHHHHHHHHccCCHHHHHHHHHhcCCC-CCCccHHHHHHHHHHHHhCCChhHHHH
Q 042154           71 KRFRWIEEILEHQKQYKDIS-KEGFTARLIALYGKAAMFENARKVFDEMPGR-NCEQTVLSFNALLGACVNSKKFDEVDG  148 (377)
Q Consensus        71 ~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~  148 (377)
                      +....+...+.......... ...........+...+++..+...+...... ........+......+...++...+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            44445555554444432221 2334445666667777777777776666541 123445556666666666677777777


Q ss_pred             HHHhchhhcCCCcCH-HHHHHHHH-HHHHcCCHHHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHcCCCHHHHHHHHHHH
Q 042154          149 LFKDLPHKLGIEPDL-VSYNTIIK-AFVDKGSLDSANTLLYEMEKKGI--RLDLITFNTLLLGFYSNGRFADAEKIWETM  224 (377)
Q Consensus       149 ~~~~~~~~~~~~p~~-~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  224 (377)
                      .+......   .++. ........ .+...|+++.+...+........  ......+......+...++.+.+...+...
T Consensus       117 ~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  193 (291)
T COG0457         117 LLEKALAL---DPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKA  193 (291)
T ss_pred             HHHHHHcC---CCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHH
Confidence            77666532   2221 12222222 56677777777777777754211  122333344444455666777777777777


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          225 VNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD-VFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       225 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ...........+..+...+...++++.+...+......  .|+ ...+..+...+...+..+.+...+.
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  260 (291)
T COG0457         194 LKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALE  260 (291)
T ss_pred             HhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHH
Confidence            66532113455666666676777777777777777664  232 2333334444445556677776666

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.71  E-value=5.9  Score=36.88  Aligned_cols=148  Identities=19%  Similarity=0.104  Sum_probs=71.1

Q ss_pred             HHcCCHHHHHHHHHHHHH-------CCCCCCHHhHHHHHHHHHcCC-----CHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 042154          174 VDKGSLDSANTLLYEMEK-------KGIRLDLITFNTLLLGFYSNG-----RFADAEKIWETMVNMNVRPNVRSYNARLD  241 (377)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  241 (377)
                      ....|.+.|+.+|+.+.+       .|   .......+..+|.+..     +.+.|..++.+..+.|. |+....-..+.
T Consensus       260 g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~  335 (552)
T KOG1550|consen  260 GVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVLY  335 (552)
T ss_pred             cccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCC-chHHHHHHHHH
Confidence            345577777777777655       33   2234445555555532     55667777777776663 44333222222


Q ss_pred             HHHh-cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH----hcCCHHHHHHHHH---hcCCCCCHHHHHHHHHHHHhc
Q 042154          242 GLAI-EKQTKKALELVGEMRSKEINPDVFTFYALIKGFV----NEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEK  313 (377)
Q Consensus       242 ~~~~-~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~----~~~~~~~a~~~~~---~~~~~~~~~~~~~l~~~~~~~  313 (377)
                      -... ..+...|.++|......|..+   .+..+..+|.    ...+...|..++.   ..+ .|....-...+..+.. 
T Consensus       336 ~~g~~~~d~~~A~~yy~~Aa~~G~~~---A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-  410 (552)
T KOG1550|consen  336 ETGTKERDYRRAFEYYSLAAKAGHIL---AIYRLALCYELGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-  410 (552)
T ss_pred             HcCCccccHHHHHHHHHHHHHcCChH---HHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-
Confidence            1111 234567777777777666421   2222222221    2235666666666   333 2222211222223333 


Q ss_pred             CChHHHHHHHHHHHhcC
Q 042154          314 GDLDFAFNLCKRTFSER  330 (377)
Q Consensus       314 g~~~~a~~~~~~~~~~~  330 (377)
                      ++++.+.-.+..+.+.+
T Consensus       411 ~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  411 GRYDTALALYLYLAELG  427 (552)
T ss_pred             ccccHHHHHHHHHHHhh
Confidence            55555554444444443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.67  E-value=1.2  Score=37.01  Aligned_cols=104  Identities=18%  Similarity=0.198  Sum_probs=64.5

Q ss_pred             CCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcC--CCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 042154          122 NCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLG--IEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLI  199 (377)
Q Consensus       122 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  199 (377)
                      |.+.+..+...++..-....+++.++..+-++.....  ..|+. +-.++++.| -.-++++++.++..=.+.|+-||-.
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            4445555555566555556777777777766643211  11111 122233333 2346667777777777778888888


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      ++..+|+.+.+.+++.+|.++...|...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            8888888888888888877777666643

>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=93.58  E-value=0.0061  Score=45.10  Aligned_cols=129  Identities=15%  Similarity=0.189  Sum_probs=74.2

Q ss_pred             HHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHcc
Q 042154           26 SVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKA  105 (377)
Q Consensus        26 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  105 (377)
                      .+++.+.+.+.++.+..+++.+...+ ...+....+.++..|++.++.+...++++....       .-...++..|.+.
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~-------yd~~~~~~~c~~~   83 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKEN-KENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN-------YDLDKALRLCEKH   83 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTS-TC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS-------S-CTHHHHHHHTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcc-cccCHHHHHHHHHHHHhcCCchHHHHHcccccc-------cCHHHHHHHHHhc
Confidence            35566777777777777777777554 234566777788888888777777776652111       1112466667777


Q ss_pred             CCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154          106 AMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus       106 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      |.+++|.-++.++....-         .+..+...++++.|.+.+.+.       ++...|..+++.|...++
T Consensus        84 ~l~~~a~~Ly~~~~~~~~---------al~i~~~~~~~~~a~e~~~~~-------~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   84 GLYEEAVYLYSKLGNHDE---------ALEILHKLKDYEEAIEYAKKV-------DDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             TSHHHHHHHHHCCTTHTT---------CSSTSSSTHCSCCCTTTGGGC-------SSSHHHHHHHHHHCTSTC
T ss_pred             chHHHHHHHHHHcccHHH---------HHHHHHHHccHHHHHHHHHhc-------CcHHHHHHHHHHHHhcCc
Confidence            777777777766544220         011133445556665333322       345667777776655443

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=93.46  E-value=7.6  Score=37.32  Aligned_cols=165  Identities=13%  Similarity=0.086  Sum_probs=89.2

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHH----HhcCChHHHHHHHHHhhhhcCCCccchhH
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRL----ANAKRFRWIEEILEHQKQYKDISKEGFTA   96 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   96 (377)
                      ......-...+...|.+.+|++.--.+.       |+..-..++..+    ...++......+.+.+...-...++.+.-
T Consensus       347 ~~lH~~Aa~w~~~~g~~~eAI~hAlaA~-------d~~~aa~lle~~~~~L~~~~~lsll~~~~~~lP~~~l~~~P~Lvl  419 (894)
T COG2909         347 KELHRAAAEWFAEHGLPSEAIDHALAAG-------DPEMAADLLEQLEWQLFNGSELSLLLAWLKALPAELLASTPRLVL  419 (894)
T ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHhCC-------CHHHHHHHHHhhhhhhhcccchHHHHHHHHhCCHHHHhhCchHHH
Confidence            4455555566677777777776554332       222333333333    23344444444444433322222233332


Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCc----cH---HHHHHHHH-HHHhCCChhHHHHHHHhchhhc---CCCcCHHH
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQ----TV---LSFNALLG-ACVNSKKFDEVDGLFKDLPHKL---GIEPDLVS  165 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~----~~---~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~---~~~p~~~~  165 (377)
                      .-+.......++++|..++.++...-..|    ..   ..++.+-. .....|+++.|.++.+......   ...+....
T Consensus       420 l~aW~~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~  499 (894)
T COG2909         420 LQAWLLASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVA  499 (894)
T ss_pred             HHHHHHHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhh
Confidence            34445566788888888887754321111    11   13333322 2345677888888777665431   12334456


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 042154          166 YNTIIKAFVDKGSLDSANTLLYEMEKK  192 (377)
Q Consensus       166 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  192 (377)
                      +..+..+..-.|++++|..+.....+.
T Consensus       500 ~sv~~~a~~~~G~~~~Al~~~~~a~~~  526 (894)
T COG2909         500 LSVLGEAAHIRGELTQALALMQQAEQM  526 (894)
T ss_pred             hhhhhHHHHHhchHHHHHHHHHHHHHH
Confidence            666677777788888888887776654

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.39  E-value=3.1  Score=32.69  Aligned_cols=161  Identities=11%  Similarity=-0.031  Sum_probs=91.4

Q ss_pred             ccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHH
Q 042154           91 KEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTII  170 (377)
Q Consensus        91 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  170 (377)
                      -..++|-+.-.+...|+++.|.+.|+...+.+..-+-...|.-|. +.--|++.-|.+-+.+.-+.....|=...|--+.
T Consensus        98 m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~  176 (297)
T COG4785          98 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLN  176 (297)
T ss_pred             cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eeecCchHhhHHHHHHHHhcCCCChHHHHHHHHH
Confidence            346677788888899999999999999988762222222232222 3346788888777666654322233233343333


Q ss_pred             HHHHHcCCHHHHHHH-HHHHHHCCCCCCHHhHHHH-HHHHHcCCCHHHHHHHHHHHHhCCC------CCCHHHHHHHHHH
Q 042154          171 KAFVDKGSLDSANTL-LYEMEKKGIRLDLITFNTL-LLGFYSNGRFADAEKIWETMVNMNV------RPNVRSYNARLDG  242 (377)
Q Consensus       171 ~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~~l~~~  242 (377)
                      .   ..-++.+|..- .++..+.    +..-|... +..|...=..+   .+++++....-      ..=..||--+..-
T Consensus       177 E---~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yLgkiS~e---~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~  246 (297)
T COG4785         177 E---QKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYLGKISEE---TLMERLKADATDNTSLAEHLTETYFYLGKY  246 (297)
T ss_pred             H---hhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHHhhccHH---HHHHHHHhhccchHHHHHHHHHHHHHHHHH
Confidence            2   34466666543 4444433    33333332 23333221222   22332221110      0124678888899


Q ss_pred             HHhcCCHHHHHHHHHHHHhC
Q 042154          243 LAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~  262 (377)
                      +...|+.++|..+|+-....
T Consensus       247 ~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         247 YLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HhccccHHHHHHHHHHHHHH
Confidence            99999999999999988775

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=93.12  E-value=2.9  Score=34.18  Aligned_cols=128  Identities=13%  Similarity=0.111  Sum_probs=79.8

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCC----CCccchhh--------HHHHHHHHHhcCChHHHHHHHHHhhhhcCCC
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLG----RFRTNTGI--------YTGTVQRLANAKRFRWIEEILEHQKQYKDIS   90 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~~~--------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   90 (377)
                      ....-.+.+.-..||..|++..++-.+.-    ....+..+        ...=|.+++..++|.++....-+.-+.....
T Consensus        37 lLe~Aad~LvV~rdF~aal~tCerglqsL~~~a~~ee~~~~~~evK~sLcvvGIQALAEmnrWreVLsWvlqyYq~pEkl  116 (309)
T PF07163_consen   37 LLEEAADLLVVHRDFQAALETCERGLQSLASDADAEEPAGSSLEVKCSLCVVGIQALAEMNRWREVLSWVLQYYQVPEKL  116 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchhhhhhhhhhhhHHHHHHHhhHHHHHHHHHHHhcCcccC
Confidence            34444455666888988888887664321    01111111        1223678888889888888776655554444


Q ss_pred             ccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH-----hCCChhHHHHHH
Q 042154           91 KEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACV-----NSKKFDEVDGLF  150 (377)
Q Consensus        91 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-----~~~~~~~a~~~~  150 (377)
                      ...+....|-.|.+.+.+..+.++-....+..-.-+...|..++..|.     =.|.+++|+++.
T Consensus       117 PpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  117 PPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             CHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence            555666778888888888888877766554321223444666655544     468888888776

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

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.12  E-value=2.6  Score=30.93  Aligned_cols=52  Identities=10%  Similarity=0.019  Sum_probs=35.2

Q ss_pred             hcCChHHHHHHHHHhhhhcCCCc-cchhHHHHHHHHccCCHHHHHHHHHhcCCCC
Q 042154           69 NAKRFRWIEEILEHQKQYKDISK-EGFTARLIALYGKAAMFENARKVFDEMPGRN  122 (377)
Q Consensus        69 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  122 (377)
                      ..++.+++..+++.+.-..+... ..++  -...+...|++.+|.++|+++.+.+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~--dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMF--DGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchh--HHHHHHHcCCHHHHHHHHHhhhccC
Confidence            46777888888877776543322 2233  5566777888888888888887764

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.99  E-value=1.9  Score=29.15  Aligned_cols=63  Identities=17%  Similarity=0.185  Sum_probs=36.5

Q ss_pred             CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHH
Q 042154          107 MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIK  171 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  171 (377)
                      |.-+..+-++.+....+.|++....+.+++|.+.+++..|+++|+-++.+.|..  ...|..+++
T Consensus        25 D~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lq   87 (108)
T PF02284_consen   25 DGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQ   87 (108)
T ss_dssp             -HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHH
Confidence            334556666666667777777777777777777777777777777776553322  225555543

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 ....

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.89  E-value=1.5  Score=29.35  Aligned_cols=50  Identities=16%  Similarity=0.162  Sum_probs=30.7

Q ss_pred             CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhh
Q 042154          107 MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK  156 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (377)
                      |.-++.+-++.+....+.|++....+.+++|.+.+|+..|+++++-++.+
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K   71 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK   71 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            44455555666666666666666666666666666666666666655443

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.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=92.83  E-value=7.5  Score=35.51  Aligned_cols=323  Identities=11%  Similarity=0.021  Sum_probs=168.8

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh-HHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT-ARL   98 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l   98 (377)
                      +-..|..||.---...+.+.+..++..+...-  |--..-|......-.+.|..+.+.++|++..+. .+.+...+ +-+
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~ky--Pl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~  120 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSKY--PLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYL  120 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHH
Confidence            44556666665555555666777777776432  333334555556666778888888888887764 33333333 233


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCC-CC-CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHH---
Q 042154           99 IALYGKAAMFENARKVFDEMPGR-NC-EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAF---  173 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~---  173 (377)
                      ..+....|+.+...+.|+..+.. |. --+...|...|..-...+++.....+|+++++.    |. ..++..-.-|   
T Consensus       121 ~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei----P~-~~~~~~f~~f~~~  195 (577)
T KOG1258|consen  121 AFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI----PL-HQLNRHFDRFKQL  195 (577)
T ss_pred             HHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh----hh-hHhHHHHHHHHHH
Confidence            33444567777777788776542 21 124456777777777778888888888887653    11 1122111111   


Q ss_pred             HHc------CCHHHHHHHHHHHHHC---C-CCCCHHhHHHHHH------------------H-------HHcCCCHHHHH
Q 042154          174 VDK------GSLDSANTLLYEMEKK---G-IRLDLITFNTLLL------------------G-------FYSNGRFADAE  218 (377)
Q Consensus       174 ~~~------~~~~~a~~~~~~~~~~---~-~~~~~~~~~~l~~------------------~-------~~~~~~~~~a~  218 (377)
                      .+.      ...+++.++-......   + ..+.......-+.                  .       +..........
T Consensus       196 l~~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~~~~~~~s~~~~~kr  275 (577)
T KOG1258|consen  196 LNQNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVSIHEKVYQKSEEEEEKR  275 (577)
T ss_pred             HhcCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHHHHHHHHHhhHhHHHHH
Confidence            111      1222222222111110   0 0000011111110                  0       11111111111


Q ss_pred             HHHHHHHhC---CCC----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          219 KIWETMVNM---NVR----PNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWY  291 (377)
Q Consensus       219 ~~~~~~~~~---~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~  291 (377)
                      -.|+.-...   .++    ++..+|..-+.--...|+.+.+.-+|++..-- +..=...|-..+......|+.+-|..++
T Consensus       276 ~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~  354 (577)
T KOG1258|consen  276 WGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVL  354 (577)
T ss_pred             HhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHH
Confidence            122221111   111    34566777777778888888888888887632 1112234445555555668888888777


Q ss_pred             H---hc--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChh-hHHHHHHHHHhcCCHHHHH
Q 042154          292 N---KS--GCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQA-PLQLVVDRLAKELRVEEAK  355 (377)
Q Consensus       292 ~---~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~  355 (377)
                      .   +.  .-.|....+.+.+  .-..|++..|..+++...+.-  |+.. .-..-+....+.|..+.+.
T Consensus       355 ~~~~~i~~k~~~~i~L~~a~f--~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~  420 (577)
T KOG1258|consen  355 ARACKIHVKKTPIIHLLEARF--EESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDAN  420 (577)
T ss_pred             HhhhhhcCCCCcHHHHHHHHH--HHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhh
Confidence            7   22  2233333333332  445678999999999888763  4433 2223345566788888777

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.57  E-value=5.2  Score=33.07  Aligned_cols=138  Identities=12%  Similarity=0.091  Sum_probs=76.6

Q ss_pred             CChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHH-cC-CHHHHHHHHHHHHH-CCCCCCHHhHHHHHHHHHcCCCHHHH
Q 042154          141 KKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVD-KG-SLDSANTLLYEMEK-KGIRLDLITFNTLLLGFYSNGRFADA  217 (377)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a  217 (377)
                      ..+.+|+.+|+....+..+--|..+...+++.... .+ ....-.++.+-+.. .+..++..+...++..++..+++.+-
T Consensus       142 ~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  142 KIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            34556666666332111344566666666655544 21 22222233333332 23445666677777777777777777


Q ss_pred             HHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-----HHhCCCCCCHHHHHHHHHHH
Q 042154          218 EKIWETMVNM-NVRPNVRSYNARLDGLAIEKQTKKALELVGE-----MRSKEINPDVFTFYALIKGF  278 (377)
Q Consensus       218 ~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~g~~p~~~~~~~l~~~~  278 (377)
                      .++++..... +...|...|..+|......|+..-...+..+     +.+.|+..+...-..+-..+
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            7777766644 4455667777777777777777766666665     23445555555444444333

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.57  E-value=0.45  Score=24.60  Aligned_cols=27  Identities=19%  Similarity=0.228  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      +|..+..+|...|++++|+..|+++++
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            455556666666666666666666655

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 ....

>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=92.48  E-value=3.6  Score=31.06  Aligned_cols=134  Identities=14%  Similarity=0.216  Sum_probs=67.0

Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          183 NTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      .+.+..+.+.+++|+...+..+++.+.+.|++..    +.++...++-+|.......+-.+..  ....+..+=-+|..+
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            3445555566777777777777777777776544    3444455555555554444433322  222233333333321


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042154          263 EINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTF  327 (377)
Q Consensus       263 g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  327 (377)
                       .   ...+..++..+...|++-+|.++.+..+. .+......++.+..+.+|...=..+++-..
T Consensus        88 -L---~~~~~~iievLL~~g~vl~ALr~ar~~~~-~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~  147 (167)
T PF07035_consen   88 -L---GTAYEEIIEVLLSKGQVLEALRYARQYHK-VDSVPARKFLEAAANSNDDQLFYAVFRFFE  147 (167)
T ss_pred             -h---hhhHHHHHHHHHhCCCHHHHHHHHHHcCC-cccCCHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             0   01344556666677777777777763211 111122334555555555544444444333

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.39  E-value=9.4  Score=35.60  Aligned_cols=180  Identities=12%  Similarity=0.121  Sum_probs=78.7

Q ss_pred             HHHHHHHHHhcccCCCCccchhhHHHHHHH---HHhcCChHHHHHHHHHhhh-------hcCCCccchhHHHHHHHHccC
Q 042154           37 LKRLVDKFKKSSDLGRFRTNTGIYTGTVQR---LANAKRFRWIEEILEHQKQ-------YKDISKEGFTARLIALYGKAA  106 (377)
Q Consensus        37 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~  106 (377)
                      ...|.+.++...+.+..  .......++..   .....+.+.|+.+++.+..       .+  .....+ .+..+|.+..
T Consensus       228 ~~~a~~~~~~~a~~g~~--~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~--~~~a~~-~lg~~Y~~g~  302 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS--EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG--LPPAQY-GLGRLYLQGL  302 (552)
T ss_pred             hhHHHHHHHHHHhhcch--HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc--CCcccc-HHHHHHhcCC
Confidence            45677777777666522  22222222222   3345667777777776655       22  111222 3555554432


Q ss_pred             -----CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh-CCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHH----Hc
Q 042154          107 -----MFENARKVFDEMPGRNCEQTVLSFNALLGACVN-SKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFV----DK  176 (377)
Q Consensus       107 -----~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~----~~  176 (377)
                           +.+.|..++.+.-+.| .|+...+-..+..... ..+...|.++|....+. |..+   .+-.+..+|.    -.
T Consensus       303 ~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~-G~~~---A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  303 GVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKA-GHIL---AIYRLALCYELGLGVE  377 (552)
T ss_pred             CCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHc-CChH---HHHHHHHHHHhCCCcC
Confidence                 4455666666666555 2333333222222222 13445666666655333 3211   1111111111    12


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 042154          177 GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  228 (377)
                      .+.+.|..++.+.-+.| .|....-...+..+.. ++++.+.-.+..+.+.|
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            24555666666555554 2222222222223333 45555555555444444

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.38  E-value=0.14  Score=28.11  Aligned_cols=26  Identities=15%  Similarity=0.197  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTF  327 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~  327 (377)
                      +++.|...|...|++++|..++++..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            44455555555555555555555544

>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=92.35  E-value=3.8  Score=30.96  Aligned_cols=36  Identities=11%  Similarity=0.217  Sum_probs=20.3

Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHH
Q 042154          114 VFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGL  149 (377)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  149 (377)
                      ++..+.+.+++|+...+..+++.+.+.|++.....+
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~ql   51 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQL   51 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            334444455666666666666666666665544443

>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=92.21  E-value=2.2  Score=33.12  Aligned_cols=71  Identities=13%  Similarity=0.034  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHH
Q 042154          216 DAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK---EINPDVFTFYALIKGFVNEGNLEEA  287 (377)
Q Consensus       216 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---g~~p~~~~~~~l~~~~~~~~~~~~a  287 (377)
                      .|.+.|-++...+.--++.....+...| -..+.+++..++.+..+.   +-.+|+..+.+|+..+.+.|+++.|
T Consensus       124 ~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  124 EALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            4444444444443333333333333333 234444555444444432   1234445555555555555554444

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.17  E-value=4.4  Score=31.29  Aligned_cols=125  Identities=10%  Similarity=0.044  Sum_probs=81.2

Q ss_pred             HHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHH-----HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-
Q 042154          198 LITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNA-----RLDGLAIEKQTKKALELVGEMRSKEINPDVFTF-  271 (377)
Q Consensus       198 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~-  271 (377)
                      +..|..++.... .+.. +.....+++....   ...+|..     +...+...|++++|...++.....   |....+ 
T Consensus        54 S~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n---~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk  125 (207)
T COG2976          54 SAQYQNAIKAVQ-AKKP-KSIAAAEKFVQAN---GKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ---TKDENLK  125 (207)
T ss_pred             HHHHHHHHHHHh-cCCc-hhHHHHHHHHhhc---cccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---chhHHHH
Confidence            334555555443 2333 4455555665542   1233333     345678889999999999887753   222233 


Q ss_pred             ----HHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          272 ----YALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       272 ----~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                          -.|.......|.+++|+..++ ..+..........-.+.+...|+-++|+.-|.+.+..+
T Consensus       126 ~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         126 ALAALRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence                345566778999999999999 44433344445556778999999999999999999875

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.15  E-value=0.24  Score=25.71  Aligned_cols=31  Identities=13%  Similarity=-0.121  Sum_probs=26.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          336 APLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       336 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      .+|..+..+|...|++++|.+.++++.+..+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p   32 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCc
Confidence            4688899999999999999999999987654

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 ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.97  E-value=0.27  Score=25.40  Aligned_cols=26  Identities=19%  Similarity=-0.014  Sum_probs=12.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          338 LQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       338 ~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      +..+..++.+.|++++|.+.++++.+
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            33444445555555555555544443

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 ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.96  E-value=0.59  Score=24.04  Aligned_cols=29  Identities=10%  Similarity=0.139  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          301 AIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       301 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      ..+..+...+...|++++|++.|++.++.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            45677888899999999999999998875

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 ....

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=91.69  E-value=3.8  Score=36.33  Aligned_cols=121  Identities=11%  Similarity=0.060  Sum_probs=84.2

Q ss_pred             HhcCCHHHHH-HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 042154          244 AIEKQTKKAL-ELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAF  320 (377)
Q Consensus       244 ~~~~~~~~a~-~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~  320 (377)
                      ...|+.-.|- +++.-+......|+.....+.  .+...|+++.+.+.+.  +.-+.....+..++++...+.|++++|.
T Consensus       300 ~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~--i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~  377 (831)
T PRK15180        300 LADGDIIAASQQLFAALRNQQQDPVLIQLRSV--IFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREAL  377 (831)
T ss_pred             hhccCHHHHHHHHHHHHHhCCCCchhhHHHHH--HHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHH
Confidence            3567766654 445555544334555444433  3557899999999888  3334456677888889999999999999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          321 NLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      ..-..|+...+. +++........-...|-++++...|++...-+.+
T Consensus       378 s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~  423 (831)
T PRK15180        378 STAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPE  423 (831)
T ss_pred             HHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccCCh
Confidence            998888887666 6666655555566778889999998888765543

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=91.62  E-value=12  Score=35.35  Aligned_cols=186  Identities=13%  Similarity=0.115  Sum_probs=107.7

Q ss_pred             HHHHHHHHhcccCCCCccc--hhhHHHHHHHHH-hcCChHHHHHHHHHhhhhcCCCccc-----hhHHHHHHHHccCCHH
Q 042154           38 KRLVDKFKKSSDLGRFRTN--TGIYTGTVQRLA-NAKRFRWIEEILEHQKQYKDISKEG-----FTARLIALYGKAAMFE  109 (377)
Q Consensus        38 ~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~  109 (377)
                      ..|+..++.+.+...++|.  +.++-.+...+. ...+++.|+..+++.......++-.     ....++..+.+.+...
T Consensus        38 ~~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~  117 (608)
T PF10345_consen   38 ATAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA  117 (608)
T ss_pred             HHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH
Confidence            3456666666644435553  445666777766 5788999999999775543221111     1124667777776666


Q ss_pred             HHHHHHHhcCCC----CCCccHHHHHHH-HHHHHhCCChhHHHHHHHhchhhcC--CCcCHHHHHHHHHHHH--HcCCHH
Q 042154          110 NARKVFDEMPGR----NCEQTVLSFNAL-LGACVNSKKFDEVDGLFKDLPHKLG--IEPDLVSYNTIIKAFV--DKGSLD  180 (377)
Q Consensus       110 ~A~~~~~~~~~~----~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~--~~p~~~~~~~l~~~~~--~~~~~~  180 (377)
                       |....++.++.    +..+-...|..+ +..+...+++..|.+.++.+.....  ..|-..++-.++.+..  +.+..+
T Consensus       118 -a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~  196 (608)
T PF10345_consen  118 -ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPD  196 (608)
T ss_pred             -HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCch
Confidence             88877775432    222223334433 3333344799999999988865533  2333344444554443  455567


Q ss_pred             HHHHHHHHHHHCC---------CCCCHHhHHHHHHHHH--cCCCHHHHHHHHHHH
Q 042154          181 SANTLLYEMEKKG---------IRLDLITFNTLLLGFY--SNGRFADAEKIWETM  224 (377)
Q Consensus       181 ~a~~~~~~~~~~~---------~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~  224 (377)
                      ++.+.++.+....         ..|...+|..+++.++  ..|+++.+...++++
T Consensus       197 d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  197 DVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             hHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            7777777664321         1345667777777554  567766666655544

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 [].

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.56  E-value=0.17  Score=26.47  Aligned_cols=24  Identities=13%  Similarity=0.101  Sum_probs=13.0

Q ss_pred             ccchhhHHHHHHHHHhcCChHHHH
Q 042154           54 RTNTGIYTGTVQRLANAKRFRWIE   77 (377)
Q Consensus        54 ~~~~~~~~~l~~~~~~~~~~~~a~   77 (377)
                      |-+...|..+...+...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            444555555555555555555553

>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=91.51  E-value=4.6  Score=30.16  Aligned_cols=17  Identities=18%  Similarity=0.395  Sum_probs=7.5

Q ss_pred             cCCCHHHHHHHHHHHHh
Q 042154          210 SNGRFADAEKIWETMVN  226 (377)
Q Consensus       210 ~~~~~~~a~~~~~~~~~  226 (377)
                      ..|++.+|.++|+++.+
T Consensus        56 ~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   56 VRGDWDDALRLLRELEE   72 (160)
T ss_pred             HhCCHHHHHHHHHHHhc
Confidence            34444444444444433

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.40  E-value=3.2  Score=28.13  Aligned_cols=41  Identities=10%  Similarity=0.075  Sum_probs=21.5

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          252 ALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       252 a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ..+-++.+....+.|++.+..+.+.+|.+.+++..|.++++
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE   69 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILE   69 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            44444555555555666666666666666666666666666

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 ....

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.99  E-value=0.54  Score=39.36  Aligned_cols=86  Identities=7%  Similarity=0.041  Sum_probs=55.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHHHHhcCChH
Q 042154          241 DGLAIEKQTKKALELVGEMRSKEINP-DVFTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLD  317 (377)
Q Consensus       241 ~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~  317 (377)
                      .-|.+.|.+++|++.|......  .| +.+++..-..+|.+...+..|..-.. ...+ ......|.--+.+-...|...
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHH
Confidence            4588899999999999887764  44 77888777888888888777665544 2211 112233444444444556666


Q ss_pred             HHHHHHHHHHh
Q 042154          318 FAFNLCKRTFS  328 (377)
Q Consensus       318 ~a~~~~~~~~~  328 (377)
                      +|.+-++..++
T Consensus       183 EAKkD~E~vL~  193 (536)
T KOG4648|consen  183 EAKKDCETVLA  193 (536)
T ss_pred             HHHHhHHHHHh
Confidence            66666666665

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.84  E-value=5.5  Score=36.46  Aligned_cols=158  Identities=15%  Similarity=0.084  Sum_probs=95.5

Q ss_pred             HHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHH
Q 042154          102 YGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDS  181 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  181 (377)
                      ..-.|+++.|..++..+.       ....+.++..+.++|..++|+++-..        ||. -|    ....+.|+++.
T Consensus       596 ~vmrrd~~~a~~vLp~I~-------k~~rt~va~Fle~~g~~e~AL~~s~D--------~d~-rF----elal~lgrl~i  655 (794)
T KOG0276|consen  596 LVLRRDLEVADGVLPTIP-------KEIRTKVAHFLESQGMKEQALELSTD--------PDQ-RF----ELALKLGRLDI  655 (794)
T ss_pred             HhhhccccccccccccCc-------hhhhhhHHhHhhhccchHhhhhcCCC--------hhh-hh----hhhhhcCcHHH
Confidence            344567777766554443       22344456666677777766654221        111 12    23346688888


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          182 ANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       182 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                      |.++..+..      +..-|..|.++..+.+++..|.+.|.....         |..|+-.+...|+.+....+-....+
T Consensus       656 A~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~  720 (794)
T KOG0276|consen  656 AFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKK  720 (794)
T ss_pred             HHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHh
Confidence            877765543      556688888888888888888887766544         33466666677777766666666666


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCH
Q 042154          262 KEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNK  300 (377)
Q Consensus       262 ~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  300 (377)
                      .|.. |.     ...+|...|+++++.+++...+--|..
T Consensus       721 ~g~~-N~-----AF~~~~l~g~~~~C~~lLi~t~r~peA  753 (794)
T KOG0276|consen  721 QGKN-NL-----AFLAYFLSGDYEECLELLISTQRLPEA  753 (794)
T ss_pred             hccc-ch-----HHHHHHHcCCHHHHHHHHHhcCcCcHH
Confidence            6532 22     233555678888888888744434443

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=90.83  E-value=3.1  Score=32.32  Aligned_cols=78  Identities=15%  Similarity=0.103  Sum_probs=49.6

Q ss_pred             HHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc---CCCCChhhHHHHHHHHHhcCCH
Q 042154          277 GFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE---RCLVDQAPLQLVVDRLAKELRV  351 (377)
Q Consensus       277 ~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~  351 (377)
                      -+.+.|+-+.-.+++.  ..+.--++.....|...|. ..+.+++++++.+.++.   +-.+|+..+.+|+..+.+.|++
T Consensus       116 ~Wsr~~d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  116 HWSRFGDQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             HhhccCcHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            3455666554445555  3333334555555554444 66788888888777765   2366788888888888888888


Q ss_pred             HHHH
Q 042154          352 EEAK  355 (377)
Q Consensus       352 ~~A~  355 (377)
                      +.|-
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8774

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.49  E-value=0.81  Score=24.85  Aligned_cols=33  Identities=24%  Similarity=0.127  Sum_probs=23.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhhccCCcee
Q 042154          336 APLQLVVDRLAKELRVEEAKELVELGKTNSYCR  368 (377)
Q Consensus       336 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  368 (377)
                      .+++.|...|...|++++|..+++++.+..-..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~   35 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEIRERL   35 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHHHHHH
Confidence            367788888999999999999888876544333

>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=90.26  E-value=0.66  Score=22.40  Aligned_cols=21  Identities=19%  Similarity=0.197  Sum_probs=12.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHH
Q 042154          339 QLVVDRLAKELRVEEAKELVE  359 (377)
Q Consensus       339 ~~l~~~~~~~g~~~~A~~~~~  359 (377)
                      ..+..++...|+.++|..+++
T Consensus         5 ~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    5 LALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHcCCHHHHHHHHh
Confidence            345566666666666666654

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.24  E-value=1.9  Score=33.39  Aligned_cols=89  Identities=8%  Similarity=-0.047  Sum_probs=62.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCH-HHHHHHHHHHHhc
Q 042154          241 DGLAIEKQTKKALELVGEMRSKEINPDV-----FTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNK-AIFKLLVPFVCEK  313 (377)
Q Consensus       241 ~~~~~~~~~~~a~~~~~~~~~~g~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~-~~~~~l~~~~~~~  313 (377)
                      .-+...|++++|..-|.+.+.. +++..     ..|..-..++.+.+.++.|+.-.. ...+.|.. ....--..+|.+.
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKM  181 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhh
Confidence            4477899999999999999886 23322     234444556778888888887766 44444432 2333334578888


Q ss_pred             CChHHHHHHHHHHHhcC
Q 042154          314 GDLDFAFNLCKRTFSER  330 (377)
Q Consensus       314 g~~~~a~~~~~~~~~~~  330 (377)
                      ..+++|+.-|+.+.+..
T Consensus       182 ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESD  198 (271)
T ss_pred             hhHHHHHHHHHHHHHhC
Confidence            99999999999998853

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=90.21  E-value=22  Score=35.69  Aligned_cols=104  Identities=13%  Similarity=0.138  Sum_probs=50.7

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHhc
Q 042154          204 LLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVF--TFYALIKGFVNE  281 (377)
Q Consensus       204 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~--~~~~l~~~~~~~  281 (377)
                      ..+.+.....+++|--.|+..-+.         .-.+.+|...|+|.+|+.+..++...   -+..  +-..|+.-+...
T Consensus       945 ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~ 1012 (1265)
T KOG1920|consen  945 YADHLREELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQ 1012 (1265)
T ss_pred             HHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHc
Confidence            333444455555555555433221         12345566666666666666655421   1211  124455566666


Q ss_pred             CCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 042154          282 GNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCK  324 (377)
Q Consensus       282 ~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  324 (377)
                      +++-+|-++.....-.|..     .+..|++...+++|+.+..
T Consensus      1013 ~kh~eAa~il~e~~sd~~~-----av~ll~ka~~~~eAlrva~ 1050 (1265)
T KOG1920|consen 1013 RKHYEAAKILLEYLSDPEE-----AVALLCKAKEWEEALRVAS 1050 (1265)
T ss_pred             ccchhHHHHHHHHhcCHHH-----HHHHHhhHhHHHHHHHHHH
Confidence            6666666666633222221     2333455555565555543

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=90.17  E-value=15  Score=33.72  Aligned_cols=88  Identities=14%  Similarity=0.262  Sum_probs=65.3

Q ss_pred             hhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHh-cCChHHHHHHHHHhhhh-c-CCCccchhHHHHHHHHccCCH
Q 042154           32 YKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLAN-AKRFRWIEEILEHQKQY-K-DISKEGFTARLIALYGKAAMF  108 (377)
Q Consensus        32 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~  108 (377)
                      .+.|..+.+..+|++....  ++-+...|......+.. .|+.+.....|+.+... | ...+..++...+..-..++++
T Consensus        90 ~klg~~~~s~~Vfergv~a--ip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~  167 (577)
T KOG1258|consen   90 YKLGNAENSVKVFERGVQA--IPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSW  167 (577)
T ss_pred             HHhhhHHHHHHHHHHHHHh--hhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccH
Confidence            4678888999999988763  56777777766665554 57778888888887765 2 224556777778777888889


Q ss_pred             HHHHHHHHhcCCC
Q 042154          109 ENARKVFDEMPGR  121 (377)
Q Consensus       109 ~~A~~~~~~~~~~  121 (377)
                      .....+|+++++.
T Consensus       168 k~v~~iyeRilei  180 (577)
T KOG1258|consen  168 KRVANIYERILEI  180 (577)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999888763

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.06  E-value=11  Score=34.75  Aligned_cols=148  Identities=17%  Similarity=0.090  Sum_probs=97.0

Q ss_pred             HHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHH
Q 042154          137 CVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFAD  216 (377)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  216 (377)
                      ..-.++++.|..++..+.        ....+.+...+.++|-.++|+++-         +|...   -.....+.|+++.
T Consensus       596 ~vmrrd~~~a~~vLp~I~--------k~~rt~va~Fle~~g~~e~AL~~s---------~D~d~---rFelal~lgrl~i  655 (794)
T KOG0276|consen  596 LVLRRDLEVADGVLPTIP--------KEIRTKVAHFLESQGMKEQALELS---------TDPDQ---RFELALKLGRLDI  655 (794)
T ss_pred             HhhhccccccccccccCc--------hhhhhhHHhHhhhccchHhhhhcC---------CChhh---hhhhhhhcCcHHH
Confidence            445678888877655543        223455666677778777776543         22221   2234456788998


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---h
Q 042154          217 AEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---K  293 (377)
Q Consensus       217 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~  293 (377)
                      |.++..+..      +..-|..|.++..+.+++..|.+.|.....         |..|+-.+...|+.+.-..+-.   +
T Consensus       656 A~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~  720 (794)
T KOG0276|consen  656 AFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKK  720 (794)
T ss_pred             HHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHh
Confidence            887765543      567899999999999999999999987654         4456666777777664444444   3


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 042154          294 SGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKR  325 (377)
Q Consensus       294 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  325 (377)
                      .| +.|.     ..-+|...|+++++.+++..
T Consensus       721 ~g-~~N~-----AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  721 QG-KNNL-----AFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             hc-ccch-----HHHHHHHcCCHHHHHHHHHh
Confidence            33 3332     22356778999998888754

>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.64  E-value=12  Score=31.99  Aligned_cols=128  Identities=13%  Similarity=0.119  Sum_probs=60.2

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCc---cch
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISK---EGF   94 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~   94 (377)
                      .|++.+.-.+++-+..+.+-+.-...-...         ..+.+.+...+.+.+.....+++..++...-.+.+   ...
T Consensus        72 ~~~~~~li~~~~~FV~~~n~eqlr~as~~f---------~~lc~~l~~~~~~~~~p~~gi~ii~~av~k~~~~~~qlT~~  142 (422)
T KOG2582|consen   72 NPDPETLIELLNDFVDENNGEQLRLASEIF---------FPLCHDLTEAVVKKNKPLRGIRIIMQAVDKMQPSNGQLTSI  142 (422)
T ss_pred             CCCHHHHHHHHHHHHHhcChHHHhhHHHHH---------HHHHHHHHHHHHhcCCccccchHHHHHHHHhccCccchhhh
Confidence            466666666666666655533221111111         11344555555555555444444433332211111   122


Q ss_pred             hHHHHHHHHccCCHHHHHHHHHhcC----C-C-CCCccHHHHHHHHH--HHHhCCChhHHHHHHHhch
Q 042154           95 TARLIALYGKAAMFENARKVFDEMP----G-R-NCEQTVLSFNALLG--ACVNSKKFDEVDGLFKDLP  154 (377)
Q Consensus        95 ~~~l~~~~~~~~~~~~A~~~~~~~~----~-~-~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~  154 (377)
                      ...++..+.+.+++..+...++.-.    . . ..+|.......+-.  .|...++++.|+.+|....
T Consensus       143 H~~l~~~~L~ak~y~~~~p~ld~divei~~~n~h~~~k~fL~Y~yYgg~iciglk~fe~Al~~~e~~v  210 (422)
T KOG2582|consen  143 HADLLQLCLEAKDYASVLPYLDDDIVEICKANPHLDPKYFLLYLYYGGMICIGLKRFERALYLLEICV  210 (422)
T ss_pred             HHHHHHHHHHhhcccccCCccchhHHHHhccCCCCCHHHHHHHHHhcceeeeccccHHHHHHHHHHHH
Confidence            3346667777777666554443211    1 1 12222221111111  1556789999999998876

>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=89.46  E-value=0.76  Score=23.67  Aligned_cols=27  Identities=19%  Similarity=-0.045  Sum_probs=17.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          337 PLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       337 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      +|..+...|...|++++|.+.|+++.+
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            455566666666777777666666554

...

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.31  E-value=0.38  Score=24.57  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=11.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh
Q 042154          306 LVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       306 l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      +..++.+.|++++|.+.|+++++
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHH
Confidence            33444455555555555555544

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=89.25  E-value=12  Score=31.15  Aligned_cols=114  Identities=15%  Similarity=0.137  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHHHH-CCCCCCHHhHHHHHHHHHcC-C-CHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 042154          179 LDSANTLLYEMEK-KGIRLDLITFNTLLLGFYSN-G-RFADAEKIWETMVN-MNVRPNVRSYNARLDGLAIEKQTKKALE  254 (377)
Q Consensus       179 ~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~-~-~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~  254 (377)
                      +.+|+++|+...- ..+-.|..+...+++..... + ....-.++.+-+.. .+..++..+...++..++..+++.+-.+
T Consensus       144 Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~  223 (292)
T PF13929_consen  144 VVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQ  223 (292)
T ss_pred             HHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHH
Confidence            4455555552221 12333555555565555541 1 22222223333321 2234555555666666666666666666


Q ss_pred             HHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          255 LVGEMRSK-EINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       255 ~~~~~~~~-g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      +++..... +..-|...|..++......|+..-..++..
T Consensus       224 fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  224 FWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             HHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            66665544 334455566666666666666666666665

>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=89.07  E-value=0.15  Score=37.58  Aligned_cols=84  Identities=15%  Similarity=0.222  Sum_probs=53.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCC
Q 042154           63 TVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKK  142 (377)
Q Consensus        63 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  142 (377)
                      ++..+.+.+....+..+++.+...+...+..+.+.++..|++.++.++..++++....       .-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~-------yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN-------YDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS-------S-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc-------cCHHHHHHHHHhcch
Confidence            4556666777777777777777665556677777788888888777777766663222       222345566666677


Q ss_pred             hhHHHHHHHhc
Q 042154          143 FDEVDGLFKDL  153 (377)
Q Consensus       143 ~~~a~~~~~~~  153 (377)
                      ++++.-+|.++
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            77777666665

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.

>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=88.71  E-value=1.5  Score=22.52  Aligned_cols=29  Identities=14%  Similarity=0.166  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          301 AIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       301 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      .+|..+...|...|++++|.+.|++.++.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            35777888999999999999999988774

...

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=88.69  E-value=1.9  Score=27.61  Aligned_cols=46  Identities=7%  Similarity=0.065  Sum_probs=30.9

Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCh--hhHHHHHHHHHhcCCHHHHHHH
Q 042154          312 EKGDLDFAFNLCKRTFSERCLVDQ--APLQLVVDRLAKELRVEEAKEL  357 (377)
Q Consensus       312 ~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~  357 (377)
                      ...+.++|+..|+..++.-..+..  .++..|+.+|+..|++++++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666777888888887776443322  1556677788888888776654

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.67  E-value=2.7  Score=33.03  Aligned_cols=52  Identities=17%  Similarity=0.123  Sum_probs=22.8

Q ss_pred             HHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHH
Q 042154           28 IRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILE   81 (377)
Q Consensus        28 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   81 (377)
                      ++.+.+.+...+|+...+.-.+..  |.+...-..+++.++-.|+|++|..-++
T Consensus         8 ~seLL~~~sL~dai~~a~~qVkak--Ptda~~RhflfqLlcvaGdw~kAl~Ql~   59 (273)
T COG4455           8 ISELLDDNSLQDAIGLARDQVKAK--PTDAGGRHFLFQLLCVAGDWEKALAQLN   59 (273)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcC--CccccchhHHHHHHhhcchHHHHHHHHH
Confidence            344444444444444444333332  3334444444444444444444444433

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.39  E-value=5.1  Score=31.57  Aligned_cols=51  Identities=20%  Similarity=0.107  Sum_probs=21.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHH
Q 042154          171 KAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWE  222 (377)
Q Consensus       171 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  222 (377)
                      +.+.+.+.+++++...+.-.+.+. .|...-..+++.+|-.|++++|..-++
T Consensus         9 seLL~~~sL~dai~~a~~qVkakP-tda~~RhflfqLlcvaGdw~kAl~Ql~   59 (273)
T COG4455           9 SELLDDNSLQDAIGLARDQVKAKP-TDAGGRHFLFQLLCVAGDWEKALAQLN   59 (273)
T ss_pred             HHHHHhccHHHHHHHHHHHHhcCC-ccccchhHHHHHHhhcchHHHHHHHHH
Confidence            333444444444444444333321 133333444444444444444444333

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=88.19  E-value=16  Score=31.38  Aligned_cols=80  Identities=15%  Similarity=0.061  Sum_probs=48.1

Q ss_pred             hHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh---CCChhHHHHH
Q 042154           73 FRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN---SKKFDEVDGL  149 (377)
Q Consensus        73 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~  149 (377)
                      .+.-+.+++++.+..+ .+..+.-.++..+.+..+.+...+-++++.... +-+...|...+.....   .-.++....+
T Consensus        47 ~E~klsilerAL~~np-~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~-~~~~~LW~~yL~~~q~~~~~f~v~~~~~~  124 (321)
T PF08424_consen   47 AERKLSILERALKHNP-DSERLLLGYLEEGEKVWDSEKLAKKWEELLFKN-PGSPELWREYLDFRQSNFASFTVSDVRDV  124 (321)
T ss_pred             HHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHhccCcHHHHHHH
Confidence            3455667777666633 445555567777777777777777777777654 2356666666665443   2235555555


Q ss_pred             HHhch
Q 042154          150 FKDLP  154 (377)
Q Consensus       150 ~~~~~  154 (377)
                      |.+..
T Consensus       125 y~~~l  129 (321)
T PF08424_consen  125 YEKCL  129 (321)
T ss_pred             HHHHH
Confidence            55544

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.02  E-value=0.81  Score=25.60  Aligned_cols=25  Identities=20%  Similarity=0.141  Sum_probs=15.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          341 VVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       341 l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      |..+|...|+.+.|.+++++....|
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC
Confidence            4556666666666666666665443

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=87.93  E-value=8.9  Score=28.24  Aligned_cols=18  Identities=17%  Similarity=0.530  Sum_probs=8.3

Q ss_pred             cCCCHHHHHHHHHHHHhC
Q 042154          210 SNGRFADAEKIWETMVNM  227 (377)
Q Consensus       210 ~~~~~~~a~~~~~~~~~~  227 (377)
                      ..|++++|.++|+++.+.
T Consensus        56 ~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        56 ARGNYDEAARILRELLSS   73 (153)
T ss_pred             HcCCHHHHHHHHHhhhcc
Confidence            444444444444444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=87.77  E-value=17  Score=32.50  Aligned_cols=88  Identities=15%  Similarity=0.091  Sum_probs=57.6

Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 042154          173 FVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKA  252 (377)
Q Consensus       173 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  252 (377)
                      ....|+++.+...+....+. +.....+...++....+.|+++.|..+-+.|....+. +..........--..|-++++
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            45678888887777766544 3335566777777778888888888887777765543 333333333333455677888


Q ss_pred             HHHHHHHHhC
Q 042154          253 LELVGEMRSK  262 (377)
Q Consensus       253 ~~~~~~~~~~  262 (377)
                      .-.|+++...
T Consensus       411 ~~~wk~~~~~  420 (831)
T PRK15180        411 YHYWKRVLLL  420 (831)
T ss_pred             HHHHHHHhcc
Confidence            8888877654

>PRK09687 putative lyase; Provisional

Probab=87.26  E-value=16  Score=30.54  Aligned_cols=233  Identities=11%  Similarity=-0.014  Sum_probs=115.1

Q ss_pred             cchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCH----HHHHHHHHhcCCCCCCccHHHH
Q 042154           55 TNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMF----ENARKVFDEMPGRNCEQTVLSF  130 (377)
Q Consensus        55 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~A~~~~~~~~~~~~~~~~~~~  130 (377)
                      ++.......+..+...|..+ +...+..+...   .+...-...+.++...|+.    .++...+..+....  ++..+-
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~-~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D--~d~~VR  108 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQD-VFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALED--KSACVR  108 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcch-HHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcC--CCHHHH
Confidence            34445555555555555432 22223333222   1222222355555556542    45666666553222  455555


Q ss_pred             HHHHHHHHhCCC-----hhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHH
Q 042154          131 NALLGACVNSKK-----FDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLL  205 (377)
Q Consensus       131 ~~l~~~~~~~~~-----~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  205 (377)
                      ...+.++...+.     ...+...+.....    .++..+-...+.++.+.++ +.+...+-.+.+.   ++..+-...+
T Consensus       109 ~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~----D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~  180 (280)
T PRK09687        109 ASAINATGHRCKKNPLYSPKIVEQSQITAF----DKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAA  180 (280)
T ss_pred             HHHHHHHhcccccccccchHHHHHHHHHhh----CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHH
Confidence            555555554432     1223333333322    2355555566666666665 3455555555543   3445555555


Q ss_pred             HHHHcCC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 042154          206 LGFYSNG-RFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNL  284 (377)
Q Consensus       206 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~  284 (377)
                      .++.+.+ +...+...+..+...   ++...-...+.++.+.|+. .++..+-...+.+   +  .....+.++...|+.
T Consensus       181 ~aLg~~~~~~~~~~~~L~~~L~D---~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~  251 (280)
T PRK09687        181 FALNSNKYDNPDIREAFVAMLQD---KNEEIRIEAIIGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK  251 (280)
T ss_pred             HHHhcCCCCCHHHHHHHHHHhcC---CChHHHHHHHHHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH
Confidence            5665543 234555555555542   4556666666777777763 4555554444432   2  233566667777774


Q ss_pred             HHHHHHHH-hcCCCCCHHHHHHHHHHHH
Q 042154          285 EEAKRWYN-KSGCGMNKAIFKLLVPFVC  311 (377)
Q Consensus       285 ~~a~~~~~-~~~~~~~~~~~~~l~~~~~  311 (377)
                       +|...+. ...-.||..+-...+.++.
T Consensus       252 -~a~p~L~~l~~~~~d~~v~~~a~~a~~  278 (280)
T PRK09687        252 -TLLPVLDTLLYKFDDNEIITKAIDKLK  278 (280)
T ss_pred             -hHHHHHHHHHhhCCChhHHHHHHHHHh
Confidence             4666555 2322446655555555443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.69  E-value=7.6  Score=26.11  Aligned_cols=41  Identities=10%  Similarity=0.080  Sum_probs=21.5

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          252 ALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       252 a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      +.+-++.+....+.|++....+.+.+|.+.+++..|.++++
T Consensus        26 ~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE   66 (103)
T cd00923          26 LRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILE   66 (103)
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            34444444444455555555555555555555555555555

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.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=86.43  E-value=17  Score=29.84  Aligned_cols=27  Identities=15%  Similarity=0.212  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      .|..=|..|....+-.+-..++++.+.
T Consensus       193 iYAlEIQmYT~qKnNKkLK~lYeqalh  219 (440)
T KOG1464|consen  193 IYALEIQMYTEQKNNKKLKALYEQALH  219 (440)
T ss_pred             hHhhHhhhhhhhcccHHHHHHHHHHHH
Confidence            455555666666666666666655543

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=86.42  E-value=11  Score=29.94  Aligned_cols=24  Identities=13%  Similarity=-0.060  Sum_probs=11.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhccC
Q 042154          341 VVDRLAKELRVEEAKELVELGKTN  364 (377)
Q Consensus       341 l~~~~~~~g~~~~A~~~~~~~~~~  364 (377)
                      +.....+.|+.++|.+.|.++...
T Consensus       171 igeL~rrlg~~~eA~~~fs~vi~~  194 (214)
T PF09986_consen  171 IGELNRRLGNYDEAKRWFSRVIGS  194 (214)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHcC
Confidence            333444455555555555554443

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=86.39  E-value=17  Score=30.09  Aligned_cols=121  Identities=15%  Similarity=0.081  Sum_probs=0.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-------HHHHHHHHhcCCHHHHHHHHH-------hcCCCCCHHHHH
Q 042154          239 RLDGLAIEKQTKKALELVGEMRSKEINPDVFTF-------YALIKGFVNEGNLEEAKRWYN-------KSGCGMNKAIFK  304 (377)
Q Consensus       239 l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~-------~~l~~~~~~~~~~~~a~~~~~-------~~~~~~~~~~~~  304 (377)
                      +.+-..+.+++++|+..+.++...|+..|..+.       ..+...|...|+...-.+...       ...-+.......
T Consensus         9 ~a~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~~Kiir   88 (421)
T COG5159           9 LANNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTITSSREAMEDFTKPKITKIIR   88 (421)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchhHHHHHH


Q ss_pred             HHHHHHHhcCC-hHHHHHHHHHHHhcCCCCChhhHH-----HHHHHHHhcCCHHHHHHHHH
Q 042154          305 LLVPFVCEKGD-LDFAFNLCKRTFSERCLVDQAPLQ-----LVVDRLAKELRVEEAKELVE  359 (377)
Q Consensus       305 ~l~~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~g~~~~A~~~~~  359 (377)
                      .|+..+-...+ ++.-+++....++-..+-......     -++.++.+.|++.+|..+.+
T Consensus        89 tLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn  149 (421)
T COG5159          89 TLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALIN  149 (421)
T ss_pred             HHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHH

>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division

Probab=86.36  E-value=10  Score=27.24  Aligned_cols=44  Identities=18%  Similarity=0.097  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHhcCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHhh
Q 042154          318 FAFNLCKRTFSERCLVDQ-APLQLVVDRLAKELRVEEAKELVELG  361 (377)
Q Consensus       318 ~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~  361 (377)
                      .+.++|+.|...|+.-.. ..|......+...|++++|.++++..
T Consensus        81 ~~~~if~~l~~~~IG~~~A~fY~~wA~~le~~~~~~~A~~I~~~G  125 (126)
T PF08311_consen   81 DPREIFKFLYSKGIGTKLALFYEEWAEFLEKRGNFKKADEIYQLG  125 (126)
T ss_dssp             HHHHHHHHHHHHTTSTTBHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCccHHHHHHHHHHHHHHHHcCCHHHHHHHHHhh
Confidence            888888888888765443 36677778888889999999888764

This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.

>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]

Probab=86.32  E-value=19  Score=30.41  Aligned_cols=24  Identities=13%  Similarity=0.063  Sum_probs=13.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHH
Q 042154          236 YNARLDGLAIEKQTKKALELVGEM  259 (377)
Q Consensus       236 ~~~l~~~~~~~~~~~~a~~~~~~~  259 (377)
                      +-....-||+.|+.+.|++.+++-
T Consensus       107 ~~~kaeYycqigDkena~~~~~~t  130 (393)
T KOG0687|consen  107 MLRKAEYYCQIGDKENALEALRKT  130 (393)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHH
Confidence            334445566666666666555444

>KOG4279 consensus Serine/threonine protein kinase [Signal transduction mechanisms]

Probab=85.62  E-value=7.6  Score=36.60  Aligned_cols=119  Identities=14%  Similarity=0.216  Sum_probs=68.5

Q ss_pred             HHHHHHHhchhhcCCCcC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH----------HhHHHHHHHHHcC
Q 042154          145 EVDGLFKDLPHKLGIEPD---LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDL----------ITFNTLLLGFYSN  211 (377)
Q Consensus       145 ~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~l~~~~~~~  211 (377)
                      +-...+.+|..+ --.|+   ..+...++-.|....+++...++.+.+.+.   ||.          ..|...++--.+-
T Consensus       181 ~l~~~L~~mR~R-lDnp~VL~~d~V~nlmlSyRDvQdY~amirLVe~Lk~i---P~t~~vve~~nv~f~YaFALNRRNr~  256 (1226)
T KOG4279|consen  181 QLNDYLDKMRTR-LDNPDVLHPDTVSNLMLSYRDVQDYDAMIRLVEDLKRI---PDTLKVVETHNVRFHYAFALNRRNRP  256 (1226)
T ss_pred             HHHHHHHHHHhh-cCCccccCHHHHHHHHhhhccccchHHHHHHHHHHHhC---cchhhhhccCceEEEeeehhcccCCC
Confidence            344556666554 22333   335555666677788888888888888765   221          1233333333455


Q ss_pred             CCHHHHHHHHHHHHhCC--CCCCHHH-----HHHHH--HHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 042154          212 GRFADAEKIWETMVNMN--VRPNVRS-----YNARL--DGLAIEKQTKKALELVGEMRSKEINPDVF  269 (377)
Q Consensus       212 ~~~~~a~~~~~~~~~~~--~~~~~~~-----~~~l~--~~~~~~~~~~~a~~~~~~~~~~g~~p~~~  269 (377)
                      |+-++|+...-.+.+..  +.||...     |.-+.  ..|...+..+.|.+.|++.-+  +.|+..
T Consensus       257 GDRakAL~~~l~lve~eg~vapDm~Cl~GRIYKDmF~~S~ytDa~s~~~a~~WyrkaFe--veP~~~  321 (1226)
T KOG4279|consen  257 GDRAKALNTVLPLVEKEGPVAPDMYCLCGRIYKDMFIASNYTDAESLNHAIEWYRKAFE--VEPLEY  321 (1226)
T ss_pred             ccHHHHHHHHHHHHHhcCCCCCceeeeechhhhhhhhccCCcchhhHHHHHHHHHHHhc--cCchhh
Confidence            77888888777776542  4555432     22211  234455667778888888765  355543

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=85.31  E-value=2.1  Score=23.97  Aligned_cols=26  Identities=31%  Similarity=0.229  Sum_probs=21.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          305 LLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       305 ~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      .+..+|...|+.+.|.+++++....+
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            36778899999999999999888643

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=84.97  E-value=18  Score=29.00  Aligned_cols=13  Identities=15%  Similarity=0.158  Sum_probs=7.6

Q ss_pred             hcCCHHHHHHHHH
Q 042154          280 NEGNLEEAKRWYN  292 (377)
Q Consensus       280 ~~~~~~~a~~~~~  292 (377)
                      ..+++.+|+++|+
T Consensus       166 ~leqY~~Ai~iye  178 (288)
T KOG1586|consen  166 QLEQYSKAIDIYE  178 (288)
T ss_pred             HHHHHHHHHHHHH
Confidence            4455666666665

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=84.60  E-value=2.2  Score=21.57  Aligned_cols=29  Identities=17%  Similarity=-0.105  Sum_probs=22.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          338 LQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       338 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      +-.+..++.+.|++++|.+.|+++.+..+
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P   31 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKRYP   31 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCc
Confidence            34567788888999999999988876654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=83.63  E-value=26  Score=29.64  Aligned_cols=131  Identities=16%  Similarity=0.218  Sum_probs=74.1

Q ss_pred             hhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHH--cC----CHHHHHHHHHHHHHCCC---CCCHHhHHHHHHHHHcCCC
Q 042154          143 FDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVD--KG----SLDSANTLLYEMEKKGI---RLDLITFNTLLLGFYSNGR  213 (377)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~  213 (377)
                      +++.+.+++.+.+. |+.-+..+|-+.......  ..    ....+..+++.|++...   .++-.++..++..  ..++
T Consensus        78 ~~~~~~~y~~L~~~-gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~  154 (297)
T PF13170_consen   78 FKEVLDIYEKLKEA-GFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSED  154 (297)
T ss_pred             HHHHHHHHHHHHHh-ccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--cccc
Confidence            44566677777665 777777665553333222  22    24567888888887642   2333444444433  2333


Q ss_pred             ----HHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 042154          214 ----FADAEKIWETMVNMNVRPNVR--SYNARLDGLAIEKQ--TKKALELVGEMRSKEINPDVFTFYALIK  276 (377)
Q Consensus       214 ----~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~--~~~a~~~~~~~~~~g~~p~~~~~~~l~~  276 (377)
                          .+.++.+|+.+.+.|...+..  ..+.++..+.....  ..++.++++.+.+.|+++....|..+.-
T Consensus       155 ~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  155 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence                356677788888777655433  22222222221111  4467788888888888877766654443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=83.58  E-value=34  Score=31.02  Aligned_cols=195  Identities=8%  Similarity=0.075  Sum_probs=120.6

Q ss_pred             CCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHH
Q 042154           89 ISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNT  168 (377)
Q Consensus        89 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~  168 (377)
                      +.+....-+++..+.......-.+.+-.+|...|  .+-..|..++.+|..+ .-+.-..+++++.+-   .-+......
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~---dfnDvv~~R  136 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEY---DFNDVVIGR  136 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHh---cchhHHHHH
Confidence            3444455578888888888888888888888876  6788888889988888 567777788776543   233344444


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCC--CC---HHhHHHHHHHHHcCCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHH
Q 042154          169 IIKAFVDKGSLDSANTLLYEMEKKGIR--LD---LITFNTLLLGFYSNGRFADAEKIWETMVN-MNVRPNVRSYNARLDG  242 (377)
Q Consensus       169 l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~  242 (377)
                      -+-.+...++.+.+...|.++...=++  .+   ...|..+...-  ..+.+....+..++.. .|...-...+.-+-.-
T Consensus       137 eLa~~yEkik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~  214 (711)
T COG1747         137 ELADKYEKIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKK  214 (711)
T ss_pred             HHHHHHHHhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHH
Confidence            444444558888888888877654221  01   12344444322  2356666666666663 2333344556666677


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHH
Q 042154          243 LAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVN-EGNLEEAKRWYN  292 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~  292 (377)
                      |....++++|++++..+.+.. .-|...-..++.-+.. -.+...-.+++.
T Consensus       215 Ys~~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~lRd~y~~~~~~e~yl~  264 (711)
T COG1747         215 YSENENWTEAIRILKHILEHD-EKDVWARKEIIENLRDKYRGHSQLEEYLK  264 (711)
T ss_pred             hccccCHHHHHHHHHHHhhhc-chhhhHHHHHHHHHHHHhccchhHHHHHH
Confidence            888888899999888887764 2344444445544332 233334444444

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=83.44  E-value=25  Score=29.31  Aligned_cols=54  Identities=11%  Similarity=0.070  Sum_probs=30.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          237 NARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWY  291 (377)
Q Consensus       237 ~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~  291 (377)
                      +.....|..+|.+.+|..+.++.+... +.+...+-.++..+...|+--.+.+.+
T Consensus       283 gkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khy  336 (361)
T COG3947         283 GKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHY  336 (361)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHH
Confidence            334455666666666666666666542 334555556666666666644444333

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=82.98  E-value=25  Score=28.92  Aligned_cols=183  Identities=11%  Similarity=0.117  Sum_probs=96.1

Q ss_pred             cCChHHHHHHHHHhhhhcCCCccchh---HHHHHHHHccCCHHHHHHHHHhcCCC---CC--CccHHHHHHHHHHHHhCC
Q 042154           70 AKRFRWIEEILEHQKQYKDISKEGFT---ARLIALYGKAAMFENARKVFDEMPGR---NC--EQTVLSFNALLGACVNSK  141 (377)
Q Consensus        70 ~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~A~~~~~~~~~~---~~--~~~~~~~~~l~~~~~~~~  141 (377)
                      ..+.++|+.-|++..+........-+   ..++....+.+++++....|.++...   .+  .-+..+.|.+++......
T Consensus        40 e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~  119 (440)
T KOG1464|consen   40 EDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSK  119 (440)
T ss_pred             ccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhh
Confidence            34677777777777765433332222   34667777778888877777776421   00  123445566666555555


Q ss_pred             ChhHHHHHHHhchhhcCCCcCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC----CCC-------HHhHHHHHH
Q 042154          142 KFDEVDGLFKDLPHKLGIEPDL----VSYNTIIKAFVDKGSLDSANTLLYEMEKKGI----RLD-------LITFNTLLL  206 (377)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~-------~~~~~~l~~  206 (377)
                      +.+-...+|+.-.....-.-+.    .|-+.+...|...+++....+++.++.+..-    ..|       ..+|..-|+
T Consensus       120 ~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQ  199 (440)
T KOG1464|consen  120 NMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQ  199 (440)
T ss_pred             hhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhh
Confidence            5555555554432211101111    1334556666666777777777766664311    111       234555566


Q ss_pred             HHHcCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHH-----HHhcCCHHHHH
Q 042154          207 GFYSNGRFADAEKIWETMVNM-NVRPNVRSYNARLDG-----LAIEKQTKKAL  253 (377)
Q Consensus       207 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~-----~~~~~~~~~a~  253 (377)
                      .|....+-.+...+|++.... .--|.+..... |+-     ..+.|++++|.
T Consensus       200 mYT~qKnNKkLK~lYeqalhiKSAIPHPlImGv-IRECGGKMHlreg~fe~Ah  251 (440)
T KOG1464|consen  200 MYTEQKNNKKLKALYEQALHIKSAIPHPLIMGV-IRECGGKMHLREGEFEKAH  251 (440)
T ss_pred             hhhhhcccHHHHHHHHHHHHhhccCCchHHHhH-HHHcCCccccccchHHHHH
Confidence            666666666666677665531 11233333332 222     23456666665

>smart00028 TPR Tetratricopeptide repeats

Probab=82.93  E-value=2.4  Score=20.59  Aligned_cols=25  Identities=20%  Similarity=-0.028  Sum_probs=11.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          339 QLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       339 ~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      ..+...+...|++++|...+++..+
T Consensus         5 ~~~a~~~~~~~~~~~a~~~~~~~~~   29 (34)
T smart00028        5 YNLGNAYLKLGDYDEALEYYEKALE   29 (34)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            3444444445555555555444443

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=81.98  E-value=28  Score=28.83  Aligned_cols=87  Identities=11%  Similarity=0.044  Sum_probs=44.5

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-----H
Q 042154          170 IKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGL-----A  244 (377)
Q Consensus       170 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-----~  244 (377)
                      |++++..++|.+++...-+..+..-+....+...-|-.|.+.+++..+.++-..-....-.-+...|..++..|     .
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            45666666666666655444433222334445555556666666666666555554321111222344444433     3


Q ss_pred             hcCCHHHHHHHH
Q 042154          245 IEKQTKKALELV  256 (377)
Q Consensus       245 ~~~~~~~a~~~~  256 (377)
                      -.|.+++|+++.
T Consensus       170 PLG~~~eAeelv  181 (309)
T PF07163_consen  170 PLGHFSEAEELV  181 (309)
T ss_pred             ccccHHHHHHHH
Confidence            346666666655

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

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=81.61  E-value=8.3  Score=30.11  Aligned_cols=36  Identities=11%  Similarity=-0.017  Sum_probs=22.4

Q ss_pred             hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          293 KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       293 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      .....|++.+|..++..+...|+.++|.+..+++..
T Consensus       137 ~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  137 LLRRRPDPNVYQRYALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334456666666666666666666666666666655

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=81.43  E-value=24  Score=27.66  Aligned_cols=88  Identities=7%  Similarity=0.090  Sum_probs=36.4

Q ss_pred             HHhCCChhHHHHHHHhchhhcCCCcCH-----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC
Q 042154          137 CVNSKKFDEVDGLFKDLPHKLGIEPDL-----VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN  211 (377)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  211 (377)
                      +.++|++++|..-|...+..  +++..     ..|..-..++.+.+.++.|++--.+.++.+.. .......-..+|.+.
T Consensus       105 ~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~  181 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKM  181 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhh
Confidence            45555555555555554432  12111     12222233444445555554444444443221 122222223344444


Q ss_pred             CCHHHHHHHHHHHHhC
Q 042154          212 GRFADAEKIWETMVNM  227 (377)
Q Consensus       212 ~~~~~a~~~~~~~~~~  227 (377)
                      ..++.|+.-|.++.+.
T Consensus       182 ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  182 EKYEEALEDYKKILES  197 (271)
T ss_pred             hhHHHHHHHHHHHHHh
Confidence            4455555555544443

>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=81.37  E-value=5.3  Score=27.71  Aligned_cols=40  Identities=28%  Similarity=0.317  Sum_probs=30.0

Q ss_pred             CHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          283 NLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       283 ~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      +++++.+.+.+.+      -|..|+..|...|..++|++++.+..+
T Consensus        28 ~~~~~e~~L~~~~------~~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen   28 DLEEVEEVLKEHG------KYQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             CHHHHHHHHHHcC------CHHHHHHHHHccCccHHHHHHHHHHhc
Confidence            4555555554333      477888899999999999999988877

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=81.23  E-value=5.9  Score=30.23  Aligned_cols=66  Identities=14%  Similarity=0.074  Sum_probs=27.3

Q ss_pred             HHHHHHHHHhcccCCCCccchhhHH---HHHHHHHhcCC-------hHHHHHHHHHhhhhcCCCccchhHHHHHHHHcc
Q 042154           37 LKRLVDKFKKSSDLGRFRTNTGIYT---GTVQRLANAKR-------FRWIEEILEHQKQYKDISKEGFTARLIALYGKA  105 (377)
Q Consensus        37 ~~~A~~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  105 (377)
                      ++.|.+.++.....+  |.|...++   ..+.-++...+       +++|+.-|++.....+.....+| .+..+|...
T Consensus         7 FE~ark~aea~y~~n--P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw-~lGnA~ts~   82 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN--PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALW-CLGNAYTSL   82 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHH-HHHHHHHHH
Confidence            455555555544443  44544433   23333333333       33444444444454444444455 355554433

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=81.02  E-value=4.9  Score=25.79  Aligned_cols=46  Identities=11%  Similarity=0.107  Sum_probs=20.1

Q ss_pred             hCCChhHHHHHHHhchhhcCCCcCH-HHHHHHHHHHHHcCCHHHHHH
Q 042154          139 NSKKFDEVDGLFKDLPHKLGIEPDL-VSYNTIIKAFVDKGSLDSANT  184 (377)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~  184 (377)
                      ..++.++|+..+....++..-.|+. .++..++.+++..|+++++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~   64 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLA   64 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555544432222221 134444455555555554443

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PRK11619 lytic murein transglycosylase; Provisional

Probab=80.93  E-value=53  Score=31.40  Aligned_cols=312  Identities=11%  Similarity=0.031  Sum_probs=161.6

Q ss_pred             hhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHH
Q 042154           31 IYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFEN  110 (377)
Q Consensus        31 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  110 (377)
                      ..+.|++..+.++...+.... +. .-..|..+...+ ....+++....+++-..  .+....+-...+..+.+.+++..
T Consensus        43 a~~~g~~~~~~~~~~~l~d~p-L~-~yl~y~~L~~~l-~~~~~~ev~~Fl~~~~~--~P~~~~Lr~~~l~~La~~~~w~~  117 (644)
T PRK11619         43 AWDNRQMDVVEQLMPTLKDYP-LY-PYLEYRQLTQDL-MNQPAVQVTNFIRANPT--LPPARSLQSRFVNELARREDWRG  117 (644)
T ss_pred             HHHCCCHHHHHHHHHhccCCC-cH-hHHHHHHHHhcc-ccCCHHHHHHHHHHCCC--CchHHHHHHHHHHHHHHccCHHH
Confidence            345788888888777664322 11 111222222211 12245555555544222  12223333445556667788887


Q ss_pred             HHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHH--HHHHHHH
Q 042154          111 ARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDS--ANTLLYE  188 (377)
Q Consensus       111 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~--a~~~~~~  188 (377)
                      ..+.+..-     +.+...-.....+....|+.++|......+-.. | ...+..++.++..+.+.|.+..  ..+-+..
T Consensus       118 ~~~~~~~~-----p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~-g-~~~p~~cd~l~~~~~~~g~lt~~d~w~R~~~  190 (644)
T PRK11619        118 LLAFSPEK-----PKPVEARCNYYYAKWATGQQQEAWQGAKELWLT-G-KSLPNACDKLFSVWQQSGKQDPLAYLERIRL  190 (644)
T ss_pred             HHHhcCCC-----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc-C-CCCChHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            77633221     345555566778888889887777777666543 2 2234456777777776664432  2222222


Q ss_pred             HHHCCCCCCHHhHHHHHHHHHc------------CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH--HhcCCHHHHHH
Q 042154          189 MEKKGIRLDLITFNTLLLGFYS------------NGRFADAEKIWETMVNMNVRPNVRSYNARLDGL--AIEKQTKKALE  254 (377)
Q Consensus       189 ~~~~~~~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~  254 (377)
                      +...|   +...-..+...+..            ..+...+...+.     .++|+...-..++.++  ....+.+.|..
T Consensus       191 al~~~---~~~lA~~l~~~l~~~~~~~a~a~~al~~~p~~~~~~~~-----~~~~~~~~~~~~~~~l~Rlar~d~~~A~~  262 (644)
T PRK11619        191 AMKAG---NTGLVTYLAKQLPADYQTIASALIKLQNDPNTVETFAR-----TTGPTDFTRQMAAVAFASVARQDAENARL  262 (644)
T ss_pred             HHHCC---CHHHHHHHHHhcChhHHHHHHHHHHHHHCHHHHHHHhh-----ccCCChhhHHHHHHHHHHHHHhCHHHHHH
Confidence            22222   22222222221100            001111111111     1122322222222222  23456788999


Q ss_pred             HHHHHHhC-CCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHh-cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          255 LVGEMRSK-EINPDV--FTFYALIKGFVNEGNLEEAKRWYNK-SGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       255 ~~~~~~~~-g~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      ++...... +..+..  .....+.......+...+|...+.. .....+......-+......++++.+...+..|....
T Consensus       263 ~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~~~~~~~e~r~r~Al~~~dw~~~~~~i~~L~~~~  342 (644)
T PRK11619        263 MIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRSQSTSLLERRVRMALGTGDRRGLNTWLARLPMEA  342 (644)
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccccCCcHHHHHHHHHHHHccCHHHHHHHHHhcCHhh
Confidence            99887544 232222  2334444334444335677777762 2222355555555666668999999988888875532


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          331 CLVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       331 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      -. ...-..-+..++...|+.++|..+|+++..
T Consensus       343 ~~-~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~  374 (644)
T PRK11619        343 KE-KDEWRYWQADLLLEQGRKAEAEEILRQLMQ  374 (644)
T ss_pred             cc-CHhhHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            22 333344577787889999999999998754

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=80.73  E-value=10  Score=34.80  Aligned_cols=150  Identities=9%  Similarity=-0.050  Sum_probs=84.1

Q ss_pred             cchhhHHHHHHHHHhc--CChHHHHHHHHHhhhhcCCCccchhHHHHHHH-HccCCHHHHHHHHHhcCCCCCCccHHHHH
Q 042154           55 TNTGIYTGTVQRLANA--KRFRWIEEILEHQKQYKDISKEGFTARLIALY-GKAAMFENARKVFDEMPGRNCEQTVLSFN  131 (377)
Q Consensus        55 ~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  131 (377)
                      |+..+...++.-....  ..-+-+-.++..|. +...|.-...| +...| .-.|+...|...+............+...
T Consensus       569 ~~~~~~k~~~~r~~~~~i~e~e~~~~~~~~~~-~~~~p~w~~ln-~aglywr~~gn~~~a~~cl~~a~~~~p~~~~v~~v  646 (886)
T KOG4507|consen  569 PDDHARKILLSRINNYTIPEEEIGSFLFHAIN-KPNAPIWLILN-EAGLYWRAVGNSTFAIACLQRALNLAPLQQDVPLV  646 (886)
T ss_pred             chHHHHHHHHHHHhcccCcHHHHHHHHHHHhc-CCCCCeEEEee-cccceeeecCCcHHHHHHHHHHhccChhhhcccHH
Confidence            4554555444433332  11223333333333 32333333333 33333 44578888887777665443222333444


Q ss_pred             HHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 042154          132 ALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFY  209 (377)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  209 (377)
                      .|.+...+.|..-.|-.++.+...- . ...+-++..+.+++....+++.|++.|+++.+.... +...-+.|...-|
T Consensus       647 ~la~~~~~~~~~~da~~~l~q~l~~-~-~sepl~~~~~g~~~l~l~~i~~a~~~~~~a~~~~~~-~~~~~~~l~~i~c  721 (886)
T KOG4507|consen  647 NLANLLIHYGLHLDATKLLLQALAI-N-SSEPLTFLSLGNAYLALKNISGALEAFRQALKLTTK-CPECENSLKLIRC  721 (886)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHhh-c-ccCchHHHhcchhHHHHhhhHHHHHHHHHHHhcCCC-ChhhHHHHHHHHH
Confidence            5666667777777777777766543 1 334457777788888888888888888888776433 5555555555444

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=80.63  E-value=9.5  Score=29.78  Aligned_cols=35  Identities=20%  Similarity=0.184  Sum_probs=20.1

Q ss_pred             CCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 042154          158 GIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKK  192 (377)
Q Consensus       158 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  192 (377)
                      ...|++.+|..++.++...|+.++|.++..++...
T Consensus       139 ~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  139 RRRPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             HhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            33556666666666666666666665555555543

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=80.29  E-value=55  Score=31.15  Aligned_cols=190  Identities=14%  Similarity=0.071  Sum_probs=99.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-CCCCC--CHHhHHHHHHHHH-cCCCHHHHHHHHHHHHhCCCCCCHH---
Q 042154          162 DLVSYNTIIKAFVDKGSLDSANTLLYEMEK-KGIRL--DLITFNTLLLGFY-SNGRFADAEKIWETMVNMNVRPNVR---  234 (377)
Q Consensus       162 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~--~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~---  234 (377)
                      +...|..+|..         |++.++.+.+ ..++|  +..++-.+...+. ...+++.|+..+++.....-.++..   
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            44456666543         4555555552 22333  2345555566555 5667888888887665332222221   


Q ss_pred             --HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCCHHHHHHH-HHHHHhcCCHHHHHHHHH------hcCCCCCHH
Q 042154          235 --SYNARLDGLAIEKQTKKALELVGEMRSK----EINPDVFTFYAL-IKGFVNEGNLEEAKRWYN------KSGCGMNKA  301 (377)
Q Consensus       235 --~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g~~p~~~~~~~l-~~~~~~~~~~~~a~~~~~------~~~~~~~~~  301 (377)
                        ....++..+.+.+... |...+++..+.    +..+-...+..+ +..+...++...|.+.++      .....|...
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              1234455665655555 77777776554    111222233333 222223378888888887      112244445


Q ss_pred             HHHHHHHHH--HhcCChHHHHHHHHHHHhcCC---------CCChhhHHHHHHHH--HhcCCHHHHHHHHHhh
Q 042154          302 IFKLLVPFV--CEKGDLDFAFNLCKRTFSERC---------LVDQAPLQLVVDRL--AKELRVEEAKELVELG  361 (377)
Q Consensus       302 ~~~~l~~~~--~~~g~~~~a~~~~~~~~~~~~---------~~~~~~~~~l~~~~--~~~g~~~~A~~~~~~~  361 (377)
                      ++..++.+.  .+.+..+++.+.++++.....         .|-..+|..+++.+  ...|+++.+...++++
T Consensus       179 v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  179 VLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            555555543  345656777777776643321         22344566666644  4577766666555444

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 [].

---

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	377
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 81.0 bits (198), Expect = 1e-16
 Identities = 35/233 (15%), Positives = 74/233 (31%), Gaps = 5/233 (2%)

Query: 140 SKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLL---YEMEKKGIRL 196
            K   +V+        +  +           K  +    L  A+ LL   +   +K   L
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL 163

Query: 197 DLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALE-L 255
            L  +N ++LG+   G F +   +   + +  + P++ SY A L  +  + Q    +E  
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223

Query: 256 VGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGD 315
           + +M  + +         L+        L+   +                    + +   
Sbjct: 224 LEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA 283

Query: 316 LDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCR 368
            D   +  K     + L      QL ++ LA  + V   ++     K   + R
Sbjct: 284 KDGRVSYPKLHLPLKTLQCLFEKQLHME-LASRVCVVSVEKPTLPSKEVKHAR 335

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 62.9 bits (151), Expect = 7e-11
 Identities = 23/174 (13%), Positives = 55/174 (31%), Gaps = 5/174 (2%)

Query: 98  LIALYGKAAMFENARKVFD---EMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLP 154
                        A  +         +    T+  +NA++        F E+  +   + 
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 155 HKLGIEPDLVSYNTIIKAFVDKG-SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR 213
              G+ PDL+SY   ++    +     +    L +M ++G++L  +    LL        
Sbjct: 193 DA-GLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATV 251

Query: 214 FADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD 267
                K+  T       P   + +  L  +  +       +L   +++ +   +
Sbjct: 252 LKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFE 305

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 47.1 bits (110), Expect = 8e-06
 Identities = 17/161 (10%), Positives = 50/161 (31%), Gaps = 3/161 (1%)

Query: 97  RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK 156
            ++  + +   F+    V   +        +LS+ A L       +         +   +
Sbjct: 170 AVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQ 229

Query: 157 LGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFAD 216
            G++   +    ++        L + + +             +  + LL   Y+      
Sbjct: 230 EGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVS 289

Query: 217 AEKIWETMVNMNVRPNVRSY---NARLDGLAIEKQTKKALE 254
             K+   +  +      + +    +R+  +++EK T  + E
Sbjct: 290 YPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKE 330

>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 = 49.5 bits (117), Expect = 1e-06
 Identities = 50/295 (16%), Positives = 90/295 (30%), Gaps = 66/295 (22%)

Query: 5   SRLLSCSFST---TATATGP---KFIGSVIRGI------YKENNLKRLVDKFKKS----- 47
            + L C           T P     I   IR        +K  N  +L    + S     
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367

Query: 48  --------SDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISK--EGFTAR 97
                     L  F  +  I T  +  +        +  ++    +Y  + K  +  T  
Sbjct: 368 PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS 427

Query: 98  LIALYGKAAMFENARKVFDEMPGRNCEQTVL-SFNALLGACVNSKKFDEVDG-LFKDLPH 155
           + ++Y      E   K+ +E       ++++  +N       +      +D   +  + H
Sbjct: 428 IPSIY-----LELKVKLENE---YALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH 479

Query: 156 KL-GIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITF-------NTLL-L 206
            L  IE            F+D             +E+K IR D   +       NTL  L
Sbjct: 480 HLKNIEHPE-RMTLFRMVFLD----------FRFLEQK-IRHDSTAWNASGSILNTLQQL 527

Query: 207 GFYSNGRFADAEKIWETMVN------MNVRPN-VRSYNARLDGLAIEKQTKKALE 254
            FY      D +  +E +VN        +  N + S    L  +A+  + +   E
Sbjct: 528 KFYKP-YICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFE 581

>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 = 49.1 bits (116), Expect = 2e-06
 Identities = 51/366 (13%), Positives = 94/366 (25%), Gaps = 139/366 (37%)

Query: 6   RLLSCSFSTTATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRT-NTGIYTGTV 64
           RL      +       KF+  V+R      N K L+   K      R  +  T +Y    
Sbjct: 66  RLFWT-LLSKQEEMVQKFVEEVLR-----INYKFLMSPIKTEQ---RQPSMMTRMYIEQR 116

Query: 65  QRLAN-----AKRFRW-IEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEM 118
            RL N     AK     ++  L+ ++   ++         + + G              +
Sbjct: 117 DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN----VLIDG--------------V 158

Query: 119 PGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS 178
            G    +T ++ +             +V                 + +  +      +  
Sbjct: 159 LG--SGKTWVALDVC--------LSYKVQCKM----------DFKIFWLNLKNCNSPETV 198

Query: 179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNA 238
           L+    LLY+++         + N                          ++  + S  A
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSN--------------------------IKLRIHSIQA 232

Query: 239 RLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGM 298
            L  L   K  +  L LV  +       +V                              
Sbjct: 233 ELRRLLKSKPYENCL-LV--LL------NV---------------------Q-------- 254

Query: 299 NKAIFKLLVPFVCEKGDLDFAFNL-CKR--TFSERCLVD----QAPLQLVVDRLAKELRV 351
           N   +               AFNL CK   T   + + D         + +D  +  L  
Sbjct: 255 NAKAWN--------------AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300

Query: 352 EEAKEL 357
           +E K L
Sbjct: 301 DEVKSL 306

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	377
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.93
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.91
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.9
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.88
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.87
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.87
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.86
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.85
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.85
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.84
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.84
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.81
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.81
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.79
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.78
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.75
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.75
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.75
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.75
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.73
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.73
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.72
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.72
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.72
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.7
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.7
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.69
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.69
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.69
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.69
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.69
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.68
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.67
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.67
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.67
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.67
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.66
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.66
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.65
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.64
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.64
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.64
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.63
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.62
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.62
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.62
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.6
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.6
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.59
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.59
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.58
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.58
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.58
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.57
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.57
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.54
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.52
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.51
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.48
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.46
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.44
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.44
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.43
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.4
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.39
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.39
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.38
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.37
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.36
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.36
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.3
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.29
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.25
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.24
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.22
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.21
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.2
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.2
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.2
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.18
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.18
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.17
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.15
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.14
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.12
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.11
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.11
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.1
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.08
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.08
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.08
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.06
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.06
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.05
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.03
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.02
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.02
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.98
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.94
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.93
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.92
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.92
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.9
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.9
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.89
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.88
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.83
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.82
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.81
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.8
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.79
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.79
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.79
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.78
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.78
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.78
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.76
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.76
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.74
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.74
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.74
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.73
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.72
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.72
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.71
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.7
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.69
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.68
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.67
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.66
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.64
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.63
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.62
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.6
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.58
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.58
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.57
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.57
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.55
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.54
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.54
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.54
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.53
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.52
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.51
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.49
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.49
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.48
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.48
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.48
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.47
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.46
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.46
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.45
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.44
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.43
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.4
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.36
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.34
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.32
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.31
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.29
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.29
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.29
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.24
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.24
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.21
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.18
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.18
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.17
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.17
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.14
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.14
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.11
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.08
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.08
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.07
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.02
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.98
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.98
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.96
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.93
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.91
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.85
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.76
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.75
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.74
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.73
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.72
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.66
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.54
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.49
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.32
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.3
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.26
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.22
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.22
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.2
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.13
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.12
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.03
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.97
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.92
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.84
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.8
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.79
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.68
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.6
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.55
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.48
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.48
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.23
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.2
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.12
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.11
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.91
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.86
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.36
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.32
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.13
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.99
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.84
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.76
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.73
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	94.63
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	94.17
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.14
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.81
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	93.59
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.45
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.36
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	93.04
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	92.42
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	92.34
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.18
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.97
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.86
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.64
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.27
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	90.13
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	89.99
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	88.69
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	88.57
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	88.23
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	87.93
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	87.67
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	87.28
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	86.65
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	85.38
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	85.16
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	84.58
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	83.09
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	82.42
2p58_C	116	Putative type III secretion protein YSCG; type III	81.95
2zu6_B	307	Programmed cell death protein 4; protein-protein c	81.13

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=8.6e-33  Score=255.24  Aligned_cols=343  Identities=9%  Similarity=-0.032  Sum_probs=226.4

Q ss_pred             CCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCC--------------CCccchhhHHHHHHHHHhcCChHHHHHHHHH
Q 042154           17 TATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLG--------------RFRTNTGIYTGTVQRLANAKRFRWIEEILEH   82 (377)
Q Consensus        17 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   82 (377)
                      .++++.+++.++.+|.+.|++++|+++|+++....              +.+++..+|..++.++.+.|++++|+++|++
T Consensus       146 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  225 (597)
T 2xpi_A          146 YNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKE  225 (597)
T ss_dssp             GGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            36788899999999999999999999998543221              2345688999999999999999999999999


Q ss_pred             hhhhcCCCccch-------------------------------------hHHHHHHHHccCCHHHHHHHHHhcCCCCCCc
Q 042154           83 QKQYKDISKEGF-------------------------------------TARLIALYGKAAMFENARKVFDEMPGRNCEQ  125 (377)
Q Consensus        83 ~~~~~~~~~~~~-------------------------------------~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  125 (377)
                      +.+.++.....+                                     ++.++..|.+.|++++|.++|+++.+.  ++
T Consensus       226 ~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~  303 (597)
T 2xpi_A          226 ALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EK  303 (597)
T ss_dssp             HHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GG
T ss_pred             HHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--Cc
Confidence            987653322211                                     111244556777888888888888765  47


Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcC--------------------------------CCcCHHHHHHHHHHH
Q 042154          126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLG--------------------------------IEPDLVSYNTIIKAF  173 (377)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------------------------------~~p~~~~~~~l~~~~  173 (377)
                      +..+++.++.+|.+.|++++|+.+|+++.+...                                .+.+..+++.++..|
T Consensus       304 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  383 (597)
T 2xpi_A          304 SSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYY  383 (597)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHH
Confidence            788888888888888888888888888764310                                122344555556666


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 042154          174 VDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKAL  253 (377)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  253 (377)
                      .+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|..++.+|.+.|++++|.
T Consensus       384 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  461 (597)
T 2xpi_A          384 LCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLAN  461 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHH
Confidence            66666666666666665542 2245566666666666666666666666666543 235556666666666666666666


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---h----cCCCCC--HHHHHHHHHHHHhcCChHHHHHHHH
Q 042154          254 ELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---K----SGCGMN--KAIFKLLVPFVCEKGDLDFAFNLCK  324 (377)
Q Consensus       254 ~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~----~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~  324 (377)
                      ++|+++.+.. +.+..+|+.++..|.+.|++++|.++++   .    .+..|+  ..+|..++.+|.+.|++++|.++|+
T Consensus       462 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~  540 (597)
T 2xpi_A          462 EYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALN  540 (597)
T ss_dssp             HHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            6666665542 2345666666666666666666666666   1    144555  5566666666666666666666666


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          325 RTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       325 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      ++.+.+. .+..+|..++.+|.+.|++++|.++++++.+..
T Consensus       541 ~~~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          541 QGLLLST-NDANVHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             HHHHHSS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            6666542 255666666666666666666666666665544

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=9.1e-32  Score=248.38  Aligned_cols=340  Identities=11%  Similarity=0.022  Sum_probs=262.0

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      ++...|+.++..+.+.|++++|+.+|+++..   ..|+..++..++..|.+.|++++|.++++++...  +++...++.+
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l  156 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLD---ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLA  156 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHh---hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHH
Confidence            5677899999999999999999999999985   3567789999999999999999999999988654  4556677889


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCC---------------CCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcC-----
Q 042154           99 IALYGKAAMFENARKVFDEMPGR---------------NCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLG-----  158 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----  158 (377)
                      +.+|.+.|++++|.++|+++...               +.+++..+|+.++.+|.+.|++++|+++|+++.+...     
T Consensus       157 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  236 (597)
T 2xpi_A          157 AFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEA  236 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHH
Confidence            99999999999999999964332               3345788999999999999999999999988754310     


Q ss_pred             ----------------------------------------------------------------CCcCHHHHHHHHHHHH
Q 042154          159 ----------------------------------------------------------------IEPDLVSYNTIIKAFV  174 (377)
Q Consensus       159 ----------------------------------------------------------------~~p~~~~~~~l~~~~~  174 (377)
                                                                                      .+++..+++.++.+|.
T Consensus       237 ~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~  316 (597)
T 2xpi_A          237 FDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLF  316 (597)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHH
Confidence                                                                            1266778889999999


Q ss_pred             HcCCHHHHHHHHHHHHHCCC---------------------------------CCCHHhHHHHHHHHHcCCCHHHHHHHH
Q 042154          175 DKGSLDSANTLLYEMEKKGI---------------------------------RLDLITFNTLLLGFYSNGRFADAEKIW  221 (377)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~~~---------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~  221 (377)
                      +.|++++|.++|+++.+.+.                                 +.+..++..++..|.+.|++++|.++|
T Consensus       317 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  396 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYF  396 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHHHH
Confidence            99999999999999876432                                 124556666777777777777777777


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCC
Q 042154          222 ETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMN  299 (377)
Q Consensus       222 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~  299 (377)
                      +++.+.. +.+..+|+.++..|.+.|++++|+++|+++.+.+ +.+..++..++.+|.+.|++++|.++|+  ....+.+
T Consensus       397 ~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  474 (597)
T 2xpi_A          397 SKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQYD  474 (597)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCC
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            7776643 2356677777777777777777777777777653 3356677777777777777777777777  1112346


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          300 KAIFKLLVPFVCEKGDLDFAFNLCKRTFSE----RCLVD--QAPLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       300 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      ..+|..++.+|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.++++++.+.+
T Consensus       475 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  546 (597)
T 2xpi_A          475 PLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS  546 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            677777777888888888888888777765    44565  5677778888888888888888887776654

>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=8.6e-34  Score=252.53  Aligned_cols=205  Identities=19%  Similarity=0.233  Sum_probs=174.7

Q ss_pred             HHHHHHHhhhhcCCC-ccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCC---------hhH
Q 042154           76 IEEILEHQKQYKDIS-KEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKK---------FDE  145 (377)
Q Consensus        76 a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~  145 (377)
                      +..+.+++.+.+... +...++.+|.+|++.|++++|.++|++|.+.|++||..+|+.||.+|++.+.         ++.
T Consensus         9 ~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~   88 (501)
T 4g26_A            9 SENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSR   88 (501)
T ss_dssp             ---------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHH
T ss_pred             HHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHH
Confidence            344445555554332 3445677899999999999999999999999999999999999999987664         578


Q ss_pred             HHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 042154          146 VDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMV  225 (377)
Q Consensus       146 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  225 (377)
                      |.++|++|... |+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.
T Consensus        89 A~~lf~~M~~~-G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           89 GFDIFKQMIVD-KVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHT-TCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999999776 99999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 042154          226 NMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNE  281 (377)
Q Consensus       226 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~  281 (377)
                      +.|+.||..+|++||.+|++.|++++|.+++++|.+.|..|+..||+.++..|+..
T Consensus       168 ~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          168 ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999988753

>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=4.7e-33  Score=247.75  Aligned_cols=182  Identities=16%  Similarity=0.235  Sum_probs=110.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC---------HHHHHHHHHHHHhCCCCCCHHHH
Q 042154          166 YNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR---------FADAEKIWETMVNMNVRPNVRSY  236 (377)
Q Consensus       166 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~~~  236 (377)
                      ++.+|.+|++.|++++|+++|++|.+.|+.||..+|+.||.+|++.+.         ++.|.++|++|...|+.||..+|
T Consensus        29 l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~ty  108 (501)
T 4g26_A           29 LKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATF  108 (501)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHH
Confidence            444455555555555555555555555555555555555555544332         45566666666666666666666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---hcCCCCCHHHHHHHHHHHHhc
Q 042154          237 NARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCEK  313 (377)
Q Consensus       237 ~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~~~~~~~~l~~~~~~~  313 (377)
                      +++|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|+   ..|+.||..+|++||.+|++.
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~  188 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDT  188 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhC
Confidence            66666666666666666666666666666666666666666666666666666666   556666666666666666666


Q ss_pred             CChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 042154          314 GDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAK  347 (377)
Q Consensus       314 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  347 (377)
                      |++++|.+++++|.+.+..|+..||+.++..|..
T Consensus       189 g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          189 KNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            6666666666666666666666666666666654

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=2.9e-28  Score=212.99  Aligned_cols=339  Identities=12%  Similarity=-0.001  Sum_probs=291.8

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      |.++..+..+...+.+.|++++|...++...+..  |.+..+|..+...+.+.|++++|++.|+++....+. ....+..
T Consensus        30 p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~  106 (388)
T 1w3b_A           30 PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPD-FIDGYIN  106 (388)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCcc-hHHHHHH
Confidence            4566778888888999999999999999988765  678889999999999999999999999999887533 3344557


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      +..++.+.|++++|.+.|+++.+.. |.+...+..+...+...|++++|...|+++.+.  .+.+..+|..+...+...|
T Consensus       107 l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g  183 (388)
T 1w3b_A          107 LAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIET--QPNFAVAWSNLGCVFNAQG  183 (388)
T ss_dssp             HHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            9999999999999999999998765 335667778888899999999999999999764  2334678999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      ++++|...|+++.+.+. .+...+..+...+...|++++|...|++..... +.+..++..+...+...|++++|+..|+
T Consensus       184 ~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~  261 (388)
T 1w3b_A          184 EIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYR  261 (388)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999998753 367889999999999999999999999998764 3457889999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCh
Q 042154          258 EMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQ  335 (377)
Q Consensus       258 ~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  335 (377)
                      ++.+.+ +.+..++..+..++.+.|++++|.+.++  ....+.+..++..+...+.+.|++++|.+.++++.+.. +.+.
T Consensus       262 ~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~  339 (388)
T 1w3b_A          262 RAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFA  339 (388)
T ss_dssp             HHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCH
T ss_pred             HHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcH
Confidence            999863 3357789999999999999999999999  22235678899999999999999999999999998864 3367


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          336 APLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       336 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      .++..++.+|.+.|++++|.+.++++.+..+
T Consensus       340 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p  370 (388)
T 1w3b_A          340 AAHSNLASVLQQQGKLQEALMHYKEAIRISP  370 (388)
T ss_dssp             HHHHHHHHHHHTTTCCHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            7899999999999999999999999987654

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=1e-26  Score=203.17  Aligned_cols=324  Identities=12%  Similarity=0.038  Sum_probs=279.1

Q ss_pred             CCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhH
Q 042154           17 TATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTA   96 (377)
Q Consensus        17 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   96 (377)
                      .|.++..|..+...+.+.|++++|+..|+++.+..  |.+..+|..+...+...|++++|.+.++++.+..+. ....+.
T Consensus        63 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~  139 (388)
T 1w3b_A           63 NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK--PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRS  139 (388)
T ss_dssp             CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHH
T ss_pred             CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHH
Confidence            45678899999999999999999999999998765  556778999999999999999999999999887533 344555


Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHc
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDK  176 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  176 (377)
                      .+...+...|++++|.+.|+++.+.. +.+..+|..+...+...|++++|+..|+++.+.  .+.+...|..+...+...
T Consensus       140 ~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~  216 (388)
T 1w3b_A          140 DLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL--DPNFLDAYINLGNVLKEA  216 (388)
T ss_dssp             HHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHc
Confidence            78899999999999999999998764 446789999999999999999999999999764  133456888999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          177 GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELV  256 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  256 (377)
                      |++++|...++++.+... .+..++..+..+|.+.|++++|...|+++.+.+ +.+..+|..+...+.+.|++++|...|
T Consensus       217 ~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~  294 (388)
T 1w3b_A          217 RIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCY  294 (388)
T ss_dssp             TCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhCc-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999999987643 367889999999999999999999999999875 345788999999999999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 042154          257 GEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVD  334 (377)
Q Consensus       257 ~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  334 (377)
                      +++.+. .+.+..++..+...+...|++++|.+.++ .....| +..++..+..++.+.|++++|.+.|+++.+..+. +
T Consensus       295 ~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~-~  372 (388)
T 1w3b_A          295 NTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-F  372 (388)
T ss_dssp             HHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTT-C
T ss_pred             HHHHhh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-C
Confidence            999986 35578899999999999999999999999 444444 5778999999999999999999999999986433 5


Q ss_pred             hhhHHHHHHHHHhcCC
Q 042154          335 QAPLQLVVDRLAKELR  350 (377)
Q Consensus       335 ~~~~~~l~~~~~~~g~  350 (377)
                      ...|..+...+...|+
T Consensus       373 ~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          373 ADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHHHTCC
T ss_pred             HHHHHhHHHHHHHccC
Confidence            6677777777776653

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.96  E-value=1.2e-25  Score=200.32  Aligned_cols=338  Identities=12%  Similarity=-0.002  Sum_probs=275.0

Q ss_pred             CCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhH
Q 042154           17 TATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTA   96 (377)
Q Consensus        17 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   96 (377)
                      .|.++..+..+...+.+.|++++|+..|+.+.+..  +.+..++..+..++...|++++|++.++++.+..+. ....+.
T Consensus        22 ~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~   98 (450)
T 2y4t_A           22 SMADVEKHLELGKKLLAAGQLADALSQFHAAVDGD--PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD-FTAARL   98 (450)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHH
Confidence            34567789999999999999999999999998765  667889999999999999999999999999987543 345556


Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccH---HHHHHH------------HHHHHhCCChhHHHHHHHhchhhcCCCc
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTV---LSFNAL------------LGACVNSKKFDEVDGLFKDLPHKLGIEP  161 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~p  161 (377)
                      .++.+|.+.|++++|...|+++.+.. +.+.   ..+..+            ...+.+.|++++|+..|+++...  .+.
T Consensus        99 ~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~  175 (450)
T 2y4t_A           99 QRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEV--CVW  175 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence            79999999999999999999998875 2334   555555            44488999999999999999764  244


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHH--
Q 042154          162 DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNAR--  239 (377)
Q Consensus       162 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--  239 (377)
                      +..++..+..++.+.|++++|.+.|+++.+.. +.+..++..+..+|...|++++|...|+++.... +.+...+..+  
T Consensus       176 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~  253 (450)
T 2y4t_A          176 DAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQ  253 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHH
Confidence            67789999999999999999999999998763 3478899999999999999999999999998764 2344455444  


Q ss_pred             ----------HHHHHhcCCHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHH
Q 042154          240 ----------LDGLAIEKQTKKALELVGEMRSKEINPD-----VFTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAI  302 (377)
Q Consensus       240 ----------~~~~~~~~~~~~a~~~~~~~~~~g~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~  302 (377)
                                ...+...|++++|...|+++.+.  .|+     ...+..+..++.+.|++++|...++ .... +.+...
T Consensus       254 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~  331 (450)
T 2y4t_A          254 VKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNA  331 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHH
Confidence                      78899999999999999999885  344     4478889999999999999999999 2223 346789


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHH------------HHhcC-----CHHHHHHHHHh-hccC
Q 042154          303 FKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDR------------LAKEL-----RVEEAKELVEL-GKTN  364 (377)
Q Consensus       303 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~------------~~~~g-----~~~~A~~~~~~-~~~~  364 (377)
                      |..+..+|...|++++|.+.++++++..+. +...+..+..+            |...|     +.+++.+.+++ +.+.
T Consensus       332 ~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~  410 (450)
T 2y4t_A          332 LKDRAEAYLIEEMYDEAIQDYETAQEHNEN-DQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQW  410 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHh
Confidence            999999999999999999999999985433 45566666633            33344     55677777775 4443


Q ss_pred             C
Q 042154          365 S  365 (377)
Q Consensus       365 ~  365 (377)
                      .
T Consensus       411 ~  411 (450)
T 2y4t_A          411 H  411 (450)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.95  E-value=1.9e-24  Score=192.50  Aligned_cols=318  Identities=10%  Similarity=-0.019  Sum_probs=257.3

Q ss_pred             HHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhc
Q 042154           39 RLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEM  118 (377)
Q Consensus        39 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  118 (377)
                      .+...+..+....  |.+...+..++..+.+.|++++|+++|+++....+ .+...+..++.++...|++++|...|+++
T Consensus        10 ~~~~~~~~~~~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a   86 (450)
T 2y4t_A           10 GVDLGTENLYFQS--MADVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKV   86 (450)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccccccccccccc--HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            3344444444443  66788899999999999999999999999987643 34555667999999999999999999999


Q ss_pred             CCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCH----HHHHHH------------HHHHHHcCCHHHH
Q 042154          119 PGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDL----VSYNTI------------IKAFVDKGSLDSA  182 (377)
Q Consensus       119 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~----~~~~~l------------~~~~~~~~~~~~a  182 (377)
                      .+.+ +.+..++..+..+|.+.|++++|...|+++...   .|+.    ..+..+            ...+...|++++|
T Consensus        87 l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A  162 (450)
T 2y4t_A           87 IQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKS---NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAA  162 (450)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            8865 456889999999999999999999999999753   4543    455544            4458899999999


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          183 NTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      ...|+++.+.. +.+..++..+..+|.+.|++++|...|+++.+.. +.+..++..+...|...|++++|+..|+++...
T Consensus       163 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  240 (450)
T 2y4t_A          163 IAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL  240 (450)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999864 3478889999999999999999999999998764 457889999999999999999999999999875


Q ss_pred             CCCCCHHHHHHH------------HHHHHhcCCHHHHHHHHH-hcCCCCC-----HHHHHHHHHHHHhcCChHHHHHHHH
Q 042154          263 EINPDVFTFYAL------------IKGFVNEGNLEEAKRWYN-KSGCGMN-----KAIFKLLVPFVCEKGDLDFAFNLCK  324 (377)
Q Consensus       263 g~~p~~~~~~~l------------~~~~~~~~~~~~a~~~~~-~~~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~  324 (377)
                      . +.+...+..+            ...+...|++++|..+++ .....|+     ...+..+..++.+.|++++|+..++
T Consensus       241 ~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  319 (450)
T 2y4t_A          241 D-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCS  319 (450)
T ss_dssp             C-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             C-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            2 2234445444            788999999999999999 3333454     4478888999999999999999999


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          325 RTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       325 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      ++.+... .+..++..+..+|...|++++|.+.++++.+..+.
T Consensus       320 ~a~~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~  361 (450)
T 2y4t_A          320 EVLQMEP-DNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNEN  361 (450)
T ss_dssp             HHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS
T ss_pred             HHHHhCc-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc
Confidence            9988643 36789999999999999999999999999886543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=4.4e-24  Score=193.31  Aligned_cols=339  Identities=12%  Similarity=-0.003  Sum_probs=275.6

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCcc------
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKE------   92 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------   92 (377)
                      |++..|..+..++.+.|++++|+..|+.+.+.+  |.+..+|..+..++...|++++|...|+++....+....      
T Consensus        37 p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  114 (514)
T 2gw1_A           37 EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK--PDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPML  114 (514)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHH
T ss_pred             ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC--hHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHH
Confidence            578899999999999999999999999998765  667788999999999999999999999988765432111      


Q ss_pred             ------------------------------------------------------------------------chhHHHHH
Q 042154           93 ------------------------------------------------------------------------GFTARLIA  100 (377)
Q Consensus        93 ------------------------------------------------------------------------~~~~~l~~  100 (377)
                                                                                              ..+.....
T Consensus       115 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (514)
T 2gw1_A          115 ERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGL  194 (514)
T ss_dssp             HHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHH
Confidence                                                                                    11112223


Q ss_pred             HHH---ccCCHHHHHHHHHhcCC-----C--CC------CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHH
Q 042154          101 LYG---KAAMFENARKVFDEMPG-----R--NC------EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLV  164 (377)
Q Consensus       101 ~~~---~~~~~~~A~~~~~~~~~-----~--~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~  164 (377)
                      .+.   +.|++++|...|+++.+     .  ..      +.+..++..+...+...|++++|...|+++...   .|+..
T Consensus       195 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~~~~~  271 (514)
T 2gw1_A          195 SNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIEL---FPRVN  271 (514)
T ss_dssp             HHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH---CCCHH
T ss_pred             HHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CccHH
Confidence            333   37899999999998876     3  10      234567888889999999999999999998765   34477


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLA  244 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  244 (377)
                      ++..+...+...|++++|...++.+.+... .+...+..+...+...|++++|...|++..+.. +.+...+..+...+.
T Consensus       272 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  349 (514)
T 2gw1_A          272 SYIYMALIMADRNDSTEYYNYFDKALKLDS-NNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAY  349 (514)
T ss_dssp             HHHHHHHHHHTSSCCTTGGGHHHHHHTTCT-TCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhhcCc-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHH
Confidence            888899999999999999999999988743 367788899999999999999999999999875 345678888999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH----hcCCCCC----HHHHHHHHHHHHh---c
Q 042154          245 IEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN----KSGCGMN----KAIFKLLVPFVCE---K  313 (377)
Q Consensus       245 ~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~----~~~~~~~----~~~~~~l~~~~~~---~  313 (377)
                      ..|++++|...++++.+.. +.+...+..+...+...|++++|...++    .....++    ...+..+..++..   .
T Consensus       350 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  428 (514)
T 2gw1_A          350 RENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTV  428 (514)
T ss_dssp             TTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCT
T ss_pred             HcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhc
Confidence            9999999999999998752 3356788889999999999999999998    1111222    3478888999999   9


Q ss_pred             CChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          314 GDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       314 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      |++++|.+.++++.+.... +..++..+..+|.+.|++++|.+.++++.+..+
T Consensus       429 ~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  480 (514)
T 2gw1_A          429 ENFIEATNLLEKASKLDPR-SEQAKIGLAQMKLQQEDIDEAITLFEESADLAR  480 (514)
T ss_dssp             THHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             CCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhcc
Confidence            9999999999999987543 677888999999999999999999999887654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.93  E-value=3.3e-23  Score=187.50  Aligned_cols=338  Identities=11%  Similarity=0.041  Sum_probs=276.3

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHH
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIA  100 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  100 (377)
                      ...+......+.+.|++++|+..|+++.+..   |+..+|..+..++...|++++|++.++++.+..+. +...+..++.
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~   81 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK---EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPD-YSKVLLRRAS   81 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC---CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSC-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC---ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChH-HHHHHHHHHH
Confidence            3567778889999999999999999998765   68899999999999999999999999999987643 3445557999


Q ss_pred             HHHccCCHHHHHHHHHhcCCCCC---------------------------------------------------------
Q 042154          101 LYGKAAMFENARKVFDEMPGRNC---------------------------------------------------------  123 (377)
Q Consensus       101 ~~~~~~~~~~A~~~~~~~~~~~~---------------------------------------------------------  123 (377)
                      ++...|++++|...|+++...+.                                                         
T Consensus        82 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           82 ANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCH
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchh
Confidence            99999999999999998765431                                                         


Q ss_pred             ---------------------CccHHHHHHHHHHHHh---CCChhHHHHHHHhchh-----hcCC-------CcCHHHHH
Q 042154          124 ---------------------EQTVLSFNALLGACVN---SKKFDEVDGLFKDLPH-----KLGI-------EPDLVSYN  167 (377)
Q Consensus       124 ---------------------~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~~-------~p~~~~~~  167 (377)
                                           +.+...+......+..   .|++++|+..|+++..     ....       +.+..++.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (514)
T 2gw1_A          162 TSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLE  241 (514)
T ss_dssp             HHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHH
Confidence                                 0113333334444443   8999999999999876     1001       22355788


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042154          168 TIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEK  247 (377)
Q Consensus       168 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  247 (377)
                      .+...+...|++++|...++++.+....  ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|
T Consensus       242 ~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  318 (514)
T 2gw1_A          242 HTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQ  318 (514)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhC
Confidence            8899999999999999999999987543  8889999999999999999999999999875 346678899999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-h-cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 042154          248 QTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-K-SGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKR  325 (377)
Q Consensus       248 ~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  325 (377)
                      ++++|...++++.+.. +.+...+..+...+...|++++|..+++ . ...+.+...+..+...+...|++++|.+.+++
T Consensus       319 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  397 (514)
T 2gw1_A          319 NYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDL  397 (514)
T ss_dssp             CTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999999999863 3356788899999999999999999999 2 22233567888999999999999999999999


Q ss_pred             HHhcCCC-CC----hhhHHHHHHHHHh---cCCHHHHHHHHHhhccCCc
Q 042154          326 TFSERCL-VD----QAPLQLVVDRLAK---ELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       326 ~~~~~~~-~~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~  366 (377)
                      +.+.... ++    ...+..+..++..   .|++++|.+.++++.+..+
T Consensus       398 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~  446 (514)
T 2gw1_A          398 AIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDP  446 (514)
T ss_dssp             HHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCT
T ss_pred             HHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCc
Confidence            9876432 11    3388899999999   9999999999999877543

>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=99.93  E-value=1.2e-22  Score=185.04  Aligned_cols=340  Identities=11%  Similarity=0.067  Sum_probs=254.1

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccc----
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEG----   93 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----   93 (377)
                      |.++..+..+..++.+.|++++|++.|+++.+.+  |.+..++..+..++...|++++|++.++.+...+...+..    
T Consensus        56 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  133 (537)
T 3fp2_A           56 PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK--PDHSKALLRRASANESLGNFTDAMFDLSVLSLNGDFDGASIEPM  133 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC-----------CH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHH
Confidence            4466777888888888888888888888877665  5566777778888888888888887775332111100000    


Q ss_pred             --------------------------------------------------------------hhHHHHHHHHc-------
Q 042154           94 --------------------------------------------------------------FTARLIALYGK-------  104 (377)
Q Consensus        94 --------------------------------------------------------------~~~~l~~~~~~-------  104 (377)
                                                                                    +...+...+..       
T Consensus       134 ~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  213 (537)
T 3fp2_A          134 LERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLV  213 (537)
T ss_dssp             HHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHH
Confidence                                                                          11112222111       


Q ss_pred             -cCCHHHHHHHHHhcCCCCCCcc-------HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHc
Q 042154          105 -AAMFENARKVFDEMPGRNCEQT-------VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDK  176 (377)
Q Consensus       105 -~~~~~~A~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  176 (377)
                       .|++++|..+|+++.+.. +.+       ..++..+...+...|++++|...|++....   .|+..++..+...+...
T Consensus       214 a~~~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~  289 (537)
T 3fp2_A          214 ANDLLTKSTDMYHSLLSAN-TVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL---HPTPNSYIFLALTLADK  289 (537)
T ss_dssp             HHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCCHHHHHHHHHHTCCS
T ss_pred             HHHHHHHHHHHHHHHHHHC-CCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHh
Confidence             136777888888877754 222       235666777888999999999999998765   56677888899999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          177 GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELV  256 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  256 (377)
                      |++++|...++++.+... .+..++..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+
T Consensus       290 ~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~  367 (537)
T 3fp2_A          290 ENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFF  367 (537)
T ss_dssp             SCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999999987643 367889999999999999999999999998765 335678888999999999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-----h--c-CCCCCHHHHHHHHHHHHhc----------CChHH
Q 042154          257 GEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-----K--S-GCGMNKAIFKLLVPFVCEK----------GDLDF  318 (377)
Q Consensus       257 ~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-----~--~-~~~~~~~~~~~l~~~~~~~----------g~~~~  318 (377)
                      +++.+.. +.+...+..+...+...|++++|.+.++     .  . ........+.....++...          |++++
T Consensus       368 ~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  446 (537)
T 3fp2_A          368 NETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNA  446 (537)
T ss_dssp             HHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHH
T ss_pred             HHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHH
Confidence            9998863 3456788889999999999999999998     1  1 1111223345556677777          99999


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          319 AFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       319 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      |...|+++.+.... +...+..+..+|.+.|++++|.+.++++.+..+.
T Consensus       447 A~~~~~~a~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~  494 (537)
T 3fp2_A          447 AIKLLTKACELDPR-SEQAKIGLAQLKLQMEKIDEAIELFEDSAILART  494 (537)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC
Confidence            99999999987543 6778999999999999999999999998876543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.93  E-value=6.1e-22  Score=170.61  Aligned_cols=318  Identities=11%  Similarity=-0.010  Sum_probs=245.8

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLI   99 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   99 (377)
                      ++..+..+...+...|++++|+..|+.+.+..  |.+..++..+...+...|++++|++.++++.+..+.. ...+..+.
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~l~   78 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD--PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDF-TAARLQRG   78 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC-HHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCc-chHHHHHH
Confidence            45678888999999999999999999998765  6678899999999999999999999999998875433 35555799


Q ss_pred             HHHHccCCHHHHHHHHHhcCCCCCC---ccHHHHHHH------------HHHHHhCCChhHHHHHHHhchhhcCCCcCHH
Q 042154          100 ALYGKAAMFENARKVFDEMPGRNCE---QTVLSFNAL------------LGACVNSKKFDEVDGLFKDLPHKLGIEPDLV  164 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~  164 (377)
                      ..+...|++++|...|++..+.. +   .+...+..+            ...+...|++++|+..++++.+.  .+.+..
T Consensus        79 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~  155 (359)
T 3ieg_A           79 HLLLKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV--CVWDAE  155 (359)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCchH
Confidence            99999999999999999998875 2   244455444            57788899999999999988764  234566


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHH-------
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYN-------  237 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------  237 (377)
                      .+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...|++..+.. +.+...+.       
T Consensus       156 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~  233 (359)
T 3ieg_A          156 LRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKK  233 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHH
Confidence            88888889999999999999999988774 3477888889999999999999999999888754 22333332       


Q ss_pred             -----HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHH-hcC-CCCCHHHHHHH
Q 042154          238 -----ARLDGLAIEKQTKKALELVGEMRSKEINPDV----FTFYALIKGFVNEGNLEEAKRWYN-KSG-CGMNKAIFKLL  306 (377)
Q Consensus       238 -----~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~-~~~-~~~~~~~~~~l  306 (377)
                           .+...+.+.|++++|...++++.+... .+.    ..+..+..++...|++++|.+.++ ... .+.+..++..+
T Consensus       234 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  312 (359)
T 3ieg_A          234 LNKLIESAEELIRDGRYTDATSKYESVMKTEP-SVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDR  312 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHH
Confidence                 225667888999999999988887532 122    234457778888899999999888 222 23367788888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 042154          307 VPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAK  347 (377)
Q Consensus       307 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  347 (377)
                      ..++...|++++|.+.|+++.+..+. +...+..+..+...
T Consensus       313 ~~~~~~~g~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~~~  352 (359)
T 3ieg_A          313 AEAYLIEEMYDEAIQDYEAAQEHNEN-DQQIREGLEKAQRL  352 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHH
Confidence            88888999999999999988875432 45555555555443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.91  E-value=2.5e-21  Score=166.77  Aligned_cols=303  Identities=11%  Similarity=0.003  Sum_probs=250.5

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHH
Q 042154           56 NTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLG  135 (377)
Q Consensus        56 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  135 (377)
                      ++..+..+...+...|++++|++.++++.+..+. +...+..+...+...|++++|...|+++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            4567888899999999999999999999887544 34455579999999999999999999988764 346788999999


Q ss_pred             HHHhCCChhHHHHHHHhchhhcCCCc----CHHHHHHH------------HHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 042154          136 ACVNSKKFDEVDGLFKDLPHKLGIEP----DLVSYNTI------------IKAFVDKGSLDSANTLLYEMEKKGIRLDLI  199 (377)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~p----~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  199 (377)
                      .+...|++++|...|++..+.   .|    +...+..+            ...+...|++++|.+.++++.+... .+..
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~  155 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKS---NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV-WDAE  155 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHH
T ss_pred             HHHHcCChHHHHHHHHHHHhc---CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CchH
Confidence            999999999999999998743   45    33445444            5788999999999999999998743 4788


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH-------
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFY-------  272 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~-------  272 (377)
                      .+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+.       
T Consensus       156 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~  233 (359)
T 3ieg_A          156 LRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKK  233 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHH
Confidence            89999999999999999999999999875 4577899999999999999999999999998753 22333332       


Q ss_pred             -----HHHHHHHhcCCHHHHHHHHH-hcCCCCC-H----HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHH
Q 042154          273 -----ALIKGFVNEGNLEEAKRWYN-KSGCGMN-K----AIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLV  341 (377)
Q Consensus       273 -----~l~~~~~~~~~~~~a~~~~~-~~~~~~~-~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  341 (377)
                           .+...+...|++++|...++ .....|+ .    ..+..+..++...|++++|.+.++++.+.... ++.++..+
T Consensus       234 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~  312 (359)
T 3ieg_A          234 LNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPD-NVNALKDR  312 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcc-cHHHHHHH
Confidence                 23667889999999999999 2222333 3    23556778999999999999999999987433 77899999


Q ss_pred             HHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          342 VDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       342 ~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      ..++...|++++|.+.++++.+..+.
T Consensus       313 ~~~~~~~g~~~~A~~~~~~a~~~~p~  338 (359)
T 3ieg_A          313 AEAYLIEEMYDEAIQDYEAAQEHNEN  338 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999987653

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.90  E-value=7.2e-21  Score=173.23  Aligned_cols=337  Identities=13%  Similarity=0.089  Sum_probs=261.0

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLI   99 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   99 (377)
                      ....+..+...+.+.|++++|+..|+.+.+..  |.+..+|..+..++...|++++|++.++++....+. +...+..+.
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la  100 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD--PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPD-HSKALLRRA  100 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-hHHHHHHHH
Confidence            35678888999999999999999999998876  678889999999999999999999999999887644 344455799


Q ss_pred             HHHHccCCHHHHHHHHHhcCCCCCC------------------------------------ccHH---------------
Q 042154          100 ALYGKAAMFENARKVFDEMPGRNCE------------------------------------QTVL---------------  128 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~~~~------------------------------------~~~~---------------  128 (377)
                      .++...|++++|...|+.+....-.                                    |+..               
T Consensus       101 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  180 (537)
T 3fp2_A          101 SANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEV  180 (537)
T ss_dssp             HHHHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHH
Confidence            9999999999999999644221100                                    0000               


Q ss_pred             ---------------HHHHHHHHHHh--------CCChhHHHHHHHhchhhcCCCcC--------HHHHHHHHHHHHHcC
Q 042154          129 ---------------SFNALLGACVN--------SKKFDEVDGLFKDLPHKLGIEPD--------LVSYNTIIKAFVDKG  177 (377)
Q Consensus       129 ---------------~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~p~--------~~~~~~l~~~~~~~~  177 (377)
                                     ....+...+..        .+++++|..+|+++.+.   .|+        ..++..+...+...|
T Consensus       181 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~~~~~g~~~~~~~  257 (537)
T 3fp2_A          181 SSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA---NTVDDPLRENAALALCYTGIFHFLKN  257 (537)
T ss_dssp             HTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH---CCCcchhhHHHHHHHHHHHHHHHhcc
Confidence                           11111111111        14788899999888754   343        235777778889999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      ++++|...++.+.+..  |+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++
T Consensus       258 ~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  334 (537)
T 3fp2_A          258 NLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQ  334 (537)
T ss_dssp             CHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            9999999999999863  457888899999999999999999999998765 3467889999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-h-cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC---
Q 042154          258 EMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-K-SGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCL---  332 (377)
Q Consensus       258 ~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---  332 (377)
                      ++.+.. +.+...+..+...+...|++++|..+++ . ...+.+...+..+...+...|++++|.+.|+++.+....   
T Consensus       335 ~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~  413 (537)
T 3fp2_A          335 KAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEK  413 (537)
T ss_dssp             HHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSS
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchh
Confidence            998863 2346788889999999999999999999 2 222345678888999999999999999999998876421   


Q ss_pred             --CChhhHHHHHHHHHhc----------CCHHHHHHHHHhhccCCc
Q 042154          333 --VDQAPLQLVVDRLAKE----------LRVEEAKELVELGKTNSY  366 (377)
Q Consensus       333 --~~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~  366 (377)
                        .....+..+..++...          |++++|.+.++++.+..+
T Consensus       414 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p  459 (537)
T 3fp2_A          414 IHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDP  459 (537)
T ss_dssp             CSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCT
T ss_pred             hHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCC
Confidence              1112244556777777          999999999999887554

>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=99.90  E-value=1.8e-20  Score=159.52  Aligned_cols=287  Identities=8%  Similarity=-0.058  Sum_probs=129.4

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHH
Q 042154           57 TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGA  136 (377)
Q Consensus        57 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  136 (377)
                      ...+..++..+...|++++|+++++++.+..+... ..+..++..+...|++++|..+++++.+.. +.+...+..+...
T Consensus        22 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~-~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   99 (330)
T 3hym_B           22 LDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHA-SCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCY   99 (330)
T ss_dssp             CTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCT-TTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCh-hhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHH
Confidence            33344444444444444444444444443322211 112123444444444444444444444322 2233444444444


Q ss_pred             HHhCC-ChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHH
Q 042154          137 CVNSK-KFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFA  215 (377)
Q Consensus       137 ~~~~~-~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  215 (377)
                      +...| ++++|...|++....  .+.+...|..+...+...|++++|.+.++++.+.... +...+..+...|...|+++
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTL--EKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTT--CTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHH
Confidence            44444 444444444444321  1112334444444455555555555555544443211 2333444444555555555


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--------CCCCHHHHHHHHHHHHhcCCHHHH
Q 042154          216 DAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKE--------INPDVFTFYALIKGFVNEGNLEEA  287 (377)
Q Consensus       216 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g--------~~p~~~~~~~l~~~~~~~~~~~~a  287 (377)
                      +|...+++..+.. +.+...+..+...+...|++++|...+++..+..        .+.....+..+..++...|++++|
T Consensus       177 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            5555555554433 2234445555555555555555555555544320        012234555555555555555555


Q ss_pred             HHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHH-HhcCC
Q 042154          288 KRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRL-AKELR  350 (377)
Q Consensus       288 ~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~  350 (377)
                      ...++ .... +.+...+..+..++...|++++|.+.++++.+.... +...+..+..++ ...|+
T Consensus       256 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~g~  320 (330)
T 3hym_B          256 LDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRD-DTFSVTMLGHCIEMYIGD  320 (330)
T ss_dssp             HHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSC-CHHHHHHHHHHHHTTTTC
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCC-chHHHHHHHHHHHHHhCc
Confidence            55555 1111 223445555555666666666666666655553221 444555555555 33444

>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=99.90  E-value=1.4e-20  Score=160.25  Aligned_cols=294  Identities=11%  Similarity=0.004  Sum_probs=242.8

Q ss_pred             CCCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh
Q 042154           16 ATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT   95 (377)
Q Consensus        16 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   95 (377)
                      ..+.++..+..+...+...|++++|+++|+.+.+..  +.+...+..++..+...|++++|..+++++....+. +...+
T Consensus        17 ~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~   93 (330)
T 3hym_B           17 GLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD--PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSW   93 (330)
T ss_dssp             ---CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHH
T ss_pred             hchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHH
Confidence            345677888999999999999999999999998765  566778888889999999999999999999887543 34445


Q ss_pred             HHHHHHHHccC-CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHH
Q 042154           96 ARLIALYGKAA-MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFV  174 (377)
Q Consensus        96 ~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  174 (377)
                      ..+...+...| ++++|...|++..+.. +.+...|..+...+...|++++|+..|++..+..  +.+...+..+...+.
T Consensus        94 ~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~  170 (330)
T 3hym_B           94 FAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM--KGCHLPMLYIGLEYG  170 (330)
T ss_dssp             HHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc--cccHHHHHHHHHHHH
Confidence            57889999999 9999999999998875 4467889999999999999999999999987641  234567777899999


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC--------CCCCHHHHHHHHHHHHhc
Q 042154          175 DKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN--------VRPNVRSYNARLDGLAIE  246 (377)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~  246 (377)
                      ..|++++|.+.++++.+... .+...+..+...+...|++++|...+++..+..        .+.....+..+...+...
T Consensus       171 ~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  249 (330)
T 3hym_B          171 LTNNSKLAERFFSQALSIAP-EDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKL  249 (330)
T ss_dssp             HTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHh
Confidence            99999999999999998743 477889999999999999999999999888631        133457888999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHH-HhcCChH
Q 042154          247 KQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFV-CEKGDLD  317 (377)
Q Consensus       247 ~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~-~~~g~~~  317 (377)
                      |++++|...+++..+.. +.+...+..+..++...|++++|.+.++ .....| +...+..+..++ ...|+.+
T Consensus       250 g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          250 KKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             cCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            99999999999998863 3356788899999999999999999999 444555 667788888777 4556543

>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=99.88  E-value=1.6e-20  Score=162.55  Aligned_cols=291  Identities=9%  Similarity=-0.028  Sum_probs=215.4

Q ss_pred             HhcCChHHHHH-HHHHhhhhcCCC---ccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCCh
Q 042154           68 ANAKRFRWIEE-ILEHQKQYKDIS---KEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKF  143 (377)
Q Consensus        68 ~~~~~~~~a~~-~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  143 (377)
                      ...|++++|++ .+++........   +...+..+...+.+.|++++|...|+++.+.. +.+..++..+..++...|++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCH
Confidence            34577888887 777665543221   22334468888888888888888888887764 45677888888888888999


Q ss_pred             hHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHH---------------HHHHH
Q 042154          144 DEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNT---------------LLLGF  208 (377)
Q Consensus       144 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~  208 (377)
                      ++|+..|+++.+.  .+.+..++..+...+...|++++|...++++.+.... +...+..               .+..+
T Consensus       115 ~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (368)
T 1fch_A          115 LLAISALRRCLEL--KPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSL  191 (368)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHH
T ss_pred             HHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHH
Confidence            9998888888764  1335668888888888889999999998888876432 2222211               23333


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 042154          209 YSNGRFADAEKIWETMVNMNVRP-NVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEA  287 (377)
Q Consensus       209 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a  287 (377)
                      ...|++++|...|+++.+..... +..++..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|
T Consensus       192 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A  270 (368)
T 1fch_A          192 LSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEA  270 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHH
Confidence            48889999999999998765211 47888999999999999999999999988752 34578899999999999999999


Q ss_pred             HHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC----------ChhhHHHHHHHHHhcCCHHHHH
Q 042154          288 KRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLV----------DQAPLQLVVDRLAKELRVEEAK  355 (377)
Q Consensus       288 ~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~g~~~~A~  355 (377)
                      ...++ .... +.+...+..+..+|.+.|++++|...|+++.+.....          ...+|..+..+|...|++++|.
T Consensus       271 ~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  350 (368)
T 1fch_A          271 VAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  350 (368)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHH
Confidence            99999 2222 3467789999999999999999999999998754321          1578999999999999999999


Q ss_pred             HHHHhhcc
Q 042154          356 ELVELGKT  363 (377)
Q Consensus       356 ~~~~~~~~  363 (377)
                      .++++..+
T Consensus       351 ~~~~~~l~  358 (368)
T 1fch_A          351 AADARDLS  358 (368)
T ss_dssp             HHHTTCHH
T ss_pred             HhHHHHHH
Confidence            98876543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.87  E-value=2.1e-20  Score=161.72  Aligned_cols=233  Identities=12%  Similarity=-0.047  Sum_probs=103.6

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHH
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIA  100 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  100 (377)
                      ...+..+...+.+.|++++|+..|+.+.+..  +.+..+|..+...+...|++++|++.++++....+. +...+..+..
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~  141 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD--PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPN-NLKALMALAV  141 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHH
Confidence            3445555555555555555555555554433  334445555555555555555555555555444321 2223334555


Q ss_pred             HHHccCCHHHHHHHHHhcCCCCCCcc-H----------HHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHH
Q 042154          101 LYGKAAMFENARKVFDEMPGRNCEQT-V----------LSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTI  169 (377)
Q Consensus       101 ~~~~~~~~~~A~~~~~~~~~~~~~~~-~----------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l  169 (377)
                      +|...|++++|...|+++.+..  |+ .          ..+..+...+...|++++|+..|+++.+.....++..++..+
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  219 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHH
Confidence            5555555555555555544322  11 1          111222444444455555555555444331111133444444


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 042154          170 IKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQT  249 (377)
Q Consensus       170 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  249 (377)
                      ...+...|++++|.+.++++.+... .+..++..+..+|...|++++|...|+++.+.. +.+..++..+..+|...|++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVRP-EDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCH
Confidence            4455555555555555554444321 234444444445555555555555554444432 12244444444444445555


Q ss_pred             HHHHHHHHHHH
Q 042154          250 KKALELVGEMR  260 (377)
Q Consensus       250 ~~a~~~~~~~~  260 (377)
                      ++|...|+++.
T Consensus       298 ~~A~~~~~~al  308 (365)
T 4eqf_A          298 REAVSNFLTAL  308 (365)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55554444444

>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=1.9e-20  Score=162.10  Aligned_cols=290  Identities=12%  Similarity=0.021  Sum_probs=225.6

Q ss_pred             HhhhcccHHHHHH-HHHhcccCCCCcc--chhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccC
Q 042154           30 GIYKENNLKRLVD-KFKKSSDLGRFRT--NTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAA  106 (377)
Q Consensus        30 ~~~~~~~~~~A~~-~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  106 (377)
                      ++...|++++|++ .|++......-.|  +...+..+...+...|++++|+..++++.+..+. +...+..+..++...|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCc
Confidence            3445688999999 8887765432222  3567889999999999999999999999887543 4455557999999999


Q ss_pred             CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHH---------------HH
Q 042154          107 MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNT---------------II  170 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~---------------l~  170 (377)
                      ++++|...|+++.+.. +.+..++..+...+...|++++|...++++...   .|+ ...+..               .+
T Consensus       113 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~  188 (368)
T 1fch_A          113 QELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRY---TPAYAHLVTPAEEGAGGAGLGPSKRIL  188 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---STTTGGGCC---------------CTT
T ss_pred             CHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCcHHHHHHHHHHhhhhcccHHHHHH
Confidence            9999999999988765 457889999999999999999999999998764   232 222221               23


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCC-CHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 042154          171 KAFVDKGSLDSANTLLYEMEKKGIRL-DLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQT  249 (377)
Q Consensus       171 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  249 (377)
                      ..+...|++++|...++++.+..... +..++..+...|...|++++|...|+++.+.. +.+...+..+...+...|++
T Consensus       189 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~  267 (368)
T 1fch_A          189 GSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQS  267 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCH
Confidence            33448999999999999999764322 57889999999999999999999999998764 34678999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-----hcCC--------CCCHHHHHHHHHHHHhcCCh
Q 042154          250 KKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-----KSGC--------GMNKAIFKLLVPFVCEKGDL  316 (377)
Q Consensus       250 ~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-----~~~~--------~~~~~~~~~l~~~~~~~g~~  316 (377)
                      ++|...|+++.+.. +.+...+..+..+|...|++++|...++     ....        .....+|..+..+|...|++
T Consensus       268 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  346 (368)
T 1fch_A          268 EEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQS  346 (368)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCG
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCCh
Confidence            99999999998863 3467889999999999999999999999     1111        11267899999999999999


Q ss_pred             HHHHHHHHHH
Q 042154          317 DFAFNLCKRT  326 (377)
Q Consensus       317 ~~a~~~~~~~  326 (377)
                      ++|..++++.
T Consensus       347 ~~A~~~~~~~  356 (368)
T 1fch_A          347 DAYGAADARD  356 (368)
T ss_dssp             GGHHHHHTTC
T ss_pred             HhHHHhHHHH
Confidence            9999987643

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.86  E-value=3.1e-20  Score=160.66  Aligned_cols=264  Identities=8%  Similarity=-0.107  Sum_probs=207.3

Q ss_pred             hHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHH
Q 042154           95 TARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFV  174 (377)
Q Consensus        95 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  174 (377)
                      +..+...+.+.|++++|..+|+++.+.. +.+..+|..+...+...|++++|+..|+++.+.  .+.+..++..+..++.
T Consensus        68 ~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~  144 (365)
T 4eqf_A           68 AFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLEL--QPNNLKALMALAVSYT  144 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHH
Confidence            4468888889999999999999887754 456888889999999999999999999988764  1334678888999999


Q ss_pred             HcCCHHHHHHHHHHHHHCCCC---------CCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHH
Q 042154          175 DKGSLDSANTLLYEMEKKGIR---------LDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVR-PNVRSYNARLDGLA  244 (377)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~~~~---------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~  244 (377)
                      ..|++++|...++++.+....         .....+..+...+...|++++|...|+++.+.... ++..++..+...|.
T Consensus       145 ~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~  224 (365)
T 4eqf_A          145 NTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFH  224 (365)
T ss_dssp             HTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHH
Confidence            999999999999998875311         01223344578899999999999999999986521 16789999999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHH
Q 042154          245 IEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNL  322 (377)
Q Consensus       245 ~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~  322 (377)
                      ..|++++|+..|+++.+.. +.+..++..+..+|...|++++|...++ .....| +..++..+..+|...|++++|...
T Consensus       225 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  303 (365)
T 4eqf_A          225 LSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAVSN  303 (365)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999998863 4467899999999999999999999999 222334 578899999999999999999999


Q ss_pred             HHHHHhcCCC-----------CChhhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          323 CKRTFSERCL-----------VDQAPLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       323 ~~~~~~~~~~-----------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      |+++++....           .+..+|..+..++...|+.+.+.++.++..
T Consensus       304 ~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~l  354 (365)
T 4eqf_A          304 FLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLGDL  354 (365)
T ss_dssp             HHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTTCC
T ss_pred             HHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhhH
Confidence            9999875321           136788999999999999999988877643

>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=99.85  E-value=3.4e-19  Score=151.40  Aligned_cols=262  Identities=10%  Similarity=-0.068  Sum_probs=175.8

Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      +...+...|++++|..+|+++.+.. +.+..++..+..++...|++++|...++++.+.  .+.+..++..+...+...|
T Consensus        27 ~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~  103 (327)
T 3cv0_A           27 EGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEH  103 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcCCHHHHHHHHHHHHHcC
Confidence            4445555555555555555544432 224445555555555555555555555555442  1223445555555566666


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHH--------------HH-HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTL--------------LL-GFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDG  242 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  242 (377)
                      ++++|.+.++++.+.... +...+..+              .. .+...|++++|...++++.+.. +.+...+..+...
T Consensus       104 ~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  181 (327)
T 3cv0_A          104 NANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVL  181 (327)
T ss_dssp             CHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            666666666665554221 22222222              22 3667788889999888888764 3467788888888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHH
Q 042154          243 LAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAF  320 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~  320 (377)
                      +...|++++|...++++.+.. +.+...+..+...+...|++++|...++ .... +.+...+..+..++...|++++|.
T Consensus       182 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~  260 (327)
T 3cv0_A          182 YNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLAA  260 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHHH
Confidence            889999999999998888753 3457788888889999999999999988 2222 346778888999999999999999


Q ss_pred             HHHHHHHhcCCCC-----------ChhhHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          321 NLCKRTFSERCLV-----------DQAPLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       321 ~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      +.++++.+.....           +..++..+..++.+.|++++|.++++++.+..
T Consensus       261 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  316 (327)
T 3cv0_A          261 KQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEPF  316 (327)
T ss_dssp             HHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHHH
T ss_pred             HHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhc
Confidence            9999998764332           36688889999999999999999998776543

>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=99.85  E-value=1.9e-19  Score=153.00  Aligned_cols=277  Identities=12%  Similarity=0.018  Sum_probs=146.8

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      .+...+..+...+...|++++|+..|+.+.+..  +.+...+..+...+...|++++|.+.++++.+..+. +...+..+
T Consensus        19 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l   95 (327)
T 3cv0_A           19 MYHENPMEEGLSMLKLANLAEAALAFEAVCQAA--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAAL   95 (327)
T ss_dssp             GGSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcC-CHHHHHHH
Confidence            355667777788888888888888888887654  556777778888888888888888888887776432 33444467


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHH-HH-HHHHc
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTI-IK-AFVDK  176 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l-~~-~~~~~  176 (377)
                      ...+...|++++|.+.++++.+.. +.+...+..+...                       .|+......+ .. .+...
T Consensus        96 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~  151 (327)
T 3cv0_A           96 AVSHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQA-----------------------DVDIDDLNVQSEDFFFAAP  151 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTS-TTTTTC-------------------------------------------CCTTSH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHH-----------------------HHHHHHHHHHHHhHHHHHc
Confidence            777788888888888887776543 1122222222000                       0000000011 11 13344


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          177 GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELV  256 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  256 (377)
                      |++++|.+.++++.+... .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+
T Consensus       152 ~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  229 (327)
T 3cv0_A          152 NEYRECRTLLHAALEMNP-NDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAY  229 (327)
T ss_dssp             HHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            444555555554444321 134444445555555555555555555544432 223444455555555555555555555


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-------------CHHHHHHHHHHHHhcCChHHHHHH
Q 042154          257 GEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-------------NKAIFKLLVPFVCEKGDLDFAFNL  322 (377)
Q Consensus       257 ~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-------------~~~~~~~l~~~~~~~g~~~~a~~~  322 (377)
                      +++.+.. +.+...+..+..++...|++++|.+.++ .....|             +...|..+..++...|++++|..+
T Consensus       230 ~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  308 (327)
T 3cv0_A          230 NRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELT  308 (327)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHH
Confidence            5544431 2234445555555555555555555555 111111             234455555555555555555555


Q ss_pred             HHH
Q 042154          323 CKR  325 (377)
Q Consensus       323 ~~~  325 (377)
                      +++
T Consensus       309 ~~~  311 (327)
T 3cv0_A          309 YAQ  311 (327)
T ss_dssp             TTC
T ss_pred             HHH
Confidence            543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.84  E-value=9.5e-17  Score=144.30  Aligned_cols=250  Identities=14%  Similarity=0.101  Sum_probs=157.3

Q ss_pred             CchHHHHHHHHhhh----cccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHh----cCChHHHHHHHHHhhhhcCCCc
Q 042154           20 GPKFIGSVIRGIYK----ENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLAN----AKRFRWIEEILEHQKQYKDISK   91 (377)
Q Consensus        20 ~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~   91 (377)
                      ++..+..+...|..    .+++++|+..|++..+.+    +...+..+...+..    .++.++|.++|++....+   +
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~----~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  110 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG----YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---L  110 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence            56667777777776    788888888888887654    45567777777777    788888888888877654   2


Q ss_pred             cchhHHHHHHHHc----cCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHhchhhcCCCcCH
Q 042154           92 EGFTARLIALYGK----AAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN----SKKFDEVDGLFKDLPHKLGIEPDL  163 (377)
Q Consensus        92 ~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~  163 (377)
                      ......+...|..    .+++++|...|++..+.|   +..++..+...|..    .+++++|+..|++..+. +   +.
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~-~---~~  183 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ-G---NV  183 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CH
Confidence            2233346677766    678888888888777665   45666667777766    66777888877776543 2   45


Q ss_pred             HHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHH
Q 042154          164 VSYNTIIKAFVD----KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYS----NGRFADAEKIWETMVNMNVRPNVRS  235 (377)
Q Consensus       164 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  235 (377)
                      ..+..+...|..    .+++++|.++|++..+.|   +...+..+...|..    .+++++|..+|++..+.|   +...
T Consensus       184 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a  257 (490)
T 2xm6_A          184 WSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIA  257 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHH
T ss_pred             HHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            566666666666    667777777777766653   34455555555554    556666666666665543   2334


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----CCHHHHHHHHH
Q 042154          236 YNARLDGLAI----EKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNE-----GNLEEAKRWYN  292 (377)
Q Consensus       236 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~-----~~~~~a~~~~~  292 (377)
                      +..+...|..    .++.++|+.+|++..+.|   +...+..+...|...     +++++|..+++
T Consensus       258 ~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~  320 (490)
T 2xm6_A          258 QFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYT  320 (490)
T ss_dssp             HHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHH
Confidence            4444444444    555555555555555432   233444444444444     45555555554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.84  E-value=9.2e-17  Score=144.38  Aligned_cols=320  Identities=11%  Similarity=-0.008  Sum_probs=266.5

Q ss_pred             CCchHHHHHHHHhhh----cccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHh----cCChHHHHHHHHHhhhhcCCC
Q 042154           19 TGPKFIGSVIRGIYK----ENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLAN----AKRFRWIEEILEHQKQYKDIS   90 (377)
Q Consensus        19 ~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~   90 (377)
                      -++..+..|...|..    .+++++|+..|++..+.+    +...+..+...+..    .+++++|++.+++....+   
T Consensus        73 ~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~----~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---  145 (490)
T 2xm6_A           73 GYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG----LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---  145 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---
T ss_pred             CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---
Confidence            356788888888888    999999999999998765    55667788888888    789999999999988764   


Q ss_pred             ccchhHHHHHHHHc----cCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHhchhhcCCCcC
Q 042154           91 KEGFTARLIALYGK----AAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN----SKKFDEVDGLFKDLPHKLGIEPD  162 (377)
Q Consensus        91 ~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~p~  162 (377)
                      +......+...|..    .++.++|.+.|++..+.|   +..++..+...|..    .++.++|..+|++..+.    .+
T Consensus       146 ~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~----~~  218 (490)
T 2xm6_A          146 RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATS----GD  218 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TC
T ss_pred             CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHC----CC
Confidence            22333457788876    789999999999988875   67888888888888    89999999999998654    35


Q ss_pred             HHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHH
Q 042154          163 LVSYNTIIKAFVD----KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYS----NGRFADAEKIWETMVNMNVRPNVR  234 (377)
Q Consensus       163 ~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~  234 (377)
                      ...+..+...+..    .+++++|..+|++..+.|   +...+..+...|..    .+++++|...|++..+.|   +..
T Consensus       219 ~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~  292 (490)
T 2xm6_A          219 ELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSD  292 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHH
Confidence            6678888888886    889999999999998874   45667777778877    899999999999999875   556


Q ss_pred             HHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHH-hcCCCCCHHHHHH
Q 042154          235 SYNARLDGLAIE-----KQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEG---NLEEAKRWYN-KSGCGMNKAIFKL  305 (377)
Q Consensus       235 ~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~-~~~~~~~~~~~~~  305 (377)
                      .+..+...|...     +++++|+..|++..+.|   +...+..+...|...|   +.++|.++++ ... ..+...+..
T Consensus       293 a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~-~~~~~a~~~  368 (490)
T 2xm6_A          293 GQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAA-KGEKAAQFN  368 (490)
T ss_dssp             HHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHH-TTCHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHH-CCCHHHHHH
Confidence            777788888877     89999999999999875   4567777888887766   7899999999 221 246788888


Q ss_pred             HHHHHHh----cCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHhhccCC
Q 042154          306 LVPFVCE----KGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAK----ELRVEEAKELVELGKTNS  365 (377)
Q Consensus       306 l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  365 (377)
                      +...|..    .+++++|.+.|++..+.+   ++..+..|...|.+    .++.++|.+.++++.+.+
T Consensus       369 Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          369 LGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            9988988    899999999999999865   57788889999998    899999999999998877

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.83  E-value=5.8e-18  Score=141.07  Aligned_cols=276  Identities=11%  Similarity=0.009  Sum_probs=210.8

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCCh
Q 042154           64 VQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKF  143 (377)
Q Consensus        64 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  143 (377)
                      ++-....|++..|+...+......+.........+.++|...|+++.|...++..    -+|+..++..+...+...++.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcH
Confidence            4455678999999999888766543332223335789999999999999876552    357788889999999999999


Q ss_pred             hHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHH
Q 042154          144 DEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWE  222 (377)
Q Consensus       144 ~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  222 (377)
                      ++|++.++++... +..| +...+..+...+...|++++|++.+++      +.+...+..++..|.+.|++++|.+.|+
T Consensus        82 ~~A~~~l~~ll~~-~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~  154 (291)
T 3mkr_A           82 DAIVAELDREMSR-SVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELK  154 (291)
T ss_dssp             HHHHHHHHHHHHS-CCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc-ccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999998764 4445 455677777899999999999999987      4578889999999999999999999999


Q ss_pred             HHHhCCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC
Q 042154          223 TMVNMNVRPNVRSY---NARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM  298 (377)
Q Consensus       223 ~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~  298 (377)
                      ++.+..  |+....   ..++..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|...++ .....|
T Consensus       155 ~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p  231 (291)
T 3mkr_A          155 KMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDS  231 (291)
T ss_dssp             HHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            998764  553211   12234444568999999999999887 45678889999999999999999999999 233334


Q ss_pred             -CHHHHHHHHHHHHhcCChHH-HHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 042154          299 -NKAIFKLLVPFVCEKGDLDF-AFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELV  358 (377)
Q Consensus       299 -~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  358 (377)
                       +..++..++..+...|+.++ +.++++++.+..  |+...   +.+...+.+.++++..-|
T Consensus       232 ~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~--P~~~~---~~d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          232 GHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH--RSHPF---IKEYRAKENDFDRLVLQY  288 (291)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--TTCHH---HHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC--CCChH---HHHHHHHHHHHHHHHHHc
Confidence             67788889999999999876 578999988854  33332   334566677777766544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.82  E-value=1.6e-17  Score=138.46  Aligned_cols=274  Identities=9%  Similarity=0.070  Sum_probs=191.8

Q ss_pred             HHHhhhcccHHHHHHHHHhcccCCCCccc-hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccC
Q 042154           28 IRGIYKENNLKRLVDKFKKSSDLGRFRTN-TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAA  106 (377)
Q Consensus        28 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  106 (377)
                      |+.....|+++.|+..++......  +.+ ......+.+++...|+++.|+..++.   . .++....+..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~--p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSS--PERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCS--HHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCC--chhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCC
Confidence            355667888889988887765433  222 34556677888888888888876543   1 2344455566778888888


Q ss_pred             CHHHHHHHHHhcCCCCC-CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHH
Q 042154          107 MFENARKVFDEMPGRNC-EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTL  185 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  185 (377)
                      +.++|.+.++++...+. |-+...+..+...+...|++++|++.+++       +.+...+..++..+.+.|++++|.+.
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-------~~~~~~~~~l~~~~~~~g~~~~A~~~  152 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-------GDSLECMAMTVQILLKLDRLDLARKE  152 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-------CCSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            88999988888776543 33566667777888888999999888876       34667788888888888999999999


Q ss_pred             HHHHHHCCCCCCHHhH---HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          186 LYEMEKKGIRLDLITF---NTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       186 ~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      ++++.+..  |+....   ..++..+...|++++|..+|+++.+.. +.+...++.+..++.+.|++++|...|++..+.
T Consensus       153 l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~  229 (291)
T 3mkr_A          153 LKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK  229 (291)
T ss_dssp             HHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            88888763  333211   223344556688899999998888763 567788888888888899999999999888775


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHH-HHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 042154          263 EINPDVFTFYALIKGFVNEGNLEE-AKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFN  321 (377)
Q Consensus       263 g~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  321 (377)
                      . +-+..++..++..+...|+.++ +.++++ .....|+...   +.+...+.+.++++..
T Consensus       230 ~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~---~~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          230 D-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPF---IKEYRAKENDFDRLVL  286 (291)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHH---HHHHHHHHHHHHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChH---HHHHHHHHHHHHHHHH
Confidence            2 3367778888888888888765 567776 3334454332   2223344444444443

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.82  E-value=5.8e-19  Score=150.69  Aligned_cols=283  Identities=11%  Similarity=0.058  Sum_probs=105.6

Q ss_pred             hcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHH
Q 042154           33 KENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENAR  112 (377)
Q Consensus        33 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  112 (377)
                      +.|++++|.++++++.       ++.+|..++.++.+.|++++|++.|.+.      ++...|..++..+...|++++|+
T Consensus        15 ~~~~ld~A~~fae~~~-------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi   81 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN-------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELV   81 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC-------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHH
Confidence            4566777777777662       1236777777777777777777777542      23334445677777777777777


Q ss_pred             HHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 042154          113 KVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKK  192 (377)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  192 (377)
                      .+++...+.  .+++.+.+.++.+|.+.|+++++.++++        .|+..+|..++..|...|.+++|...|..+   
T Consensus        82 ~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---  148 (449)
T 1b89_A           82 KYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---  148 (449)
T ss_dssp             -----------------------------CHHHHTTTTT--------CC----------------CTTTHHHHHHHT---
T ss_pred             HHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---
Confidence            766655553  2446667777777777777777665553        245557777777777777777777777765   


Q ss_pred             CCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 042154          193 GIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFY  272 (377)
Q Consensus       193 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~  272 (377)
                            ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......+.     ..+.-..
T Consensus       149 ------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~  211 (449)
T 1b89_A          149 ------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELE  211 (449)
T ss_dssp             ------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHH
T ss_pred             ------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHH
Confidence                  35777777777777777777777766      256777777777777777777754444322     2333344


Q ss_pred             HHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCC------ChhhHHHHHH
Q 042154          273 ALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE-RCLV------DQAPLQLVVD  343 (377)
Q Consensus       273 ~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~------~~~~~~~l~~  343 (377)
                      .++..|.+.|.+++|..+++ ..+..+ ....|+.+.-.|++- ++++..+.++...+. +++|      +...|..+.-
T Consensus       212 ~lv~~Yek~G~~eEai~lLe~aL~le~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          212 ELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence            56777777777777777777 444433 445666666555554 233333333332222 2222      3456777777


Q ss_pred             HHHhcCCHHHHHHHHH
Q 042154          344 RLAKELRVEEAKELVE  359 (377)
Q Consensus       344 ~~~~~g~~~~A~~~~~  359 (377)
                      .|...|+++.|...+-
T Consensus       291 ly~~~~e~d~A~~tm~  306 (449)
T 1b89_A          291 LYDKYEEYDNAIITMM  306 (449)
T ss_dssp             HHHHTTCHHHHHHHHH
T ss_pred             HHHhhchHHHHHHHHH
Confidence            7777777777765443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.82  E-value=2e-17  Score=148.04  Aligned_cols=345  Identities=9%  Similarity=-0.048  Sum_probs=232.6

Q ss_pred             CCCCCchHHHHHHHHhhhcccHHHHHHHHHhcccC----C---CCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcC
Q 042154           16 ATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDL----G---RFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKD   88 (377)
Q Consensus        16 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   88 (377)
                      +.+.....||.|...+...|++++|++.|++..+.    .   ..+....+|..+..+|...|++++|...++++.....
T Consensus        46 ~~~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~  125 (472)
T 4g1t_A           46 NREFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCE  125 (472)
T ss_dssp             C---CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhH
Confidence            34455778999999999999999999999887542    0   0123456899999999999999999999988765321


Q ss_pred             -------CCccchhHHHHHHHHc--cCCHHHHHHHHHhcCCCCCCccHHHHHHHHHH---HHhCCChhHHHHHHHhchhh
Q 042154           89 -------ISKEGFTARLIALYGK--AAMFENARKVFDEMPGRNCEQTVLSFNALLGA---CVNSKKFDEVDGLFKDLPHK  156 (377)
Q Consensus        89 -------~~~~~~~~~l~~~~~~--~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~  156 (377)
                             ......+.....++..  .+++++|...|++..+.. |-++..+..+..+   +...++.++|++.+++..+.
T Consensus       126 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l  204 (472)
T 4g1t_A          126 KFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRL  204 (472)
T ss_dssp             HSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHH
T ss_pred             hcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhc
Confidence                   1112334344444444  457999999999988764 3345555555444   44567888999999887654


Q ss_pred             cCCCc-CHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC
Q 042154          157 LGIEP-DLVSYNTIIKAFVD----KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRP  231 (377)
Q Consensus       157 ~~~~p-~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  231 (377)
                         .| +..++..+...+..    .+++++|.+.+++...... .+..++..+...|...|++++|...+++..+.. +.
T Consensus       205 ---~p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~  279 (472)
T 4g1t_A          205 ---NPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PN  279 (472)
T ss_dssp             ---CSSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TT
T ss_pred             ---CCcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CC
Confidence               34 44556555555544    4678899999999887643 477889999999999999999999999998765 33


Q ss_pred             CHHHHHHHHHHHHhc-------------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          232 NVRSYNARLDGLAIE-------------------KQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       232 ~~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      +..++..+...|...                   +..+.|...+++..... +.+...+..+...+...|++++|...|+
T Consensus       280 ~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~  358 (472)
T 4g1t_A          280 NAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQ  358 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHH
Confidence            556666666555322                   23567888888877652 2345678889999999999999999999


Q ss_pred             -hcCCCCCHH----HHHHHHH-HHHhcCChHHHHHHHHHHHhcCC-----------------------CCChhhHHHHHH
Q 042154          293 -KSGCGMNKA----IFKLLVP-FVCEKGDLDFAFNLCKRTFSERC-----------------------LVDQAPLQLVVD  343 (377)
Q Consensus       293 -~~~~~~~~~----~~~~l~~-~~~~~g~~~~a~~~~~~~~~~~~-----------------------~~~~~~~~~l~~  343 (377)
                       .....|+..    .+..+.. .+...|++++|+..|++.++...                       +.+..+|..+..
T Consensus       359 kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~  438 (472)
T 4g1t_A          359 KEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAF  438 (472)
T ss_dssp             HHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHH
T ss_pred             HHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence             333344432    2233332 34578999999999988876431                       235678999999


Q ss_pred             HHHhcCCHHHHHHHHHhhccCCce
Q 042154          344 RLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      +|...|++++|.+.|+++.+.+..
T Consensus       439 ~~~~~g~~~~A~~~y~kALe~~~~  462 (472)
T 4g1t_A          439 LQELNEKMQQADEDSERGLESGSL  462 (472)
T ss_dssp             HHHHHHHCC---------------
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCC
Confidence            999999999999999999987643

>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=99.81  E-value=6e-19  Score=150.61  Aligned_cols=266  Identities=12%  Similarity=0.151  Sum_probs=136.0

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      +++..|..|+.++.+.|++++|++.|.+.       +|..+|..++..+...|++++|+++++...+.  .++..+.+.+
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika-------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~L  100 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETEL  100 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC-------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHH
Confidence            55679999999999999999999999653       46678999999999999999999988877764  3445667789


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      +.+|.+.|+++++.++++.       |+..+|..+...|...|++++|...|..+          ..|..++.++.+.|+
T Consensus       101 i~~Y~Klg~l~e~e~f~~~-------pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n~~~LA~~L~~Lg~  163 (449)
T 1b89_A          101 IFALAKTNRLAELEEFING-------PNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGE  163 (449)
T ss_dssp             --------CHHHHTTTTTC-------C----------------CTTTHHHHHHHT----------TCHHHHHHHHHTTTC
T ss_pred             HHHHHHhCCHHHHHHHHcC-------CcHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hhHHHHHHHHHHhcc
Confidence            9999999999999887752       67789999999999999999999999977          259999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGE  258 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (377)
                      +++|.+.+.++      .++.+|..++.+|...|+++.|......+.   +.|+  ....++..|.+.|++++|..+++.
T Consensus       164 yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~~ad--~l~~lv~~Yek~G~~eEai~lLe~  232 (449)
T 1b89_A          164 YQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHAD--ELEELINYYQDRGYFEELITMLEA  232 (449)
T ss_dssp             HHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---TCHH--HHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---hCHh--hHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999988      278999999999999999999966555422   2343  355688999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhc--CCHHHHHHHHH-hcCCCC------CHHHHHHHHHHHHhcCChHHHHHH
Q 042154          259 MRSKEINPDVFTFYALIKGFVNE--GNLEEAKRWYN-KSGCGM------NKAIFKLLVPFVCEKGDLDFAFNL  322 (377)
Q Consensus       259 ~~~~g~~p~~~~~~~l~~~~~~~--~~~~~a~~~~~-~~~~~~------~~~~~~~l~~~~~~~g~~~~a~~~  322 (377)
                      ..... +-....|+.|.-.|++-  +++.+.++.|. ...++|      +...|.-+.-.|.+.++++.|...
T Consensus       233 aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t  304 (449)
T 1b89_A          233 ALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT  304 (449)
T ss_dssp             HTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH
Confidence            98654 44567788887777764  34555555555 555444      355788899999999999988764

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.81  E-value=6.7e-20  Score=168.73  Aligned_cols=119  Identities=18%  Similarity=0.207  Sum_probs=80.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH---CCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEK---KGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNAR  239 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  239 (377)
                      ..||+++|++|++.|++++|.++|++|.+   .|+.||..|||+||++|++.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            34677777777777777777777766543   356667777777777777777777777777777777777777777777


Q ss_pred             HHHHHhcCCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 042154          240 LDGLAIEKQT-KKALELVGEMRSKEINPDVFTFYALIKGFVNE  281 (377)
Q Consensus       240 ~~~~~~~~~~-~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~  281 (377)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|++++.++.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH
Confidence            7777776663 56667777777777777777777666554443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.79  E-value=2.4e-15  Score=136.51  Aligned_cols=201  Identities=6%  Similarity=-0.004  Sum_probs=134.7

Q ss_pred             HHHHHHHHHHHHH-------cCCHH-------HHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 042154          163 LVSYNTIIKAFVD-------KGSLD-------SANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       163 ~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  228 (377)
                      ...|...+..+.+       .|+++       +|..++++..+.-.+.+...|..++..+.+.|++++|..+|+++.+..
T Consensus       272 ~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~  351 (530)
T 2ooe_A          272 PDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE  351 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcc
Confidence            4455555555554       57766       788888888763223357777888888888888888888888888753


Q ss_pred             CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHH-hcCCCC-CHHHH
Q 042154          229 VRPN--VRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKG-FVNEGNLEEAKRWYN-KSGCGM-NKAIF  303 (377)
Q Consensus       229 ~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~-~~~~~~-~~~~~  303 (377)
                        |+  ...|..++..+.+.|++++|..+|++..+.. +.+...|...... +...|+.++|..+|+ .....| +...|
T Consensus       352 --p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~  428 (530)
T 2ooe_A          352 --DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYV  428 (530)
T ss_dssp             --SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             --ccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHH
Confidence              43  2467777777777888888888888887752 1122333222222 335788888888888 222223 56777


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCC-CC--hhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          304 KLLVPFVCEKGDLDFAFNLCKRTFSERCL-VD--QAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       304 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      ..++..+.+.|+.++|..+|++++..... |+  ...|...+......|+.+.+..+.+++.+.-+
T Consensus       429 ~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p  494 (530)
T 2ooe_A          429 LAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  494 (530)
T ss_dssp             HHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTH
T ss_pred             HHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            88888888888888888888888776422 21  23666677777778888888888877765443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.78  E-value=2.7e-19  Score=164.81  Aligned_cols=153  Identities=14%  Similarity=0.176  Sum_probs=124.8

Q ss_pred             ccHHHHHHHHHHHHhCCChhHHHHHHHhchh--hcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHH
Q 042154          125 QTVLSFNALLGACVNSKKFDEVDGLFKDLPH--KLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFN  202 (377)
Q Consensus       125 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  202 (377)
                      .-..+|+++|++|++.|++++|..+|++|.+  ..|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||+
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            4466899999999999999999999987642  23899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC------HHHHHHHH
Q 042154          203 TLLLGFYSNGR-FADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD------VFTFYALI  275 (377)
Q Consensus       203 ~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~------~~~~~~l~  275 (377)
                      ++|.++++.|+ .++|.++|++|.+.|+.||..+|+.++.++.+.    .+++..+++ .-+..|+      ..+...|.
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~  279 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLR  279 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHH
Confidence            99999999997 478999999999999999999999998766553    444444444 2234443      33444555


Q ss_pred             HHHHhcC
Q 042154          276 KGFVNEG  282 (377)
Q Consensus       276 ~~~~~~~  282 (377)
                      +.|.+.+
T Consensus       280 dl~s~d~  286 (1134)
T 3spa_A          280 DVYAKDG  286 (1134)
T ss_dssp             HHHCCCS
T ss_pred             HHHccCC
Confidence            5565544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.75  E-value=4.1e-16  Score=127.62  Aligned_cols=223  Identities=12%  Similarity=0.059  Sum_probs=116.4

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC--CC----HHhH
Q 042154          128 LSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIR--LD----LITF  201 (377)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~  201 (377)
                      ..+..+...+...|++++|+..|++..+. .  .+..++..+..++...|++++|.+.++++.+....  ++    ..++
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~-~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWEL-H--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-S--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHh-h--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            34455555555555555555555555443 2  44445555555555555555555555555442111  01    3455


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 042154          202 NTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNE  281 (377)
Q Consensus       202 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~  281 (377)
                      ..+...+...|++++|...|++..+..  |+.       ..+...|++++|...++++.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            555555555556666665555555432  331       22334455556666665555531 11234455555555566


Q ss_pred             CCHHHHHHHHH-hc-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 042154          282 GNLEEAKRWYN-KS-GCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVE  359 (377)
Q Consensus       282 ~~~~~a~~~~~-~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  359 (377)
                      |++++|...++ .. ..+.+...+..+..++...|++++|.+.++++++.... +...+..+..++.+.|++++|.+.++
T Consensus       153 ~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHH-HHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            66666666655 11 11224455555555666666666666666666554322 34555555666666666666666665


Q ss_pred             hhccC
Q 042154          360 LGKTN  364 (377)
Q Consensus       360 ~~~~~  364 (377)
                      ++.+.
T Consensus       232 ~a~~~  236 (258)
T 3uq3_A          232 AARTK  236 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            55543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.75  E-value=9.9e-17  Score=127.78  Aligned_cols=199  Identities=11%  Similarity=-0.044  Sum_probs=118.1

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      |+++..+..+...+.+.|++++|+..|+...+..  |.+...+..+...+.+.|++++|+..+++..+..+... ..+..
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~-~a~~~   78 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN--PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYL-GGYMV   78 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH-HHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcH-HHHHH
Confidence            6777888888888888888888888888887765  66777888888888888888888888888877654333 33345


Q ss_pred             HHHHHHcc-----------CCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHH
Q 042154           98 LIALYGKA-----------AMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSY  166 (377)
Q Consensus        98 l~~~~~~~-----------~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~  166 (377)
                      +...+...           |++++|+..|++..+.. |-+...+..+...+...|++++|+..|++..+. .  .+...+
T Consensus        79 lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~--~~~~~~  154 (217)
T 2pl2_A           79 LSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALAL-E--DTPEIR  154 (217)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C--CCHHHH
T ss_pred             HHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-c--cchHHH
Confidence            77777766           66666666666555443 223455555555555566666666666555443 2  444555


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHH
Q 042154          167 NTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETM  224 (377)
Q Consensus       167 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  224 (377)
                      ..+..++...|++++|...|+++.+... .+...+..+..++...|++++|...|++.
T Consensus       155 ~~la~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          155 SALAELYLSMGRLDEALAQYAKALEQAP-KDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            5555555555566665555555555422 24445555555555555555555555443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.75  E-value=6.8e-15  Score=133.55  Aligned_cols=338  Identities=8%  Similarity=0.007  Sum_probs=242.9

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR   97 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   97 (377)
                      |-+...|..++.. .+.|++++|..+|+.+.+..  |.+...|...+..+.+.|++++|.++|+++....+  +..++..
T Consensus        10 P~~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~--P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p--~~~lw~~   84 (530)
T 2ooe_A           10 PYDLDAWSILIRE-AQNQPIDKARKTYERLVAQF--PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVL--HIDLWKC   84 (530)
T ss_dssp             TTCHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCC--CHHHHHH
T ss_pred             CCCHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC--ChHHHHH
Confidence            5578899999984 78999999999999998864  77888999999999999999999999999998753  4445544


Q ss_pred             HHHH-HHccCCHHHHHH----HHHhcCC-CCCC-ccHHHHHHHHHHHHh---------CCChhHHHHHHHhchhhcCCCc
Q 042154           98 LIAL-YGKAAMFENARK----VFDEMPG-RNCE-QTVLSFNALLGACVN---------SKKFDEVDGLFKDLPHKLGIEP  161 (377)
Q Consensus        98 l~~~-~~~~~~~~~A~~----~~~~~~~-~~~~-~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~p  161 (377)
                      .+.. ....|+.++|.+    +|+.... .|.. ++...|...+....+         .|+++.|..+|++..+. ...+
T Consensus        85 ~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~-P~~~  163 (530)
T 2ooe_A           85 YLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN-PMIN  163 (530)
T ss_dssp             HHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS-CCTT
T ss_pred             HHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc-hhhh
Confidence            5542 334577766654    7776543 2433 456788888776655         68899999999998762 1111


Q ss_pred             CHHHHHHHHHHHH-------------HcCCHH------------------------------------------------
Q 042154          162 DLVSYNTIIKAFV-------------DKGSLD------------------------------------------------  180 (377)
Q Consensus       162 ~~~~~~~l~~~~~-------------~~~~~~------------------------------------------------  180 (377)
                      ....|........             +.++++                                                
T Consensus       164 ~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~  243 (530)
T 2ooe_A          164 IEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSN  243 (530)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcC
Confidence            1223322111000             011122                                                


Q ss_pred             ------------HHHHHHHHHHHCCCCCCHHhHHHHHHHHHc-------CCCHH-------HHHHHHHHHHhCCCCCCHH
Q 042154          181 ------------SANTLLYEMEKKGIRLDLITFNTLLLGFYS-------NGRFA-------DAEKIWETMVNMNVRPNVR  234 (377)
Q Consensus       181 ------------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~  234 (377)
                                  .+..+|+++.... +.+...|..++..+.+       .|+++       +|..+|++..+.-.+.+..
T Consensus       244 ~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~  322 (530)
T 2ooe_A          244 PLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNML  322 (530)
T ss_dssp             SSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHH
T ss_pred             CccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHH
Confidence                        3334444444431 2245566666666664       68876       8999999988632344678


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-H-HHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCC-HHHHHHHHHH-
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEINPD-V-FTFYALIKGFVNEGNLEEAKRWYN-KSGCGMN-KAIFKLLVPF-  309 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~-~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~-~~~~~~l~~~-  309 (377)
                      .|..++..+.+.|++++|..+|+++.+.  .|+ . ..|..++..+.+.|++++|.++|+ .....|+ ...|...+.. 
T Consensus       323 l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~  400 (530)
T 2ooe_A          323 LYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALME  400 (530)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            8999999999999999999999999985  454 3 578888888889999999999999 4443443 3333332222 


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          310 VCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       310 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      +...|++++|..+|++.++..+. ++..|..++..+.+.|+.++|..+|+++.+.+
T Consensus       401 ~~~~~~~~~A~~~~e~al~~~p~-~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          401 YYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSC
T ss_pred             HHHcCChhHHHHHHHHHHHHCCC-CHHHHHHHHHHHHhCCCHhhHHHHHHHHHhcc
Confidence            34689999999999999986433 67889999999999999999999999998864

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.75  E-value=5e-16  Score=123.69  Aligned_cols=198  Identities=15%  Similarity=0.017  Sum_probs=128.3

Q ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 042154          161 PDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARL  240 (377)
Q Consensus       161 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  240 (377)
                      ++...+..+...+.+.|++++|...|++..+... .+...+..+..++.+.|++++|+..|++..+.. +.+...+..+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENP-QDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            4455566666666667777777777766665532 255666666666667777777777777666554 23455666666


Q ss_pred             HHHHhc-----------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---hcCCCCCHHHHHHH
Q 042154          241 DGLAIE-----------KQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---KSGCGMNKAIFKLL  306 (377)
Q Consensus       241 ~~~~~~-----------~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---~~~~~~~~~~~~~l  306 (377)
                      ..+...           |++++|+..+++..+.. +-+...+..+..++...|++++|+..++   ...  .+...+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            666666           88888888888887752 2246677788888888888888888888   333  677778888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccC
Q 042154          307 VPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTN  364 (377)
Q Consensus       307 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  364 (377)
                      ..+|...|++++|+..|+++++..+. +...+..+..++.+.|++++|.+.+++...+
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  214 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAALEHHH  214 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC-----------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHhhc
Confidence            88888888888888888888886543 6677788888888888888888888876543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.73  E-value=5.8e-16  Score=126.69  Aligned_cols=224  Identities=12%  Similarity=0.064  Sum_probs=108.1

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCc------cchh
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISK------EGFT   95 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~   95 (377)
                      ..+..+...+...|++++|+..|+.+.+..   .+...+..+...+...|++++|++.++++....+...      ...+
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH---KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh---ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            345555556666666666666666655443   3445555666666666666666666665554322111      2333


Q ss_pred             HHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHH
Q 042154           96 ARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVD  175 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  175 (377)
                      ..+...+...|++++|...|++..+..  |+.       ..+.+.|++++|...++++...  .+.+...+..+...+..
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~  151 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYV--NPEKAEEARLEGKEYFT  151 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHH
Confidence            345555555555555555555554432  221       2233344455555555544321  11122344444455555


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          176 KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALEL  255 (377)
Q Consensus       176 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  255 (377)
                      .|++++|...++++.+... .+..++..+..++...|++++|...|++..+.. +.+...|..+...+...|++++|...
T Consensus       152 ~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  229 (258)
T 3uq3_A          152 KSDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALET  229 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            5555555555555544322 134444445555555555555555555544432 22344444444555555555555555


Q ss_pred             HHHHHh
Q 042154          256 VGEMRS  261 (377)
Q Consensus       256 ~~~~~~  261 (377)
                      +++..+
T Consensus       230 ~~~a~~  235 (258)
T 3uq3_A          230 LDAART  235 (258)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            544443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.73  E-value=4.9e-16  Score=128.52  Aligned_cols=245  Identities=11%  Similarity=0.000  Sum_probs=182.7

Q ss_pred             HccCCHHHHHHHHHhcCCCCC---CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCH
Q 042154          103 GKAAMFENARKVFDEMPGRNC---EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSL  179 (377)
Q Consensus       103 ~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  179 (377)
                      ...|++++|+..|+++.+...   +.+..++..+...+...|++++|...|++....  .+.+..+|..+...+...|++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHccCH
Confidence            345788888888888877531   124667888888899999999999999888764  233567888888999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 042154          180 DSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEM  259 (377)
Q Consensus       180 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  259 (377)
                      ++|.+.++++.+... .+...+..+..+|...|++++|...|+++.+..  |+.......+..+...|++++|...+++.
T Consensus        94 ~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCc-cccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            999999999887643 367788889999999999999999999988754  44444444555566779999999999887


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 042154          260 RSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMN-----KAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLV  333 (377)
Q Consensus       260 ~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  333 (377)
                      .... +++...+ .++..+...++.++|...++ .....|+     ...+..+..+|...|++++|...|+++.+..  |
T Consensus       171 ~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p  246 (275)
T 1xnf_A          171 FEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--V  246 (275)
T ss_dssp             HHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--C
T ss_pred             HhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--c
Confidence            7652 3343344 46777778888899998888 3333332     4678889999999999999999999998853  3


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHH
Q 042154          334 DQAPLQLVVDRLAKELRVEEAKELV  358 (377)
Q Consensus       334 ~~~~~~~l~~~~~~~g~~~~A~~~~  358 (377)
                      +.  +.....++...|++++|.+.+
T Consensus       247 ~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          247 HN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             TT--CHHHHHHHHHHHHHHHC----
T ss_pred             hh--HHHHHHHHHHHHHHHhhHHHH
Confidence            22  333466788889999988776

>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=99.72  E-value=1.3e-14  Score=119.87  Aligned_cols=216  Identities=13%  Similarity=0.006  Sum_probs=111.2

Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHhchhhcCCCcCHHHHHHHHHH
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN----SKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKA  172 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  172 (377)
                      .+...+...|++++|...|++..+.+   +..++..+...|..    .+++++|+..|++..+. +   +...+..+...
T Consensus        11 ~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~   83 (273)
T 1ouv_A           11 GLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDL-N---YSNGCHLLGNL   83 (273)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHH
Confidence            35555555555555555555555532   34445555555555    55555555555555433 2   44455555555


Q ss_pred             HHH----cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042154          173 FVD----KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYS----NGRFADAEKIWETMVNMNVRPNVRSYNARLDGLA  244 (377)
Q Consensus       173 ~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  244 (377)
                      +..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+...|.
T Consensus        84 ~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~  157 (273)
T 1ouv_A           84 YYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYD  157 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHH
Confidence            555    555555555555555542   44455555555555    555555555555555543   3344444555555


Q ss_pred             h----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHh---
Q 042154          245 I----EKQTKKALELVGEMRSKEINPDVFTFYALIKGFVN----EGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCE---  312 (377)
Q Consensus       245 ~----~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~---  312 (377)
                      .    .+++++|+..|++..+.+   +...+..+...|..    .+++++|.+.++ ..... +...+..+..+|..   
T Consensus       158 ~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-~~~a~~~l~~~~~~g~~  233 (273)
T 1ouv_A          158 AGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE-NGGGCFNLGAMQYNGEG  233 (273)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTSS
T ss_pred             cCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC-CHHHHHHHHHHHHcCCC
Confidence            4    555555555555555432   33444445555555    555555555555 11111 13444444555555   


Q ss_pred             -cCChHHHHHHHHHHHhc
Q 042154          313 -KGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       313 -~g~~~~a~~~~~~~~~~  329 (377)
                       .+++++|.+.|++..+.
T Consensus       234 ~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          234 VTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             SSCCSTTHHHHHHHHHHH
T ss_pred             cccCHHHHHHHHHHHHHc
Confidence             55555555555555544

>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=99.72  E-value=8.4e-14  Score=132.85  Aligned_cols=299  Identities=14%  Similarity=0.128  Sum_probs=171.9

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCC-CccchhhHHHHHHH---------------------------HHhc
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGR-FRTNTGIYTGTVQR---------------------------LANA   70 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~l~~~---------------------------~~~~   70 (377)
                      -+|.-....+++|...|.+.+|+++++++.-.+. +..+...-+.++..                           +...
T Consensus       983 ~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIkaD~~Rv~eyI~kLd~~d~~eIA~Iai~l 1062 (1630)
T 1xi4_A          983 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIANIAISN 1062 (1630)
T ss_pred             cCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHhChhhHHHHHHHhhhccHHHHHHHHHhC
Confidence            4566677788999999999999999999984331 11222333334433                           3344


Q ss_pred             CChHHHHHHHHHhhhhcCCCccchhHHHHHH-HHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHH
Q 042154           71 KRFRWIEEILEHQKQYKDISKEGFTARLIAL-YGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGL  149 (377)
Q Consensus        71 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  149 (377)
                      |.+++|..+|++...         +...+.. +-..+++++|.++.++..      +..+|..+..++.+.|++++|++.
T Consensus      1063 glyEEAf~IYkKa~~---------~~~A~~VLie~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~kEAIds 1127 (1630)
T 1xi4_A         1063 ELFEEAFAIFRKFDV---------NTSAVQVLIEHIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDS 1127 (1630)
T ss_pred             CCHHHHHHHHHHcCC---------HHHHHHHHHHHHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCHHHHHHH
Confidence            445555555544311         0011111 114445555555555431      245556666666666666666666


Q ss_pred             HHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCC
Q 042154          150 FKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNV  229 (377)
Q Consensus       150 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  229 (377)
                      |.+.       -|...|..++.++.+.|++++|.+.|....+..  +++...+.++.+|.+.++++.....    .+   
T Consensus      1128 YiKA-------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~f----I~--- 1191 (1630)
T 1xi4_A         1128 YIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEF----IN--- 1191 (1630)
T ss_pred             HHhc-------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHH----Hh---
Confidence            6443       244555666666666666666666666555543  2222233466666666665542222    11   


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 042154          230 RPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPF  309 (377)
Q Consensus       230 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~  309 (377)
                      .++...|..+...|...|++++|..+|...         ..|..+..++.+.|++++|.+.+++.   .+..+|..+..+
T Consensus      1192 ~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA---~n~~aWkev~~a 1259 (1630)
T 1xi4_A         1192 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA---NSTRTWKEVCFA 1259 (1630)
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh---CCHHHHHHHHHH
Confidence            234455555666666666666666666663         25666666666666666666666633   234555555556


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCC
Q 042154          310 VCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNS  365 (377)
Q Consensus       310 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  365 (377)
                      |...|++..|......     +..++..+..++..|.+.|.+++|..+++......
T Consensus      1260 cve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le 1310 (1630)
T 1xi4_A         1260 CVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE 1310 (1630)
T ss_pred             HhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Confidence            6666666665554332     23356667788888888888888888888876543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.72  E-value=2e-15  Score=124.63  Aligned_cols=236  Identities=10%  Similarity=0.005  Sum_probs=166.8

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCcc--chhHHH
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKE--GFTARL   98 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l   98 (377)
                      +..+......+...|++++|+..|+.+.+..  |.+...+..+...+...|++++|++.++++...+..+..  ..+..+
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~l   80 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK--YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYY   80 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT--CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHH
Confidence            4456667778888889999999988887765  456667888888888888888888888888774311111  124568


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      ...+...|++++|...|++..+.. +.+..++..+...|...|++++|+..|++..+.  .+.+...+..+...+...++
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~  157 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKE  157 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHH
Confidence            888888888888888888877654 345677888888888888888888888887643  22344566666634555568


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC---HHHHHHHHHHHHhCC-CCCC------HHHHHHHHHHHHhcCC
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR---FADAEKIWETMVNMN-VRPN------VRSYNARLDGLAIEKQ  248 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~~~  248 (377)
                      +++|.+.|+++.+... .+...+..+..++...|+   +++|...+++..+.. -.|+      ...|..+...|...|+
T Consensus       158 ~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  236 (272)
T 3u4t_A          158 YVKADSSFVKVLELKP-NIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRD  236 (272)
T ss_dssp             HHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCC
Confidence            8888888888877632 246666667777777776   777777777766431 1122      2456667777777888


Q ss_pred             HHHHHHHHHHHHhC
Q 042154          249 TKKALELVGEMRSK  262 (377)
Q Consensus       249 ~~~a~~~~~~~~~~  262 (377)
                      +++|...|++..+.
T Consensus       237 ~~~A~~~~~~al~~  250 (272)
T 3u4t_A          237 KVKADAAWKNILAL  250 (272)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc
Confidence            88888888887764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.70  E-value=1.5e-16  Score=131.68  Aligned_cols=250  Identities=8%  Similarity=-0.086  Sum_probs=162.5

Q ss_pred             HhhhcccHHHHHHHHHhcccCCCC--ccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCC
Q 042154           30 GIYKENNLKRLVDKFKKSSDLGRF--RTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAM  107 (377)
Q Consensus        30 ~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  107 (377)
                      .+...|++++|+..|+.+.+....  +.+..++..+...+...|++++|.+.++++....+. +...+..+...+...|+
T Consensus        14 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~   92 (275)
T 1xnf_A           14 PLQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGN   92 (275)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTC
T ss_pred             ccCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccC
Confidence            344568889999999888765311  225667888888888888888888888888776433 34445567888888888


Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 042154          108 FENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLY  187 (377)
Q Consensus       108 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  187 (377)
                      +++|...|++..+.. +.+..++..+...+...|++++|...|+++.+.   .|+.......+..+...|++++|...+.
T Consensus        93 ~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~A~~~~~  168 (275)
T 1xnf_A           93 FDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLK  168 (275)
T ss_dssp             HHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHhcCHHHHHHHHH
Confidence            888888888877654 335677777888888888888888888877654   3444444444455566678888888887


Q ss_pred             HHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 042154          188 EMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVR---PNVRSYNARLDGLAIEKQTKKALELVGEMRSKEI  264 (377)
Q Consensus       188 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~  264 (377)
                      +..... +++...+ .++..+...++.++|...+++.......   .+...+..+...|...|++++|...|++..+.  
T Consensus       169 ~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--  244 (275)
T 1xnf_A          169 QHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--  244 (275)
T ss_dssp             HHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--
T ss_pred             HHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--
Confidence            666542 2233333 3666666677777777777776654211   01355666677777777777777777777664  


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          265 NPDVFTFYALIKGFVNEGNLEEAKRW  290 (377)
Q Consensus       265 ~p~~~~~~~l~~~~~~~~~~~~a~~~  290 (377)
                      .|+.  +.....++...|++++|.+.
T Consensus       245 ~p~~--~~~~~~~~~~l~~~~~a~~~  268 (275)
T 1xnf_A          245 NVHN--FVEHRYALLELSLLGQDQDD  268 (275)
T ss_dssp             CCTT--CHHHHHHHHHHHHHHHC---
T ss_pred             Cchh--HHHHHHHHHHHHHHHhhHHH
Confidence            2321  11223344555666665544

>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=99.70  E-value=1e-14  Score=118.98  Aligned_cols=199  Identities=11%  Similarity=-0.016  Sum_probs=132.1

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 042154          127 VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLL  206 (377)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  206 (377)
                      ...+..+...+...|++++|...|+++...  .+.+..++..+...+...|++++|.+.++++.+... .+...+..+..
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~  113 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEI--DPSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGG  113 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHH
Confidence            556677777777777777777777777653  133455677777777777777777777777776532 25666777777


Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 042154          207 GFYSNGRFADAEKIWETMVNMNVRP-NVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLE  285 (377)
Q Consensus       207 ~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~  285 (377)
                      .|...|++++|.+.++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus       114 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~  192 (252)
T 2ho1_A          114 FLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYV  192 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHH
Confidence            7777777777777777776622223 34556666677777777777777777776642 224566666777777777777


Q ss_pred             HHHHHHH-hcC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          286 EAKRWYN-KSG-CGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       286 ~a~~~~~-~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      +|..+++ ... .+.+...+..+...+...|++++|.+.++++.+.
T Consensus       193 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          193 PARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            7777777 222 2334556666666777777777777777777664

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.69  E-value=8.7e-15  Score=120.80  Aligned_cols=239  Identities=13%  Similarity=0.068  Sum_probs=144.0

Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC--HHHHHHHHHHHH
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD--LVSYNTIIKAFV  174 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~  174 (377)
                      .....+...|++++|...|++..+.. +.+...+..+..++...|++++|+..+++.... ...|+  ..+|..+...+.
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-~~~~~~~~~~~~~lg~~~~   85 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSK-VNATKAKSADFEYYGKILM   85 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTT-SCTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-cCchhHHHHHHHHHHHHHH
Confidence            46666777777777777777776654 234446666777777777777777777776653 21222  223666677777


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 042154          175 DKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALE  254 (377)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  254 (377)
                      ..|++++|.+.++++.+.... +..++..+...|...|++++|...|++..+.. +.+...+..+...+...+++++|..
T Consensus        86 ~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  163 (272)
T 3u4t_A           86 KKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADS  163 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777665322 45666777777777777777777777766653 3345555555523334457777777


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHH----hcCCCCC------HHHHHHHHHHHHhcCChHHHHH
Q 042154          255 LVGEMRSKEINPDVFTFYALIKGFVNEGN---LEEAKRWYN----KSGCGMN------KAIFKLLVPFVCEKGDLDFAFN  321 (377)
Q Consensus       255 ~~~~~~~~g~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~----~~~~~~~------~~~~~~l~~~~~~~g~~~~a~~  321 (377)
                      .|+++.+.. +.+...+..+..++...|+   +++|...++    .....|+      ...|..+...|...|++++|.+
T Consensus       164 ~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  242 (272)
T 3u4t_A          164 SFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADA  242 (272)
T ss_dssp             HHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            777776642 2235555566666666665   555665555    1111122      1355566666677777777777


Q ss_pred             HHHHHHhcCCCCChhhHHHH
Q 042154          322 LCKRTFSERCLVDQAPLQLV  341 (377)
Q Consensus       322 ~~~~~~~~~~~~~~~~~~~l  341 (377)
                      .|+++.+..+. ++.....+
T Consensus       243 ~~~~al~~~p~-~~~a~~~l  261 (272)
T 3u4t_A          243 AWKNILALDPT-NKKAIDGL  261 (272)
T ss_dssp             HHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHhcCcc-HHHHHHHh
Confidence            77777665322 44444433

>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=99.69  E-value=4e-15  Score=121.42  Aligned_cols=201  Identities=8%  Similarity=0.031  Sum_probs=129.6

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHH
Q 042154           57 TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGA  136 (377)
Q Consensus        57 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  136 (377)
                      ...+..+...+...|++++|.+.++++....+. +...+..+...+...|++++|.+.|+++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            445566666666667777777777666655322 23344456666667777777777776665543 2355666666777


Q ss_pred             HHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHH
Q 042154          137 CVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFA  215 (377)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  215 (377)
                      +...|++++|...++++... +..| +...+..+...+...|++++|...++++.+... .+...+..+...+...|+++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~g~~~  192 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQD-TLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR-NQPSVALEMADLLYKEREYV  192 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTC-TTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhHHHHHHHHHHHHHhC-ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCCHH
Confidence            77777777777777766541 2334 344666666777777777777777777766532 24666677777777777777


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          216 DAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       216 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      +|...++++.+.. +.+...+..+...+...|++++|...++++.+.
T Consensus       193 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          193 PARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            7777777776654 345566666777777777777777777777664

>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=8.9e-14  Score=114.90  Aligned_cols=225  Identities=10%  Similarity=-0.029  Sum_probs=146.2

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHhH
Q 042154          126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVD----KGSLDSANTLLYEMEKKGIRLDLITF  201 (377)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  201 (377)
                      ++.++..+...+...|++++|+..|++..+    ..+..++..+...+..    .+++++|...|++..+.+   +...+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~----~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~   77 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACD----LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   77 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHH----CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            455666666667777777777777776654    2234556666666666    777777777777776654   55666


Q ss_pred             HHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 042154          202 NTLLLGFYS----NGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAI----EKQTKKALELVGEMRSKEINPDVFTFYA  273 (377)
Q Consensus       202 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~g~~p~~~~~~~  273 (377)
                      ..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|+..|++..+.+   +...+..
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  151 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTI  151 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHH
Confidence            666666766    777777777777776654   55666666666666    677777777777776654   4455566


Q ss_pred             HHHHHHh----cCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 042154          274 LIKGFVN----EGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCE----KGDLDFAFNLCKRTFSERCLVDQAPLQLVVDR  344 (377)
Q Consensus       274 l~~~~~~----~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  344 (377)
                      +...|..    .+++++|...++ ... ..+...+..+...|..    .+++++|++.|++..+.+   +...+..+..+
T Consensus       152 lg~~~~~~~~~~~~~~~A~~~~~~a~~-~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~  227 (273)
T 1ouv_A          152 LGSLYDAGRGTPKDLKKALASYDKACD-LKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAM  227 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHH-CCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHH
Confidence            6666666    677777777777 111 1244556666666666    777777777777776653   24556666666


Q ss_pred             HHh----cCCHHHHHHHHHhhccCCce
Q 042154          345 LAK----ELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       345 ~~~----~g~~~~A~~~~~~~~~~~~~  367 (377)
                      |.+    .|++++|.+.++++.+.++.
T Consensus       228 ~~~g~~~~~~~~~A~~~~~~a~~~~~~  254 (273)
T 1ouv_A          228 QYNGEGVTRNEKQAIENFKKGCKLGAK  254 (273)
T ss_dssp             HHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             HHcCCCcccCHHHHHHHHHHHHHcCCH
Confidence            766    67777777777776665543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.69  E-value=3e-14  Score=113.87  Aligned_cols=199  Identities=10%  Similarity=-0.017  Sum_probs=116.7

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHH
Q 042154          126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLL  205 (377)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  205 (377)
                      +...+..+...+...|++++|...|+++.+.  .+.+...+..+...+...|++++|.+.++++.+... .+..++..+.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~   83 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKS--DPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKP-DSAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CChHHHHHHH
Confidence            4555666666667777777777777666543  122345666666666666777777777666665432 2455666666


Q ss_pred             HHHHcC-CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 042154          206 LGFYSN-GRFADAEKIWETMVNMNVRP-NVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGN  283 (377)
Q Consensus       206 ~~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~  283 (377)
                      ..+... |++++|...++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCC
Confidence            666666 66666666666666522122 24455566666666666666666666665542 2235555666666666666


Q ss_pred             HHHHHHHHH-h-cCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          284 LEEAKRWYN-K-SGCG-MNKAIFKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       284 ~~~a~~~~~-~-~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      +++|..+++ . ...+ .+...+..+...+...|+.+.|..+++.+.+
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            666666666 1 1112 3444555555555666666666666666554

>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=99.69  E-value=3.9e-13  Score=128.37  Aligned_cols=301  Identities=11%  Similarity=0.119  Sum_probs=206.6

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      -++.+|..+..++.+.|++++|++.|.+.       .+...|..++..+.+.|++++|++.+....+..  ++....+.+
T Consensus      1103 n~p~vWsqLAKAql~~G~~kEAIdsYiKA-------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~L 1173 (1630)
T 1xi4_A         1103 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETEL 1173 (1630)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHhc-------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHH
Confidence            34677888888888888888888888654       255567778888888888888888887766654  222223347


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      +.+|++.+++++.....    +   .++...|..+...|...|++++|..+|...          ..|..+..++.+.|+
T Consensus      1174 afaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA----------~ny~rLA~tLvkLge 1236 (1630)
T 1xi4_A         1174 IFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGE 1236 (1630)
T ss_pred             HHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh----------hHHHHHHHHHHHhCC
Confidence            77888888777544332    1   245566667778888888888888888764          257788888888888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGE  258 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (377)
                      +++|.+.+++.      .+..+|..+..+|...|++..|......+.     .+...+..++..|.+.|.+++|+.+++.
T Consensus      1237 ~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~deLeeli~yYe~~G~feEAI~LlE~ 1305 (1630)
T 1xi4_A         1237 YQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEA 1305 (1630)
T ss_pred             HHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888888766      255777777788888888877777655422     3455667888889999999999999987


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHh--cCCHHHHHHHHH-hcCCCC------CHHHHHHHHHHHHhcCChHHHHHH-------
Q 042154          259 MRSKEINPDVFTFYALIKGFVN--EGNLEEAKRWYN-KSGCGM------NKAIFKLLVPFVCEKGDLDFAFNL-------  322 (377)
Q Consensus       259 ~~~~g~~p~~~~~~~l~~~~~~--~~~~~~a~~~~~-~~~~~~------~~~~~~~l~~~~~~~g~~~~a~~~-------  322 (377)
                      .+... +-....|..+...+++  -+++.++.++|. ...++|      +...|.-++-.|.+.|+++.|...       
T Consensus      1306 aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~ 1384 (1630)
T 1xi4_A         1306 ALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTD 1384 (1630)
T ss_pred             HhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHh
Confidence            77543 2234456556666655  345666666666 444433      456788888889999999988732       


Q ss_pred             ------HHHHHhcCCCCChhhHHHHHHHHHhcC---------------CHHHHHHHHH
Q 042154          323 ------CKRTFSERCLVDQAPLQLVVDRLAKEL---------------RVEEAKELVE  359 (377)
Q Consensus       323 ------~~~~~~~~~~~~~~~~~~l~~~~~~~g---------------~~~~A~~~~~  359 (377)
                            |++.+.  ...++..|...+.-|...+               +.+++.+++.
T Consensus      1385 a~~~~~Fk~~i~--kv~n~elyykai~Fyl~~~P~~lndLl~~l~~rlD~~R~V~l~~ 1440 (1630)
T 1xi4_A         1385 AWKEGQFKDIIT--KVANVELYYRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFS 1440 (1630)
T ss_pred             hhhhHHHHHHhc--ccccHHHHHHHHHHHHhhChHHHHHHHHHhhhcCChHHHHHHHH
Confidence                  222221  2336667776776666655               6666666665

>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=1e-14  Score=116.62  Aligned_cols=202  Identities=7%  Similarity=-0.055  Sum_probs=106.3

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLI   99 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   99 (377)
                      ++..+..+...+...|++++|+..|+.+.+..  +.+...+..+...+...|++++|.+.++++....+. +...+..+.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~   83 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD--PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPD-SAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-ChHHHHHHH
Confidence            35556666666666666666666666665543  344555666666666666666666666666554322 222333455


Q ss_pred             HHHHcc-CCHHHHHHHHHhcCCCCC-CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154          100 ALYGKA-AMFENARKVFDEMPGRNC-EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus       100 ~~~~~~-~~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      ..+... |++++|...++++.+.+. +.+...+..+...+...|++++|+..++++.+.  .+.+...+..+...+...|
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~  161 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAG  161 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcC
Confidence            555555 666666666655554111 112344555555555555555555555555432  1122344555555555555


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  226 (377)
                      ++++|...++++.+.....+...+..+...+...|+.+.|..+++.+.+
T Consensus       162 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            5555555555554432212344444444445555555555555555443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.67  E-value=5.9e-15  Score=119.58  Aligned_cols=199  Identities=12%  Similarity=0.083  Sum_probs=115.1

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 042154          127 VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLL  206 (377)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  206 (377)
                      ...|..+...+...|++++|...|+++.+.  .+.+...+..+...+...|++++|.+.++++.+... .+...+..+..
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~   99 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEE--NKEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGN   99 (243)
T ss_dssp             -------------------CCTTHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHH
Confidence            444555556666666666666666666532  223445666666666666677777666666665432 25566666666


Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 042154          207 GFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEE  286 (377)
Q Consensus       207 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~  286 (377)
                      .+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHH
Confidence            6777777777777777666543 2355566666667777777777777777766542 2345666667777777777777


Q ss_pred             HHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          287 AKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       287 a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      |...++  ....+.+..++..+..++...|++++|.+.++++.+..
T Consensus       178 A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          178 ALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            777777  11123345667777777777788888888887777754

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.67  E-value=1.5e-13  Score=122.77  Aligned_cols=308  Identities=9%  Similarity=-0.051  Sum_probs=215.4

Q ss_pred             CccchhhHHHHHHHHHhcCChHHHHHHHHHhhhh-----c---CCCccchhHHHHHHHHccCCHHHHHHHHHhcCCC---
Q 042154           53 FRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQY-----K---DISKEGFTARLIALYGKAAMFENARKVFDEMPGR---  121 (377)
Q Consensus        53 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---  121 (377)
                      .+.....|+.+...+...|++++|++.+++..+.     +   .+.....+..+..+|...|++++|...+++..+.   
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            3445678999999999999999999999987543     1   1122345667999999999999999998876431   


Q ss_pred             ----CCCccHHHHHHHHHHHHh--CCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHH---HHHcCCHHHHHHHHHHHHH
Q 042154          122 ----NCEQTVLSFNALLGACVN--SKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKA---FVDKGSLDSANTLLYEMEK  191 (377)
Q Consensus       122 ----~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~  191 (377)
                          .......++..+..++..  .+++++|+..|++..+.   .|+ +..+..+..+   +...++.++|++.+++..+
T Consensus       127 ~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~---~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~  203 (472)
T 4g1t_A          127 FSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK---KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIR  203 (472)
T ss_dssp             SCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHH
T ss_pred             cccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhh
Confidence                111235566666555554  45799999999998764   444 3444444444   4456788899999999887


Q ss_pred             CCCCCCHHhHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 042154          192 KGIRLDLITFNTLLLGFYS----NGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD  267 (377)
Q Consensus       192 ~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~  267 (377)
                      ... .+...+..+...+..    .|++++|.+.+++..... +.+...+..+...|...|++++|...+++..+.. +-+
T Consensus       204 l~p-~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~  280 (472)
T 4g1t_A          204 LNP-DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNN  280 (472)
T ss_dssp             HCS-SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTC
T ss_pred             cCC-cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CCh
Confidence            643 356666666555544    467889999999988765 4567888999999999999999999999998852 334


Q ss_pred             HHHHHHHHHHHHhc-------------------CCHHHHHHHHH-hcCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042154          268 VFTFYALIKGFVNE-------------------GNLEEAKRWYN-KSGCG-MNKAIFKLLVPFVCEKGDLDFAFNLCKRT  326 (377)
Q Consensus       268 ~~~~~~l~~~~~~~-------------------~~~~~a~~~~~-~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  326 (377)
                      ..++..+..+|...                   +..++|...++ ..... .+...+..+...+...|++++|++.|+++
T Consensus       281 ~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~ka  360 (472)
T 4g1t_A          281 AYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKE  360 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHH
Confidence            56677666665432                   23566777776 22223 34557888899999999999999999999


Q ss_pred             HhcCCCCChh--hHHHHHH-HHHhcCCHHHHHHHHHhhccCCc
Q 042154          327 FSERCLVDQA--PLQLVVD-RLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       327 ~~~~~~~~~~--~~~~l~~-~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      ++....+...  .+..+.. .+...|++++|.+.++++.+..+
T Consensus       361 L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~  403 (472)
T 4g1t_A          361 FSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQ  403 (472)
T ss_dssp             HHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCC
T ss_pred             HhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc
Confidence            9865443221  2333333 34578999999999999876554

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.67  E-value=1.7e-15  Score=122.80  Aligned_cols=201  Identities=10%  Similarity=0.058  Sum_probs=115.0

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLI   99 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   99 (377)
                      .+..|..+...+...|++++|+..|+++.+..  +.+...+..+...+...|++++|++.++++....+. +...+..+.
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la   98 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN--KEDAIPYINFANLLSSVNELERALAFYDKALELDSS-AATAYYGAG   98 (243)
T ss_dssp             --------------------CCTTHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc-chHHHHHHH
Confidence            45567777777888888888888888887654  556677777777788888888888888777665432 333444566


Q ss_pred             HHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCH
Q 042154          100 ALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSL  179 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  179 (377)
                      ..+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.  .+.+...+..+...+.+.|++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  175 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGML  175 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCH
Confidence            66777777777777777665543 334556666666666667777777666666543  122444566666666666666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          180 DSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       180 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                      ++|...++++.+... .+..++..+..+|...|++++|...++++.+.
T Consensus       176 ~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          176 DEALSQFAAVTEQDP-GHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            666666666655422 24555666666666666666666666666554

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.67  E-value=6.6e-15  Score=126.74  Aligned_cols=229  Identities=10%  Similarity=-0.004  Sum_probs=119.4

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCC-hHHHHHHHHHhhhhcCCCccchhHHHHH
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKR-FRWIEEILEHQKQYKDISKEGFTARLIA  100 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~  100 (377)
                      ..|..+...+.+.|++++|+..|+++.+..  |.+..+|..+..++...|+ +++|+..++++....+.. ...+..+..
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~--P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~-~~a~~~~g~  174 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKN-YQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTC-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCC-HHHHHHHHH
Confidence            345555555555666666666666665543  4445555566666666664 666666666655554332 223334555


Q ss_pred             HHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHH-cCCH
Q 042154          101 LYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVD-KGSL  179 (377)
Q Consensus       101 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~  179 (377)
                      ++...|++++|+..|+++++.. +-+..+|..+..++.+.|++++|+..|+++++.  -+-+...|+.+..++.. .|..
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcc
Confidence            5555666666666666655543 234555555555566666666666666655543  11234455555555555 3333


Q ss_pred             HHH-----HHHHHHHHHCCCCCCHHhHHHHHHHHHcCC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----
Q 042154          180 DSA-----NTLLYEMEKKGIRLDLITFNTLLLGFYSNG--RFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEK-----  247 (377)
Q Consensus       180 ~~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----  247 (377)
                      ++|     +..++++...... +...|..+..++...|  ++++|++.+.++ +.. +.+...+..+...|.+.|     
T Consensus       252 ~eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhccccc
Confidence            444     3555555544222 4445555555555555  355555555554 221 234445555555555442     


Q ss_pred             ----CHHHHHHHHHHH
Q 042154          248 ----QTKKALELVGEM  259 (377)
Q Consensus       248 ----~~~~a~~~~~~~  259 (377)
                          ..++|+.+|+++
T Consensus       329 ~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          329 NKEDILNKALELCEIL  344 (382)
T ss_dssp             SHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHH
Confidence                135555555555

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.66  E-value=2.5e-15  Score=131.44  Aligned_cols=299  Identities=13%  Similarity=0.012  Sum_probs=155.3

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccc----hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTN----TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT   95 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   95 (377)
                      ....+......+...|++++|+..|+.+.+..  +.+    ..++..+...+...|++++|...++++......      
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~------   79 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLART------   79 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHh------
Confidence            33445555556666666666666666665543  222    234555555556666666666665554332100      


Q ss_pred             HHHHHHHHccCCHHHHHHHHHhcCCCCC-CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC----HHHHHHHH
Q 042154           96 ARLIALYGKAAMFENARKVFDEMPGRNC-EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD----LVSYNTII  170 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~  170 (377)
                                               .+- +....++..+...+...|++++|...+++......-.++    ..++..+.
T Consensus        80 -------------------------~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  134 (406)
T 3sf4_A           80 -------------------------IGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLG  134 (406)
T ss_dssp             -------------------------TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             -------------------------ccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHH
Confidence                                     000 011223444444444455555554444443321000001    22444555


Q ss_pred             HHHHHcCC--------------------HHHHHHHHHHHHHC----CC-CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 042154          171 KAFVDKGS--------------------LDSANTLLYEMEKK----GI-RLDLITFNTLLLGFYSNGRFADAEKIWETMV  225 (377)
Q Consensus       171 ~~~~~~~~--------------------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  225 (377)
                      ..+...|+                    +++|.+.+.+..+.    +. .....++..+...|...|++++|...+++..
T Consensus       135 ~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  214 (406)
T 3sf4_A          135 NVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRL  214 (406)
T ss_dssp             HHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHH
T ss_pred             HHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            55555555                    55555555554321    11 1112345566666666677777766666655


Q ss_pred             hCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH---
Q 042154          226 NMNV-RPN----VRSYNARLDGLAIEKQTKKALELVGEMRSK----EINPD-VFTFYALIKGFVNEGNLEEAKRWYN---  292 (377)
Q Consensus       226 ~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~---  292 (377)
                      +... .++    ..++..+...|...|++++|...+++..+.    +..+. ..++..+...|...|++++|...++   
T Consensus       215 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  294 (406)
T 3sf4_A          215 LIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHL  294 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence            3210 011    235666666677777777777777666542    11111 3456667777777777777777777   


Q ss_pred             ----hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC--C---CCChhhHHHHHHHHHhcCCH
Q 042154          293 ----KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER--C---LVDQAPLQLVVDRLAKELRV  351 (377)
Q Consensus       293 ----~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~---~~~~~~~~~l~~~~~~~g~~  351 (377)
                          ..+..+ ...++..+..+|...|++++|.+.+++..+..  .   .....++..+...+...|+.
T Consensus       295 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          295 AIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence                111111 13456677777888888888888887766541  1   11133556666677766654

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.66  E-value=1.3e-15  Score=133.37  Aligned_cols=265  Identities=11%  Similarity=0.041  Sum_probs=158.9

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcccC----CCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCc-----
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSSDL----GRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISK-----   91 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----   91 (377)
                      ...+..+...+...|++++|+..|+++.+.    +..+....++..+...+...|++++|...+++.........     
T Consensus        47 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  126 (406)
T 3sf4_A           47 SAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGE  126 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccch
Confidence            357888999999999999999999987542    21122355777888888888999999988888766532111     


Q ss_pred             cchhHHHHHHHHccCC--------------------HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHH
Q 042154           92 EGFTARLIALYGKAAM--------------------FENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFK  151 (377)
Q Consensus        92 ~~~~~~l~~~~~~~~~--------------------~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  151 (377)
                      ...+..+...|...|+                    +++|...+++..+                            ++.
T Consensus       127 ~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~----------------------------~~~  178 (406)
T 3sf4_A          127 ARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLS----------------------------LVT  178 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHH----------------------------HHH
T ss_pred             HHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHH----------------------------HHH
Confidence            1133345555555555                    4444443333211                            111


Q ss_pred             hchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----HHhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 042154          152 DLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGI-RLD----LITFNTLLLGFYSNGRFADAEKIWETMV  225 (377)
Q Consensus       152 ~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~  225 (377)
                      ..    +..| ...++..+...+...|++++|...+++..+... .++    ..++..+...|...|++++|...+++..
T Consensus       179 ~~----~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  254 (406)
T 3sf4_A          179 AL----GDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTL  254 (406)
T ss_dssp             HT----TCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hc----cCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            11    1111 123566666667777777777777766653210 011    2356667777777777777777777665


Q ss_pred             hC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH---
Q 042154          226 NM----NVRP-NVRSYNARLDGLAIEKQTKKALELVGEMRSK----EINP-DVFTFYALIKGFVNEGNLEEAKRWYN---  292 (377)
Q Consensus       226 ~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~---  292 (377)
                      +.    +..+ ...++..+...|...|++++|...+++..+.    +..+ ...++..+...|...|++++|.+.++   
T Consensus       255 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  334 (406)
T 3sf4_A          255 LLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  334 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            32    1000 1345666777777788888888777776543    1111 14466677777888888888888777   


Q ss_pred             ----hcCCCC-CHHHHHHHHHHHHhcCChH
Q 042154          293 ----KSGCGM-NKAIFKLLVPFVCEKGDLD  317 (377)
Q Consensus       293 ----~~~~~~-~~~~~~~l~~~~~~~g~~~  317 (377)
                          ..+..+ ...++..+...+...|+..
T Consensus       335 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          335 EISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence                222112 2335556666666666553

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.65  E-value=6.7e-14  Score=124.07  Aligned_cols=319  Identities=10%  Similarity=0.036  Sum_probs=191.5

Q ss_pred             HHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCCh---HHHHHHHHHhhhhcCCCccchhHHHHHHHH
Q 042154           27 VIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRF---RWIEEILEHQKQYKDISKEGFTARLIALYG  103 (377)
Q Consensus        27 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  103 (377)
                      +...+.+.|++++|++.|++..+.+    +...+..+...+...|+.   ++|.++|++....   .....+ .+...+.
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g----~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~---~~~A~~-~Lg~~~~   80 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG----YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT---SPRAQA-RLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT----CCTGGGTCC-------------------------------CHH-HHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC---CHHHHH-HHHHHHH
Confidence            3445555666666666666665443    222333444444445555   5666666655543   112222 2444333


Q ss_pred             ccC-----CHHHHHHHHHhcCCCCCCc--------------------------------cHHHHHHHHHHHHhCCChhHH
Q 042154          104 KAA-----MFENARKVFDEMPGRNCEQ--------------------------------TVLSFNALLGACVNSKKFDEV  146 (377)
Q Consensus       104 ~~~-----~~~~A~~~~~~~~~~~~~~--------------------------------~~~~~~~l~~~~~~~~~~~~a  146 (377)
                      ..+     +.++|...|++..+.|.+.                                ++..+..+...|...+.++++
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~  160 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQH  160 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccC
Confidence            333     5556666666555444111                                122333333444444433333


Q ss_pred             HHHHHhchhhcCCCcCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC----CCHHHHHH
Q 042154          147 DGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG---SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN----GRFADAEK  219 (377)
Q Consensus       147 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~  219 (377)
                      ......+.+. ....++..+..+...|...|   +.++|++.|++..+.|.. +...+..+...|...    +++++|..
T Consensus       161 ~~~a~~~~~~-a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~  238 (452)
T 3e4b_A          161 LDDVERICKA-ALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQA  238 (452)
T ss_dssp             HHHHHHHHHH-HTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHH
T ss_pred             HHHHHHHHHH-HHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHH
Confidence            3322222111 11223347788888888889   899999999999988753 666556677777654    68999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHH-H--HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----CHHHHHHHH
Q 042154          220 IWETMVNMNVRPNVRSYNARLDG-L--AIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEG-----NLEEAKRWY  291 (377)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~-----~~~~a~~~~  291 (377)
                      .|++.. .|   +...+..+... +  ...+++++|+.+|++..+.|   +...+..|...|. .|     ++++|.++|
T Consensus       239 ~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~  310 (452)
T 3e4b_A          239 LLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHF  310 (452)
T ss_dssp             HHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHH
T ss_pred             HHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHH
Confidence            999987 43   44566666666 3  46889999999999998876   6667777777776 55     999999999


Q ss_pred             HhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHhhcc
Q 042154          292 NKSGCGMNKAIFKLLVPFVCE----KGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAK----ELRVEEAKELVELGKT  363 (377)
Q Consensus       292 ~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~  363 (377)
                      +..- .-+...+..|...|..    ..++++|...|++..+.|   ++.....|...|..    ..+.++|..+++.+.+
T Consensus       311 ~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~  386 (452)
T 3e4b_A          311 EKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKA  386 (452)
T ss_dssp             HTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHT
T ss_pred             HHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHH
Confidence            9443 6677788888877776    448999999999998865   34566677777764    4589999999999988


Q ss_pred             CCce
Q 042154          364 NSYC  367 (377)
Q Consensus       364 ~~~~  367 (377)
                      .|.+
T Consensus       387 ~g~~  390 (452)
T 3e4b_A          387 QDTP  390 (452)
T ss_dssp             TCCH
T ss_pred             CCCH
Confidence            8754

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.64  E-value=1.2e-14  Score=128.81  Aligned_cols=284  Identities=11%  Similarity=0.040  Sum_probs=171.5

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCH---HHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 042154           62 GTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMF---ENARKVFDEMPGRNCEQTVLSFNALLGACV  138 (377)
Q Consensus        62 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  138 (377)
                      .+...+.+.|++++|.++|++..+.+.  ....+ .+...|...|+.   ++|...|++..+.    ++..+..+...+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g~--~~A~~-~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELGY--SEAQV-GLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTC--CTGGG-TCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCCC--HHHHH-HHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            466777889999999999999887653  22333 467777778888   8999999998864    4556666666555


Q ss_pred             hCC-----ChhHHHHHHHhchhhcCCCc--------------------------------CHHHHHHHHHHHHHcCCH--
Q 042154          139 NSK-----KFDEVDGLFKDLPHKLGIEP--------------------------------DLVSYNTIIKAFVDKGSL--  179 (377)
Q Consensus       139 ~~~-----~~~~a~~~~~~~~~~~~~~p--------------------------------~~~~~~~l~~~~~~~~~~--  179 (377)
                      ..+     ++++|+.+|++..+. |...                                +...+..+...|...+.+  
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~-g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~  159 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFAN-GEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQ  159 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHT-TCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCccc
Confidence            554     678999999887653 3211                                111222222333333322  


Q ss_pred             --HHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CCHH
Q 042154          180 --DSANTLLYEMEKKGIRLDLITFNTLLLGFYSNG---RFADAEKIWETMVNMNVRPNVRSYNARLDGLAIE----KQTK  250 (377)
Q Consensus       180 --~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~  250 (377)
                        +.+..++.....    .+...+..+...|...|   +.++|++.|++..+.| .++...+..+...|...    ++++
T Consensus       160 ~~~~a~~~~~~a~~----~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~  234 (452)
T 3e4b_A          160 HLDDVERICKAALN----TTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEK  234 (452)
T ss_dssp             GHHHHHHHHHHHTT----TCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHH
T ss_pred             CHHHHHHHHHHHHc----CCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHH
Confidence              223333333322    23336777888888888   8889999999988887 35555556677777554    6889


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHH-H--HhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-----ChHHHHHH
Q 042154          251 KALELVGEMRSKEINPDVFTFYALIKG-F--VNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKG-----DLDFAFNL  322 (377)
Q Consensus       251 ~a~~~~~~~~~~g~~p~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~a~~~  322 (377)
                      +|+.+|++.. .|   +...+..|... +  ...+++++|.+++++.--.-+...+..|...|. .|     ++++|.+.
T Consensus       235 ~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~  309 (452)
T 3e4b_A          235 TAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAADQPRAELLLGKLYY-EGKWVPADAKAAEAH  309 (452)
T ss_dssp             HHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HCSSSCCCHHHHHHH
T ss_pred             HHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-cCCCCCCCHHHHHHH
Confidence            9999999887 33   44555556655 3  458899999999991111226667777777776 55     89999999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHhhccCCce
Q 042154          323 CKRTFSERCLVDQAPLQLVVDRLAK----ELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       323 ~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~  367 (377)
                      |++.. .   -++..+..|...|..    ..++++|.++++++.+.|.+
T Consensus       310 ~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  354 (452)
T 3e4b_A          310 FEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQN  354 (452)
T ss_dssp             HHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCT
T ss_pred             HHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChH
Confidence            98877 2   366677777777776    33889999999998887653

>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=99.64  E-value=4.8e-14  Score=121.41  Aligned_cols=232  Identities=10%  Similarity=0.046  Sum_probs=168.4

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHCCCCCCHHhHHHH
Q 042154          127 VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGS-LDSANTLLYEMEKKGIRLDLITFNTL  204 (377)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l  204 (377)
                      ..+|..+...+.+.|++++|+..|++.+..   .| +..+|+.+..++...|+ +++|+..|+++.+.... +...|..+
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l---~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~  172 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIEL---NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHR  172 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh---CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHH
Confidence            456777777788888888888888887754   34 45577777888888885 88888888888876443 67778888


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCC
Q 042154          205 LLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVN-EGN  283 (377)
Q Consensus       205 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~-~~~  283 (377)
                      ..++...|++++|+..|+++++.. +-+...|..+..++...|++++|+..++++++.. +-+...|+.+..++.. .|.
T Consensus       173 g~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~  250 (382)
T 2h6f_A          173 RVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGY  250 (382)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCc
Confidence            888888888888888888888765 3466778888888888888888888888888753 2356777778777777 555


Q ss_pred             HHHH-----HHHHH-hcCCCC-CHHHHHHHHHHHHhcC--ChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-----
Q 042154          284 LEEA-----KRWYN-KSGCGM-NKAIFKLLVPFVCEKG--DLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKEL-----  349 (377)
Q Consensus       284 ~~~a-----~~~~~-~~~~~~-~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----  349 (377)
                      .++|     +..++ .....| +...|..+..++...|  ++++|++.+.++ +.. ..+...+..++.+|.+.|     
T Consensus       251 ~~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          251 NDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             CSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             chHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhccccc
Confidence            4666     35566 333334 5667887887788777  578888888877 332 335667778888888764     


Q ss_pred             ---C-HHHHHHHHHhh-ccCCc
Q 042154          350 ---R-VEEAKELVELG-KTNSY  366 (377)
Q Consensus       350 ---~-~~~A~~~~~~~-~~~~~  366 (377)
                         + .++|.++++++ .+.++
T Consensus       329 ~~~~~~~~A~~~~~~l~~~~DP  350 (382)
T 2h6f_A          329 NKEDILNKALELCEILAKEKDT  350 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTCG
T ss_pred             chHHHHHHHHHHHHHHHHHhCc
Confidence               2 57888888888 55544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.64  E-value=4.8e-15  Score=130.08  Aligned_cols=273  Identities=15%  Similarity=0.027  Sum_probs=180.4

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCcc---chhHHHHHHHHccCCHHHHHHHHHhcCCC----C-CCccHH
Q 042154           57 TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKE---GFTARLIALYGKAAMFENARKVFDEMPGR----N-CEQTVL  128 (377)
Q Consensus        57 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~-~~~~~~  128 (377)
                      ...+..+...+...|++++|++.++++.+..+....   ..+..+...|...|++++|...|++..+.    + .+....
T Consensus        48 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           48 CLELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            344555666777778888888888777766433221   24456777777778888887777765432    1 122355


Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHhchhhc---CCCc-CHHHHHHHHHHHHHcCC-----------------HHHHHHHHH
Q 042154          129 SFNALLGACVNSKKFDEVDGLFKDLPHKL---GIEP-DLVSYNTIIKAFVDKGS-----------------LDSANTLLY  187 (377)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~p-~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~  187 (377)
                      ++..+...|...|++++|...+++.....   +-.| ...++..+...+...|+                 +++|.+.++
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            67777778888888888888887765421   1112 23467777788888888                 888888877


Q ss_pred             HHHHC----CC-CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          188 EMEKK----GI-RLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVR-PN----VRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       188 ~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      +..+.    +. .....++..+...|...|++++|...+++..+.... ++    ...+..+...|...|++++|...++
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYK  287 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            76542    11 112346777788888888888888888877643100 11    2367777788888888888888888


Q ss_pred             HHHhCCC----C-CCHHHHHHHHHHHHhcCCHHHHHHHHH-------hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHH
Q 042154          258 EMRSKEI----N-PDVFTFYALIKGFVNEGNLEEAKRWYN-------KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCK  324 (377)
Q Consensus       258 ~~~~~g~----~-p~~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~  324 (377)
                      +..+...    . ....++..+...+...|++++|..+++       ..+..+ ...++..+..+|...|++++|.+.++
T Consensus       288 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  367 (411)
T 4a1s_A          288 RTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAE  367 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            7765310    0 114566777788888888888888887       111111 13466677778888888888888888


Q ss_pred             HHHhc
Q 042154          325 RTFSE  329 (377)
Q Consensus       325 ~~~~~  329 (377)
                      +..+.
T Consensus       368 ~al~~  372 (411)
T 4a1s_A          368 QHLQL  372 (411)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.63  E-value=6e-15  Score=129.46  Aligned_cols=267  Identities=11%  Similarity=-0.018  Sum_probs=204.5

Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccH----HHHHHHHHHHHhCCChhHHHHHHHhchhhc---CCCc-CHHHHHH
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTV----LSFNALLGACVNSKKFDEVDGLFKDLPHKL---GIEP-DLVSYNT  168 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~p-~~~~~~~  168 (377)
                      .+...+...|++++|...|++..+.+ +.+.    ..+..+...|...|++++|+..+++..+..   +..| ...++..
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  131 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGN  131 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHH
Confidence            57778899999999999999988764 2232    478888999999999999999998875431   1122 3457888


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHC----C-CCCCHHhHHHHHHHHHcCCC-----------------HHHHHHHHHHHHh
Q 042154          169 IIKAFVDKGSLDSANTLLYEMEKK----G-IRLDLITFNTLLLGFYSNGR-----------------FADAEKIWETMVN  226 (377)
Q Consensus       169 l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~~~~  226 (377)
                      +...+...|++++|...++++.+.    + ......++..+...|...|+                 +++|...+++..+
T Consensus       132 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  211 (411)
T 4a1s_A          132 LGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLK  211 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHH
Confidence            899999999999999999987753    1 12235578888899999999                 9999999987754


Q ss_pred             C----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHH----
Q 042154          227 M----NV-RPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEI-NPD----VFTFYALIKGFVNEGNLEEAKRWYN----  292 (377)
Q Consensus       227 ~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~----  292 (377)
                      .    +. ......+..+...|...|++++|...+++..+... .++    ...+..+...|...|++++|.+.++    
T Consensus       212 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  291 (411)
T 4a1s_A          212 LMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLA  291 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            2    11 11234778888999999999999999999876411 012    2377888999999999999999998    


Q ss_pred             ---hcCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-----CChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          293 ---KSGCG-MNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCL-----VDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       293 ---~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                         ..+.. ....++..+...+...|++++|.+.+++.++....     ....++..+..+|.+.|++++|.+.++++.+
T Consensus       292 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          292 LAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence               11111 12457788899999999999999999998765211     1134778899999999999999999998765


Q ss_pred             C
Q 042154          364 N  364 (377)
Q Consensus       364 ~  364 (377)
                      .
T Consensus       372 ~  372 (411)
T 4a1s_A          372 L  372 (411)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.62  E-value=1.7e-14  Score=122.66  Aligned_cols=62  Identities=8%  Similarity=-0.098  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCC-----CCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTFSERC-----LVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      ++..+...+...|++++|...++++.+...     .....++..+...|.+.|++++|.+.++++.+
T Consensus       265 ~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          265 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            344444455555555555555555443210     00122444555555555555555555555543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.62  E-value=5e-14  Score=122.46  Aligned_cols=297  Identities=9%  Similarity=-0.047  Sum_probs=158.9

Q ss_pred             hhcccHHHHHHHHHhcccCC-CC--ccchhhHHHHHHHH--HhcCChHHHH-----------HHHHHhhhhcCCCcc---
Q 042154           32 YKENNLKRLVDKFKKSSDLG-RF--RTNTGIYTGTVQRL--ANAKRFRWIE-----------EILEHQKQYKDISKE---   92 (377)
Q Consensus        32 ~~~~~~~~A~~~~~~~~~~~-~~--~~~~~~~~~l~~~~--~~~~~~~~a~-----------~~~~~~~~~~~~~~~---   92 (377)
                      .+.+++++|..+++.+.+.- ..  .++...|-.++..-  .-.++++.+.           +.++.+.......+.   
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            45888999999988875421 12  12223333333221  1123333333           455544332111110   


Q ss_pred             -chhHHHHHHHHccCCHHHHHHHHHhcCCC----CCCc-cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC----
Q 042154           93 -GFTARLIALYGKAAMFENARKVFDEMPGR----NCEQ-TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD----  162 (377)
Q Consensus        93 -~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----  162 (377)
                       .++-.....+...|++++|...|++..+.    +-++ ...++..+...|...|++++|+..+++..+...-.++    
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             01112555667778888888887776553    1111 2456677777777777777777777766542111111    


Q ss_pred             -HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC-CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHh-----CCCCC
Q 042154          163 -LVSYNTIIKAFVDKGSLDSANTLLYEMEKK----GI-RLDLITFNTLLLGFYSNGRFADAEKIWETMVN-----MNVRP  231 (377)
Q Consensus       163 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~  231 (377)
                       ..+++.+...|...|++++|...+++..+.    +. .....++..+..+|...|++++|...+++..+     ...+.
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             235666667777777777777777766532    10 01123566666677777777777777766654     22122


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHhcCCCCCH-HHH
Q 042154          232 NVRSYNARLDGLAIEKQTKKALELVGEMRSK----EINPDVFTFYALIKGFVNEGN---LEEAKRWYNKSGCGMNK-AIF  303 (377)
Q Consensus       232 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~-~~~  303 (377)
                      ...++..+...|...|++++|...+++..+.    +-+.....+..+...+...|+   .++|..+++..+..|+. ..+
T Consensus       263 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~  342 (383)
T 3ulq_A          263 LPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFA  342 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            3455666666666777777777666665542    111111223445555555555   55555555533322222 244


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          304 KLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       304 ~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      ..+...|...|++++|.+.+++..+
T Consensus       343 ~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          343 IDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4555566666666666666655544

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.62  E-value=4.4e-14  Score=122.76  Aligned_cols=293  Identities=11%  Similarity=0.009  Sum_probs=203.6

Q ss_pred             HHHhcCChHHHHHHHHHhhhhcCC--Cccc--hhHHHHH--HHHccCCHHHHH-----------HHHHhcCCCCCCccHH
Q 042154           66 RLANAKRFRWIEEILEHQKQYKDI--SKEG--FTARLIA--LYGKAAMFENAR-----------KVFDEMPGRNCEQTVL  128 (377)
Q Consensus        66 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~--~~~~l~~--~~~~~~~~~~A~-----------~~~~~~~~~~~~~~~~  128 (377)
                      .+.+.+++++|..+++++.+.-..  .+..  .|-.++.  ...-.++++.+.           +.++.+....  .+..
T Consensus        21 ~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~   98 (383)
T 3ulq_A           21 MYIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLT   98 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHH
T ss_pred             HHHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCch
Confidence            345689999999999998765322  2222  1112221  112223333343           5555553321  1222


Q ss_pred             H------HHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--C--
Q 042154          129 S------FNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD----LVSYNTIIKAFVDKGSLDSANTLLYEMEKKG--I--  194 (377)
Q Consensus       129 ~------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~--  194 (377)
                      .      +......+...|++++|+..|++........++    ..++..+...+...|+++.|...+.+..+.-  .  
T Consensus        99 ~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~  178 (383)
T 3ulq_A           99 GLLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEA  178 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCST
T ss_pred             hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcc
Confidence            2      222556688899999999999988653211222    3578889999999999999999999887531  1  


Q ss_pred             --CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----C
Q 042154          195 --RLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNV-RPN----VRSYNARLDGLAIEKQTKKALELVGEMRSK----E  263 (377)
Q Consensus       195 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g  263 (377)
                        .....++..+...|...|++++|...|++..+... .++    ..++..+...|...|++++|...+++..+.    +
T Consensus       179 ~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~  258 (383)
T 3ulq_A          179 YNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESN  258 (383)
T ss_dssp             THHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             chHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhc
Confidence              11245788889999999999999999998874310 011    247888999999999999999999998772    2


Q ss_pred             C-CCCHHHHHHHHHHHHhcCCHHHHHHHHH-------hcCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHhcCCC
Q 042154          264 I-NPDVFTFYALIKGFVNEGNLEEAKRWYN-------KSGCGMNKAIFKLLVPFVCEKGD---LDFAFNLCKRTFSERCL  332 (377)
Q Consensus       264 ~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~  332 (377)
                      . +....++..+...+...|++++|...++       ..+.+.....+..+...+...|+   +++|+.++++.   +..
T Consensus       259 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~  335 (383)
T 3ulq_A          259 ILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLY  335 (383)
T ss_dssp             CGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCH
T ss_pred             cchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCH
Confidence            3 3345678899999999999999999998       22222222345678888999999   77777777765   222


Q ss_pred             C-ChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          333 V-DQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       333 ~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      | ....+..+...|...|++++|.+.++++.+
T Consensus       336 ~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          336 ADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            2 234677899999999999999999998765

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.60  E-value=8.2e-13  Score=111.11  Aligned_cols=218  Identities=9%  Similarity=-0.036  Sum_probs=125.8

Q ss_pred             HHHHHHHHhcccCCCCccchhhHHHHHHHHHh-------cCCh-------HHHHHHHHHhhhhcCCCccchhHHHHHHHH
Q 042154           38 KRLVDKFKKSSDLGRFRTNTGIYTGTVQRLAN-------AKRF-------RWIEEILEHQKQYKDISKEGFTARLIALYG  103 (377)
Q Consensus        38 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  103 (377)
                      ++|+..|+++....  |.++..|..++..+..       .|++       ++|..+|++....-.+.+...+..++..+.
T Consensus        33 ~~a~~~~~~al~~~--p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVL--GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            56777777776653  5566667666666543       3554       667777766665212223334445666666


Q ss_pred             ccCCHHHHHHHHHhcCCCCCCcc-HH-HHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHH-HcCCHH
Q 042154          104 KAAMFENARKVFDEMPGRNCEQT-VL-SFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFV-DKGSLD  180 (377)
Q Consensus       104 ~~~~~~~A~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~~~~~  180 (377)
                      +.|++++|..+|++..+..  |+ .. +|..++..+.+.|++++|..+|++..+.  .+++...|........ ..|+++
T Consensus       111 ~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~  186 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAIE--DIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKS  186 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSS--SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHH
T ss_pred             hcCCHHHHHHHHHHHHhcc--ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHH
Confidence            6677777777777666543  32 22 5666666666666666776666666542  1122333333222211 246666


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          181 SANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN-VRP--NVRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       181 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      +|.++|+.+.+... .+...|..++..+.+.|++++|..+|++..... ++|  ....|..++..+.+.|+.+.|..+++
T Consensus       187 ~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~  265 (308)
T 2ond_A          187 VAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEK  265 (308)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            66666666665422 245566666666666666666666666666642 233  34456666666666666666666666


Q ss_pred             HHHhC
Q 042154          258 EMRSK  262 (377)
Q Consensus       258 ~~~~~  262 (377)
                      ++.+.
T Consensus       266 ~a~~~  270 (308)
T 2ond_A          266 RRFTA  270 (308)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66553

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.60  E-value=1.2e-14  Score=123.49  Aligned_cols=273  Identities=15%  Similarity=0.013  Sum_probs=207.5

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCc---cchhHHHHHHHHccCCHHHHHHHHHhcCCC----CC-CccHH
Q 042154           57 TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISK---EGFTARLIALYGKAAMFENARKVFDEMPGR----NC-EQTVL  128 (377)
Q Consensus        57 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~-~~~~~  128 (377)
                      ...+......+...|++++|+..++++.+..+...   ...+..+...+...|++++|...+++..+.    +- +....
T Consensus         5 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            5 CLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            34566677888899999999999999988753322   245667889999999999999999987543    11 12356


Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC----HHHHHHHHHHHHHcCC--------------------HHHHHH
Q 042154          129 SFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD----LVSYNTIIKAFVDKGS--------------------LDSANT  184 (377)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~--------------------~~~a~~  184 (377)
                      ++..+...+...|++++|...+++......-.++    ..++..+...+...|+                    +++|.+
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~  164 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVD  164 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHH
Confidence            7888899999999999999999987543211122    3478888899999999                    999999


Q ss_pred             HHHHHHHC----CC-CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC----C-CCCHHHHHHHHHHHHhcCCHHHHHH
Q 042154          185 LLYEMEKK----GI-RLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN----V-RPNVRSYNARLDGLAIEKQTKKALE  254 (377)
Q Consensus       185 ~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~~~~a~~  254 (377)
                      .+++....    +. .....++..+...+...|++++|...+++..+..    . .....++..+...+...|++++|..
T Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  244 (338)
T 3ro2_A          165 LYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  244 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99887642    11 1124578888889999999999999999887431    0 1112377888899999999999999


Q ss_pred             HHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH-------hcCCCC-CHHHHHHHHHHHHhcCChHHHHH
Q 042154          255 LVGEMRSK----EINP-DVFTFYALIKGFVNEGNLEEAKRWYN-------KSGCGM-NKAIFKLLVPFVCEKGDLDFAFN  321 (377)
Q Consensus       255 ~~~~~~~~----g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~  321 (377)
                      .+++....    +..+ ...++..+...+...|++++|...++       ..+..+ ...++..+...|...|++++|.+
T Consensus       245 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  324 (338)
T 3ro2_A          245 YYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMH  324 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            99988753    1111 14577888899999999999999998       222111 13467788899999999999999


Q ss_pred             HHHHHHhc
Q 042154          322 LCKRTFSE  329 (377)
Q Consensus       322 ~~~~~~~~  329 (377)
                      .++++.+.
T Consensus       325 ~~~~a~~~  332 (338)
T 3ro2_A          325 FAEKHLEI  332 (338)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHH
Confidence            99999875

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.59  E-value=3.4e-13  Score=104.27  Aligned_cols=163  Identities=15%  Similarity=0.087  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDG  242 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  242 (377)
                      +.+|..+...+.+.|++++|++.|++..+..+. +...+..+..+|.+.|++++|...+....... +.+...+..+...
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            344555555555555555555555555544322 44455555555555555555555555554432 1233444444444


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHH
Q 042154          243 LAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAF  320 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~  320 (377)
                      +...++++.|...+.+..... +.+...+..+..++...|++++|++.++ .... +.+..+|..+..+|.+.|++++|+
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHHH
Confidence            555555555555555544431 2233444444444444555555544444 1111 123334444444444444455554


Q ss_pred             HHHHHHHh
Q 042154          321 NLCKRTFS  328 (377)
Q Consensus       321 ~~~~~~~~  328 (377)
                      +.|+++++
T Consensus       162 ~~~~~al~  169 (184)
T 3vtx_A          162 KYFKKALE  169 (184)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            44444444

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.59  E-value=8.7e-15  Score=123.18  Aligned_cols=242  Identities=11%  Similarity=0.092  Sum_probs=157.1

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccC-------CCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhc---
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDL-------GRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYK---   87 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---   87 (377)
                      |.+..++..+...+...|++++|+..|+++.+.       . .+....++..+...+...|++++|.+.++++....   
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  102 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHD-HPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKT  102 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSS-SHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence            334677888999999999999999999998762       2 24456778889999999999999999998877642   


Q ss_pred             ----CCCccchhHHHHHHHHccCCHHHHHHHHHhcCCC------C-CCccHHHHHHHHHHHHhCCChhHHHHHHHhchhh
Q 042154           88 ----DISKEGFTARLIALYGKAAMFENARKVFDEMPGR------N-CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK  156 (377)
Q Consensus        88 ----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (377)
                          .+.....+..+...|...|++++|...|++..+.      + .+....++..+...+...|++++|+..+++....
T Consensus       103 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  182 (311)
T 3nf1_A          103 LGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEI  182 (311)
T ss_dssp             HCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             hCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                1223345567888889999999999988887653      1 1234556777888888899999998888887543


Q ss_pred             c-----CCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-------CCCCCHH-------hHHHHHHHHHcCCCHHH
Q 042154          157 L-----GIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKK-------GIRLDLI-------TFNTLLLGFYSNGRFAD  216 (377)
Q Consensus       157 ~-----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~-------~~~~l~~~~~~~~~~~~  216 (377)
                      .     +..| ...++..+...+...|++++|...++++.+.       ...+...       .+..+...+...+.+.+
T Consensus       183 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  262 (311)
T 3nf1_A          183 YQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGE  262 (311)
T ss_dssp             HHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCC
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            1     1122 2346777888888889999988888887753       1111111       11222222333344455


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          217 AEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       217 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                      +...+....... +.+..++..+...|.+.|++++|...|++..+
T Consensus       263 a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          263 YGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             CC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555555554432 23445666777777777777777777777654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.58  E-value=8.4e-14  Score=124.21  Aligned_cols=210  Identities=13%  Similarity=0.057  Sum_probs=129.5

Q ss_pred             CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCCh-hHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHH
Q 042154          107 MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKF-DEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANT  184 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~  184 (377)
                      .++++...+++..... +.+...+..+...+...|++ ++|+..|++..+.   .| +..+|..+..+|...|++++|.+
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~g~~~~A~~  158 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKL---EPELVEAWNQLGEVYWKKGDVTSAHT  158 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            3566666666655543 34566777777777777777 7777777776653   23 35567777777777777777777


Q ss_pred             HHHHHHHCCCCCCHHhHHHHHHHHHcC---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc--------C
Q 042154          185 LLYEMEKKGIRLDLITFNTLLLGFYSN---------GRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIE--------K  247 (377)
Q Consensus       185 ~~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~  247 (377)
                      .|+++.+..  |+...+..+...|...         |++++|...|++..+.. +.+...|..+..+|...        |
T Consensus       159 ~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g  235 (474)
T 4abn_A          159 CFSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPK  235 (474)
T ss_dssp             HHHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccc
Confidence            777777653  4456666677777776         77777777777766654 23456666666666666        6


Q ss_pred             CHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHH
Q 042154          248 QTKKALELVGEMRSKEIN--PDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLC  323 (377)
Q Consensus       248 ~~~~a~~~~~~~~~~g~~--p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~  323 (377)
                      ++++|+..|++..+....  -+...|..+..+|...|++++|.+.++ .....| +...+..+..++...|++++|++.+
T Consensus       236 ~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          236 ISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            666666666666653110  245556666666666666666666666 222222 3445555555566666665555543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.58  E-value=4.8e-13  Score=116.00  Aligned_cols=229  Identities=11%  Similarity=-0.025  Sum_probs=111.4

Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCC--C---CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCc-----CHHHHH
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRN--C---EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP-----DLVSYN  167 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~--~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-----~~~~~~  167 (377)
                      ....+...|++++|...|++..+..  .   +....++..+...|...|+++.|+..+++......-.+     ...+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            3444556666777766666654421  0   01233555566666666666666666665543211111     123455


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC----CCC-CCHHhHHHHHHHHHcCCCHHHHHHHHHHHHh-----CCCCCCHHHHH
Q 042154          168 TIIKAFVDKGSLDSANTLLYEMEKK----GIR-LDLITFNTLLLGFYSNGRFADAEKIWETMVN-----MNVRPNVRSYN  237 (377)
Q Consensus       168 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  237 (377)
                      .+...|...|++++|.+.+++..+.    +.. ....++..+..+|...|++++|...+++..+     .. +....++.
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~  265 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLF  265 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHH
Confidence            5566666666666666666655431    110 1123455555556666666666666655554     22 11234455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCC----CCCCHHHHHHHHHHHHhcCC---HHHHHHHHHhcCCCCCH-HHHHHHHHH
Q 042154          238 ARLDGLAIEKQTKKALELVGEMRSKE----INPDVFTFYALIKGFVNEGN---LEEAKRWYNKSGCGMNK-AIFKLLVPF  309 (377)
Q Consensus       238 ~l~~~~~~~~~~~~a~~~~~~~~~~g----~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~-~~~~~l~~~  309 (377)
                      .+...+.+.|++++|...+++..+..    .+.....+..+...+...++   ..+|..+++..+..|+. ..+..+...
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  345 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAV  345 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHH
Confidence            55555555666666666555554421    11112233334444444444   44555555432222221 233444555


Q ss_pred             HHhcCChHHHHHHHHHHH
Q 042154          310 VCEKGDLDFAFNLCKRTF  327 (377)
Q Consensus       310 ~~~~g~~~~a~~~~~~~~  327 (377)
                      |...|++++|.+.|+++.
T Consensus       346 y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          346 FESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHH
Confidence            555555555555555544

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.58  E-value=3.1e-12  Score=107.54  Aligned_cols=182  Identities=7%  Similarity=-0.019  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HH-HHHHHHHHHHhcCCHHHHHHHHH
Q 042154          180 DSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPN-VR-SYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       180 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      ++|..+|++..+.-.+.+...|..++..+.+.|++++|..+|++..+..  |+ .. .|..++..+.+.|++++|..+|+
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  158 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE--DIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSS--SSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc--ccCccHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            4555555555442011133344445555555555555555555554432  22 11 44444444445555555555555


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHH-hcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC-CCC
Q 042154          258 EMRSKEINPDVFTFYALIKGFV-NEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER-CLV  333 (377)
Q Consensus       258 ~~~~~g~~p~~~~~~~l~~~~~-~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~  333 (377)
                      +..+.. +++...|........ ..|+.++|.++|+ .... +.+...|..++..+.+.|++++|..+|++++... ..|
T Consensus       159 ~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p  237 (308)
T 2ond_A          159 KAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCH
Confidence            554432 112222222222111 1355555555555 1111 1233444445555555555555555555555431 122


Q ss_pred             --ChhhHHHHHHHHHhcCCHHHHHHHHHhhccC
Q 042154          334 --DQAPLQLVVDRLAKELRVEEAKELVELGKTN  364 (377)
Q Consensus       334 --~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  364 (377)
                        ....|..++..+.+.|+.++|..+++++.+.
T Consensus       238 ~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          238 EKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence              2334444455555555555555555554443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.57  E-value=1.2e-12  Score=113.39  Aligned_cols=228  Identities=10%  Similarity=0.036  Sum_probs=171.6

Q ss_pred             HHHHHHHhCCChhHHHHHHHhchhhcCCCcC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC-C-CCHHhH
Q 042154          132 ALLGACVNSKKFDEVDGLFKDLPHKLGIEPD----LVSYNTIIKAFVDKGSLDSANTLLYEMEKK----GI-R-LDLITF  201 (377)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~-~~~~~~  201 (377)
                      .....+...|++++|+..|++........++    ..++..+...+...|+++.|...+.+..+.    +. . ....++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            3445578899999999999987643222232    347888899999999999999999988752    11 1 125578


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHH
Q 042154          202 NTLLLGFYSNGRFADAEKIWETMVNM----NVR-PNVRSYNARLDGLAIEKQTKKALELVGEMRS-----KEINPDVFTF  271 (377)
Q Consensus       202 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~g~~p~~~~~  271 (377)
                      +.+...|...|++++|...|++..+.    +-. ....++..+...|...|++++|...+++..+     .. +....++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHH
Confidence            88999999999999999999987752    211 1235677888999999999999999999887     42 2236788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHH-------hcCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHhcCCCC-ChhhHHH
Q 042154          272 YALIKGFVNEGNLEEAKRWYN-------KSGCGMNKAIFKLLVPFVCEKGD---LDFAFNLCKRTFSERCLV-DQAPLQL  340 (377)
Q Consensus       272 ~~l~~~~~~~~~~~~a~~~~~-------~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~-~~~~~~~  340 (377)
                      ..+...+.+.|++++|..+++       ..+.+.....+..+...+...|+   +.+|+..+++.   +..| ....+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~  341 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARS  341 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHH
Confidence            899999999999999999999       12222233456666777888888   77787777762   2222 2346677


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhcc
Q 042154          341 VVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       341 l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      +...|.+.|++++|.+.++++.+
T Consensus       342 la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          342 AAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            89999999999999999998764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.57  E-value=8.3e-14  Score=124.25  Aligned_cols=215  Identities=9%  Similarity=-0.064  Sum_probs=157.9

Q ss_pred             CChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCH-HHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHH
Q 042154           71 KRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMF-ENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGL  149 (377)
Q Consensus        71 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  149 (377)
                      ++++++++.++....... .+...+..+...+...|++ ++|++.|++..+.. +.+..+|..+..+|.+.|++++|+..
T Consensus        82 ~~~~~al~~l~~~~~~~~-~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           82 EEMEKTLQQMEEVLGSAQ-VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHHTTCC-CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCc-hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            346667777776555432 3444555677888888888 88888888877654 33577788888888888888888888


Q ss_pred             HHhchhhcCCCcCHHHHHHHHHHHHHc---------CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC--------C
Q 042154          150 FKDLPHKLGIEPDLVSYNTIIKAFVDK---------GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN--------G  212 (377)
Q Consensus       150 ~~~~~~~~~~~p~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~  212 (377)
                      |++..+   ..|+...+..+...+...         |++++|++.++++.+... .+...|..+..+|...        |
T Consensus       160 ~~~al~---~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~~~~g  235 (474)
T 4abn_A          160 FSGALT---HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-LDGRSWYILGNAYLSLYFNTGQNPK  235 (474)
T ss_dssp             HHHHHT---TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHHHh---hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHhhccccc
Confidence            888764   356667777778888887         888888888888877643 3677778888888777        7


Q ss_pred             CHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          213 RFADAEKIWETMVNMNVR--PNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRW  290 (377)
Q Consensus       213 ~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~  290 (377)
                      ++++|...|++..+....  .+...|..+..+|...|++++|...|++..+.. +.+...+..+..++...|++++|.+.
T Consensus       236 ~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~  314 (474)
T 4abn_A          236 ISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLES  314 (474)
T ss_dssp             HHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888875410  367778888888888888888888888887752 23456677778888888888888876


Q ss_pred             HH
Q 042154          291 YN  292 (377)
Q Consensus       291 ~~  292 (377)
                      +.
T Consensus       315 ~~  316 (474)
T 4abn_A          315 KG  316 (474)
T ss_dssp             TT
T ss_pred             hc
Confidence            55

>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=2.4e-12  Score=99.44  Aligned_cols=167  Identities=11%  Similarity=-0.000  Sum_probs=113.2

Q ss_pred             CHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 042154          197 DLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIK  276 (377)
Q Consensus       197 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~  276 (377)
                      ++.+|..+...|...|++++|++.|++..+.. +-+...+..+..+|.+.|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            45667777777777777777777777777654 2355667777777777777777777777776642 234556666666


Q ss_pred             HHHhcCCHHHHHHHHH-hcC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHH
Q 042154          277 GFVNEGNLEEAKRWYN-KSG-CGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEA  354 (377)
Q Consensus       277 ~~~~~~~~~~a~~~~~-~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  354 (377)
                      .+...++++.|...+. ... .+.+...+..+..++.+.|++++|++.|++.++..+. +..++..+..+|.+.|++++|
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHHHH
Confidence            7777777777777777 222 2334566667777777777777777777777765433 566677777777777777777


Q ss_pred             HHHHHhhccCCc
Q 042154          355 KELVELGKTNSY  366 (377)
Q Consensus       355 ~~~~~~~~~~~~  366 (377)
                      .+.++++.+..+
T Consensus       161 ~~~~~~al~~~p  172 (184)
T 3vtx_A          161 VKYFKKALEKEE  172 (184)
T ss_dssp             HHHHHHHHHTTH
T ss_pred             HHHHHHHHhCCc
Confidence            777777766554

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.52  E-value=6.1e-13  Score=111.78  Aligned_cols=240  Identities=12%  Similarity=0.062  Sum_probs=169.0

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhc------CCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----
Q 042154          124 EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKL------GIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKK-----  192 (377)
Q Consensus       124 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  192 (377)
                      +....++..+...+...|++++|..+++++.+..      .......++..+...+...|++++|...++++...     
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            4456788889999999999999999999986521      11223457888899999999999999999998754     


Q ss_pred             -C-CCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC------CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-
Q 042154          193 -G-IRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM------NV-RPNVRSYNARLDGLAIEKQTKKALELVGEMRSK-  262 (377)
Q Consensus       193 -~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  262 (377)
                       + .+....++..+...|...|++++|...+++..+.      +- +.....+..+...+...|++++|..+++++.+. 
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  183 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY  183 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             2 2234667888999999999999999999988764      21 223456788889999999999999999998764 


Q ss_pred             -----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH-hc---------CCCCCH-------HHHHHHHHHHHhcCChHHH
Q 042154          263 -----EINPD-VFTFYALIKGFVNEGNLEEAKRWYN-KS---------GCGMNK-------AIFKLLVPFVCEKGDLDFA  319 (377)
Q Consensus       263 -----g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~-~~---------~~~~~~-------~~~~~l~~~~~~~g~~~~a  319 (377)
                           +..|. ..++..+...+...|++++|.++++ ..         ...+..       ..+..+...+...+.+.++
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  263 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEY  263 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHH
Confidence                 21232 4577888999999999999999998 11         111211       1222333345556667777


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccC
Q 042154          320 FNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTN  364 (377)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  364 (377)
                      ...++...... .....++..+..+|.+.|++++|.++++++.+.
T Consensus       264 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          264 GGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             C---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            77777766542 225567888999999999999999999988653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.51  E-value=1.6e-11  Score=106.20  Aligned_cols=299  Identities=9%  Similarity=-0.065  Sum_probs=183.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccc----hhHHHHHHHHccCCHHHHHHHHHhcCCCCC-Ccc----HHHH
Q 042154           60 YTGTVQRLANAKRFRWIEEILEHQKQYKDISKEG----FTARLIALYGKAAMFENARKVFDEMPGRNC-EQT----VLSF  130 (377)
Q Consensus        60 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~----~~~~  130 (377)
                      +......+...|++++|...+++........+..    .+..+...+...|++++|...+++...... ..+    ..++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3444556667888888888888876654322221    234566777788888888888887654210 011    2235


Q ss_pred             HHHHHHHHhCCChhHHHHHHHhchhhc---CCC--cC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC----CCHHh
Q 042154          131 NALLGACVNSKKFDEVDGLFKDLPHKL---GIE--PD-LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIR----LDLIT  200 (377)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~--p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~  200 (377)
                      ..+...+...|++++|...+++.....   +..  |. ...+..+...+...|++++|...+++.......    ....+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            566777888888888888888775431   211  22 335566777788888888888888887654221    12345


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC--HHHHH----HHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHH
Q 042154          201 FNTLLLGFYSNGRFADAEKIWETMVNMNVRPN--VRSYN----ARLDGLAIEKQTKKALELVGEMRSKEINP---DVFTF  271 (377)
Q Consensus       201 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~g~~p---~~~~~  271 (377)
                      +..+...+...|++++|...+++.......++  .....    ..+..+...|++++|...+++.......+   ....+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            66677778888888888888887764311111  11111    22334667888888888888876543211   12245


Q ss_pred             HHHHHHHHhcCCHHHHHHHHH-------hcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 042154          272 YALIKGFVNEGNLEEAKRWYN-------KSGCGMNK-AIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVD  343 (377)
Q Consensus       272 ~~l~~~~~~~~~~~~a~~~~~-------~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  343 (377)
                      ..+...+...|++++|...++       ..+..++. ..+..+..++...|+.++|...+++.......      ...+.
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~------~g~~~  330 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANR------TGFIS  330 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH------HCCCH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhcc------ccHHH
Confidence            566777778888888888777       22222222 24555666777888888888888887764211      11223


Q ss_pred             HHHhcCCHHHHHHHHHhhccCCc
Q 042154          344 RLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      .+...|  +....+++...+...
T Consensus       331 ~~~~~g--~~~~~ll~~~~~~~~  351 (373)
T 1hz4_A          331 HFVIEG--EAMAQQLRQLIQLNT  351 (373)
T ss_dssp             HHHTTH--HHHHHHHHHHHHTTC
T ss_pred             HHHHcc--HHHHHHHHHHHhCCC
Confidence            444555  566666666655543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.48  E-value=2.1e-11  Score=105.43  Aligned_cols=299  Identities=10%  Similarity=0.007  Sum_probs=204.8

Q ss_pred             HHHHHHHhhhcccHHHHHHHHHhcccCCCCccc-h----hhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCcc-----c
Q 042154           24 IGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTN-T----GIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKE-----G   93 (377)
Q Consensus        24 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~   93 (377)
                      .......+...|++++|...++......  +++ .    .++..+...+...|++++|.+.+++..........     .
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   94 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEEL--PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALW   94 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTC--CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcC--CCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            4444556778999999999999987654  222 2    24667778888899999999999988765322221     1


Q ss_pred             hhHHHHHHHHccCCHHHHHHHHHhcCCC----CCC--c-cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcC-CCc--CH
Q 042154           94 FTARLIALYGKAAMFENARKVFDEMPGR----NCE--Q-TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLG-IEP--DL  163 (377)
Q Consensus        94 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~p--~~  163 (377)
                      ....+...+...|++++|...+++..+.    +.+  | ....+..+...+...|++++|...+++...... ..+  ..
T Consensus        95 ~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  174 (373)
T 1hz4_A           95 SLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQL  174 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHH
Confidence            2345788899999999999999987652    221  2 344667788889999999999999998765421 111  23


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHhHH----HHHHHHHcCCCHHHHHHHHHHHHhCCCCC---CHH
Q 042154          164 VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLD--LITFN----TLLLGFYSNGRFADAEKIWETMVNMNVRP---NVR  234 (377)
Q Consensus       164 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~  234 (377)
                      .++..+...+...|++++|...+++.......++  .....    ..+..+...|++++|...+++.......+   ...
T Consensus       175 ~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  254 (373)
T 1hz4_A          175 QCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQG  254 (373)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHH
Confidence            4677788899999999999999999875321111  11111    23345778999999999999887643211   123


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHH
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSK----EINPDV-FTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVP  308 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~  308 (377)
                      .+..+...+...|++++|...+++....    |..++. ..+..+..++...|+.++|...++ .....+.    ...+.
T Consensus       255 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~----~g~~~  330 (373)
T 1hz4_A          255 QWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANR----TGFIS  330 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH----HCCCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhcc----ccHHH
Confidence            5667788899999999999999987653    222222 356677788889999999999988 1110000    11223


Q ss_pred             HHHhcCChHHHHHHHHHHHhcC
Q 042154          309 FVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       309 ~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      .+...|  +....+++.+....
T Consensus       331 ~~~~~g--~~~~~ll~~~~~~~  350 (373)
T 1hz4_A          331 HFVIEG--EAMAQQLRQLIQLN  350 (373)
T ss_dssp             HHHTTH--HHHHHHHHHHHHTT
T ss_pred             HHHHcc--HHHHHHHHHHHhCC
Confidence            344444  56667777776643

>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=99.46  E-value=2e-11  Score=93.99  Aligned_cols=163  Identities=13%  Similarity=0.059  Sum_probs=113.9

Q ss_pred             hHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHH
Q 042154           95 TARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFV  174 (377)
Q Consensus        95 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  174 (377)
                      +..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+.  .+.+...+..+...+.
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHH
Confidence            3456667777777777777777777654 345667777777777778888887777777653  1234556777777777


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 042154          175 DKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALE  254 (377)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  254 (377)
                      ..|++++|.+.++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            7777877777777777653 2356667777777777777777777777777654 3455667777777777777777777


Q ss_pred             HHHHHHhC
Q 042154          255 LVGEMRSK  262 (377)
Q Consensus       255 ~~~~~~~~  262 (377)
                      .+++..+.
T Consensus       166 ~~~~~~~~  173 (186)
T 3as5_A          166 HFKKANEL  173 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHc
Confidence            77776653

>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=99.44  E-value=1.1e-11  Score=95.54  Aligned_cols=162  Identities=14%  Similarity=0.070  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 042154          164 VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGL  243 (377)
Q Consensus       164 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  243 (377)
                      ..+..+...+...|++++|...++++.+... .+...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            3555566666677777777777766665422 255566666666666777777777776666543 23455566666666


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 042154          244 AIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFN  321 (377)
Q Consensus       244 ~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  321 (377)
                      ...|++++|...++++.+.. +.+...+..+...+...|++++|.++++  ....+.+...+..+...+...|++++|.+
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHH
Confidence            66666666666666665542 2244455555555555555555555555  11112234445555555555555555555


Q ss_pred             HHHHHHh
Q 042154          322 LCKRTFS  328 (377)
Q Consensus       322 ~~~~~~~  328 (377)
                      .++++.+
T Consensus       166 ~~~~~~~  172 (186)
T 3as5_A          166 HFKKANE  172 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555544

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.44  E-value=6e-11  Score=94.99  Aligned_cols=195  Identities=11%  Similarity=-0.024  Sum_probs=140.7

Q ss_pred             ccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHH
Q 042154          125 QTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTL  204 (377)
Q Consensus       125 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  204 (377)
                      .++..+......+...|++++|+..|++..+. ...++...+..+..++...|++++|++.+++..+.... +...+..+
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l   82 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKL-TNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGK   82 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhc-cCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHH
Confidence            45678888888899999999999999988764 32256677777888889999999999999998877433 66788888


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHH
Q 042154          205 LLGFYSNGRFADAEKIWETMVNMNVRPNV-------RSYNARLDGLAIEKQTKKALELVGEMRSKEINPD---VFTFYAL  274 (377)
Q Consensus       205 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~---~~~~~~l  274 (377)
                      ..+|...|++++|...+++..+.. +.+.       ..|..+...+...|++++|+..|++..+.  .|+   ...+..+
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l  159 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHH
Confidence            889999999999999999888754 2234       45777778888889999999999988875  454   4566677


Q ss_pred             HHHHHhcCCH--HHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 042154          275 IKGFVNEGNL--EEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERC  331 (377)
Q Consensus       275 ~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  331 (377)
                      ..+|...|+.  +++..+     ...+...|....  ....+.+++|+..+++..+..+
T Consensus       160 ~~~~~~~~~~~~~~a~~~-----~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p  211 (228)
T 4i17_A          160 GVLFYNNGADVLRKATPL-----ASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSP  211 (228)
T ss_dssp             HHHHHHHHHHHHHHHGGG-----TTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHHHhc-----ccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCC
Confidence            7777655432  222111     122344444433  3345668889999988888643

>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=99.43  E-value=1.6e-12  Score=120.66  Aligned_cols=169  Identities=7%  Similarity=0.010  Sum_probs=145.1

Q ss_pred             CCCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh
Q 042154           16 ATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT   95 (377)
Q Consensus        16 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   95 (377)
                      +.|-++.+|+.|...+.+.|++++|+..|++..+..  +.+..+|..+..++.+.|++++|++.|+++.+..+.. ...+
T Consensus         4 s~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~--P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~-~~a~   80 (723)
T 4gyw_A            4 SCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTF-ADAY   80 (723)
T ss_dssp             --CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-HHHH
T ss_pred             CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC-HHHH
Confidence            445568899999999999999999999999998875  6678899999999999999999999999999876443 3445


Q ss_pred             HHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHH
Q 042154           96 ARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFV  174 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~  174 (377)
                      ..+..+|...|++++|++.|++..+.. +-+..+|+.+..+|.+.|++++|+..|++..+.   .| +...+..+..++.
T Consensus        81 ~nLg~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l---~P~~~~a~~~L~~~l~  156 (723)
T 4gyw_A           81 SNMGNTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKL---KPDFPDAYCNLAHCLQ  156 (723)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCChHHHhhhhhHHH
Confidence            569999999999999999999988765 446889999999999999999999999998764   45 4568999999999


Q ss_pred             HcCCHHHHHHHHHHHHH
Q 042154          175 DKGSLDSANTLLYEMEK  191 (377)
Q Consensus       175 ~~~~~~~a~~~~~~~~~  191 (377)
                      ..|++++|.+.++++.+
T Consensus       157 ~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          157 IVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HTTCCTTHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHHH
Confidence            99999999998887764

>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=99.40  E-value=3.7e-12  Score=105.35  Aligned_cols=136  Identities=15%  Similarity=0.130  Sum_probs=84.3

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHhchhhc-----CCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------C
Q 042154          126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKL-----GIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKK------G  193 (377)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~  193 (377)
                      ...++..+...|...|++++|+..+++.....     +..| ...++..+...+...|++++|...++++.+.      .
T Consensus        42 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  121 (283)
T 3edt_B           42 VATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGK  121 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCC
Confidence            45556666666666677766666666654321     1112 2346666667777777777777777666543      1


Q ss_pred             -CCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          194 -IRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM------NVRP-NVRSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       194 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                       .+....++..+...|...|++++|...+++..+.      +-.| ...++..+...|...|++++|...+++..+
T Consensus       122 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          122 FHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             1223456667777777777777777777776653      1112 235566677777777777777777777664

>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=99.39  E-value=2.3e-11  Score=97.39  Aligned_cols=197  Identities=9%  Similarity=0.045  Sum_probs=151.4

Q ss_pred             CCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCc-cchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh
Q 042154           17 TATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFR-TNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT   95 (377)
Q Consensus        17 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   95 (377)
                      .+.++..+......+...|++++|+..|+...+..  + ++...+..+..++...|++++|++.+++.....+. ....+
T Consensus         3 ~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~   79 (228)
T 4i17_A            3 QTTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLT--NNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAY   79 (228)
T ss_dssp             -CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHH
T ss_pred             cccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhcc--CCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHH
Confidence            45677899999999999999999999999998765  4 67778888999999999999999999999887544 44455


Q ss_pred             HHHHHHHHccCCHHHHHHHHHhcCCCCCCccH-------HHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC---HHH
Q 042154           96 ARLIALYGKAAMFENARKVFDEMPGRNCEQTV-------LSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD---LVS  165 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~---~~~  165 (377)
                      ..+..+|...|++++|...|++..+.. +.+.       ..|..+...+...|++++|+..|++..+   ..|+   ...
T Consensus        80 ~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~  155 (228)
T 4i17_A           80 IGKSAAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDA  155 (228)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHH
Confidence            579999999999999999999988754 2334       4577888889999999999999999874   3565   457


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 042154          166 YNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       166 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  228 (377)
                      +..+..++...|     ...++++...+.. +...|.....  ...+.+++|...|++..+..
T Consensus       156 ~~~l~~~~~~~~-----~~~~~~a~~~~~~-~~~~~~~~~~--~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          156 LYSLGVLFYNNG-----ADVLRKATPLASS-NKEKYASEKA--KADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHHHHHHH-----HHHHHHHGGGTTT-CHHHHHHHHH--HHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHH-----HHHHHHHHhcccC-CHHHHHHHHH--HHHHHHHHHHHHHHHHhhcC
Confidence            777777776544     3445555554322 3444444332  33456899999999998864

>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=99.39  E-value=9.1e-12  Score=115.67  Aligned_cols=168  Identities=7%  Similarity=-0.014  Sum_probs=141.6

Q ss_pred             CccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHH
Q 042154           53 FRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNA  132 (377)
Q Consensus        53 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  132 (377)
                      .|.++.+|+.+...+.+.|++++|++.|++..+..+.. ...+..+..+|.+.|++++|+..|++..+.. +-+..+|..
T Consensus         5 ~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~-~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~n   82 (723)
T 4gyw_A            5 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEF-AAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSN   82 (723)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            35567889999999999999999999999998876443 3445569999999999999999999988765 346788999


Q ss_pred             HHHHHHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC
Q 042154          133 LLGACVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN  211 (377)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  211 (377)
                      +..+|.+.|++++|++.|++..+.   .| +..+|..+..++.+.|++++|++.|+++.+.... +...+..+..++...
T Consensus        83 Lg~~l~~~g~~~~A~~~~~kAl~l---~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~  158 (723)
T 4gyw_A           83 MGNTLKEMQDVQGALQCYTRAIQI---NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIV  158 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhc
Confidence            999999999999999999988764   44 4668999999999999999999999999887433 678889999999999


Q ss_pred             CCHHHHHHHHHHHHh
Q 042154          212 GRFADAEKIWETMVN  226 (377)
Q Consensus       212 ~~~~~a~~~~~~~~~  226 (377)
                      |++++|.+.+++..+
T Consensus       159 g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          159 CDWTDYDERMKKLVS  173 (723)
T ss_dssp             TCCTTHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHH
Confidence            999999888887764

>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=99.38  E-value=8e-12  Score=103.30  Aligned_cols=227  Identities=11%  Similarity=0.072  Sum_probs=154.8

Q ss_pred             cccHHHHHHHHHhccc-------CCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhc-------CCCccchhHHHH
Q 042154           34 ENNLKRLVDKFKKSSD-------LGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYK-------DISKEGFTARLI   99 (377)
Q Consensus        34 ~~~~~~A~~~~~~~~~-------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~l~   99 (377)
                      .|++++|+..|++..+       .. .+....++..+...+...|++++|++.++++....       .+.....+..+.
T Consensus        14 ~~~~~~A~~~~~~al~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           14 LVPRGSAVPLCKQALEDLEKTSGHD-HPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CSCSSSHHHHHHHHHHHHHHHHCSS-SHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            4555555555544433       22 24467788999999999999999999999887652       122344566799


Q ss_pred             HHHHccCCHHHHHHHHHhcCCC------C-CCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhc-----CCCc-CHHHH
Q 042154          100 ALYGKAAMFENARKVFDEMPGR------N-CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKL-----GIEP-DLVSY  166 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~p-~~~~~  166 (377)
                      ..|...|++++|...|++..+.      . .+....++..+...+...|++++|...+++..+..     +..| ...++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            9999999999999999987653      1 13346788889999999999999999999886530     1123 34578


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHC-------CCCC-CHHhHHHHHHHHHcCCCHH------HHHHHHHHHHhCCCCCC
Q 042154          167 NTIIKAFVDKGSLDSANTLLYEMEKK-------GIRL-DLITFNTLLLGFYSNGRFA------DAEKIWETMVNMNVRPN  232 (377)
Q Consensus       167 ~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~~~------~a~~~~~~~~~~~~~~~  232 (377)
                      ..+...+...|++++|...++++.+.       ...+ ....+..+...+...+...      .+...++..... .+..
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  251 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD-SPTV  251 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC-CHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC-CHHH
Confidence            88999999999999999999988753       1122 2233443443443333322      222222221111 1223


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          233 VRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       233 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      ..++..+...|...|++++|..++++..+.
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            457888999999999999999999998763

>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=9.1e-11  Score=97.73  Aligned_cols=207  Identities=15%  Similarity=0.044  Sum_probs=129.2

Q ss_pred             CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhh---cCCCcC-HHHHHHHHHHHHHcCCHHHH
Q 042154          107 MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK---LGIEPD-LVSYNTIIKAFVDKGSLDSA  182 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~p~-~~~~~~l~~~~~~~~~~~~a  182 (377)
                      ++++|...|++.               ...|...|++++|...|.+...-   .+..++ ..+|+.+..+|.+.|++++|
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            466776666665               33466677777777777665432   121122 34677777777788888888


Q ss_pred             HHHHHHHHHC----CCCC-CHHhHHHHHHHHHcC-CCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCCHHH
Q 042154          183 NTLLYEMEKK----GIRL-DLITFNTLLLGFYSN-GRFADAEKIWETMVNMNVR-PN----VRSYNARLDGLAIEKQTKK  251 (377)
Q Consensus       183 ~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~  251 (377)
                      +..+++..+.    |-.. -..++..+..+|... |++++|+..|++..+.... .+    ..++..+...+.+.|++++
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            8777776643    1100 134677777888885 8888888888877653210 01    3457777888888888888


Q ss_pred             HHHHHHHHHhCCCCCCH------HHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCCHH------HHHHHHHHHH--hcCCh
Q 042154          252 ALELVGEMRSKEINPDV------FTFYALIKGFVNEGNLEEAKRWYN-KSGCGMNKA------IFKLLVPFVC--EKGDL  316 (377)
Q Consensus       252 a~~~~~~~~~~g~~p~~------~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~------~~~~l~~~~~--~~g~~  316 (377)
                      |+..|++..+.......      ..+..+..++...|++++|...++ ...+.|+..      .+..++.++.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            88888888775322211      145667777888888888888888 444444322      2334455553  45667


Q ss_pred             HHHHHHHHHHHh
Q 042154          317 DFAFNLCKRTFS  328 (377)
Q Consensus       317 ~~a~~~~~~~~~  328 (377)
                      ++|++.|+++..
T Consensus       257 ~~A~~~~~~~~~  268 (292)
T 1qqe_A          257 SEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHHTTSSC
T ss_pred             HHHHHHhccCCc
Confidence            777777766544

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.36  E-value=2.5e-09  Score=98.32  Aligned_cols=343  Identities=10%  Similarity=0.021  Sum_probs=191.6

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCC---hHHHHHHHHHhhhhcC-CCccc
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKR---FRWIEEILEHQKQYKD-ISKEG   93 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~-~~~~~   93 (377)
                      |-|...|..++..+.+.+.++.+..+|+.+...  +|.....|..-+..-.+.++   ++.+.++|++.....+ .++..
T Consensus        63 p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~--fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~  140 (679)
T 4e6h_A           63 PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR--FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLS  140 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHH
T ss_pred             cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHH
Confidence            347778888888888888888888888888765  36667777777777777777   8888888888777531 24455


Q ss_pred             hhHHHHHHHHccCCH--------HHHHHHHHhcCC-CCC-Cc-cHHHHHHHHHHHHh---------CCChhHHHHHHHhc
Q 042154           94 FTARLIALYGKAAMF--------ENARKVFDEMPG-RNC-EQ-TVLSFNALLGACVN---------SKKFDEVDGLFKDL  153 (377)
Q Consensus        94 ~~~~l~~~~~~~~~~--------~~A~~~~~~~~~-~~~-~~-~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~  153 (377)
                      ++...+....+.++.        +...++|+.... .|. .+ +...|...+.....         .++++.+..+|++.
T Consensus       141 LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~ra  220 (679)
T 4e6h_A          141 LWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTL  220 (679)
T ss_dssp             HHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHH
Confidence            555555544444332        233456665432 233 22 34456555544321         22344555555554


Q ss_pred             hhhcCCCcCHHHH-------------------------------------------------------------------
Q 042154          154 PHKLGIEPDLVSY-------------------------------------------------------------------  166 (377)
Q Consensus       154 ~~~~~~~p~~~~~-------------------------------------------------------------------  166 (377)
                      +.- ....-..+|                                                                   
T Consensus       221 L~i-P~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~  299 (679)
T 4e6h_A          221 LCQ-PMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDV  299 (679)
T ss_dssp             TTS-CCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCH
T ss_pred             HhC-ccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHH
Confidence            421 000000111                                                                   


Q ss_pred             ------HHHHHHHHHcC-------CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHH-HHHHHHHhCCCCCC
Q 042154          167 ------NTIIKAFVDKG-------SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAE-KIWETMVNMNVRPN  232 (377)
Q Consensus       167 ------~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~  232 (377)
                            ...+..--..+       ..+.+..+|+++... .+-....|...+..+...|+.++|. .+|++.... ++.+
T Consensus       300 ~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s  377 (679)
T 4e6h_A          300 QQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNS  377 (679)
T ss_dssp             HHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTC
T ss_pred             HHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCC
Confidence                  11111100000       011122334444333 1223444555555555566767775 777777653 3445


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC---------CCCC------------HHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          233 VRSYNARLDGLAIEKQTKKALELVGEMRSKE---------INPD------------VFTFYALIKGFVNEGNLEEAKRWY  291 (377)
Q Consensus       233 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g---------~~p~------------~~~~~~l~~~~~~~~~~~~a~~~~  291 (377)
                      ...|-..+....+.|++++|..+|+.+....         ..|+            ...|...+....+.|+.+.|+.+|
T Consensus       378 ~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf  457 (679)
T 4e6h_A          378 AVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIF  457 (679)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            5556667777777788888888887776531         0131            235666666666777788888888


Q ss_pred             H-hcCC--CCCHHHHHHHHHHHHhc-CChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          292 N-KSGC--GMNKAIFKLLVPFVCEK-GDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       292 ~-~~~~--~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      . ....  ......|...+..-.+. ++.+.|.++|+..++. ..-++..+...++.....|+.+.|..+|+++.+...
T Consensus       458 ~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~  535 (679)
T 4e6h_A          458 GKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKIS  535 (679)
T ss_dssp             HHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSS
T ss_pred             HHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcC
Confidence            7 2111  11223333333223333 3477888888877775 333555666677777777888888888888777654

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.36  E-value=1.9e-09  Score=99.11  Aligned_cols=358  Identities=11%  Similarity=0.040  Sum_probs=235.2

Q ss_pred             hhhhccccCCCCCCCchHHHHHHHHhhhcccH--------HHHHHHHHhcccCCCC-cc-chhhHHHHHHHHH-------
Q 042154            6 RLLSCSFSTTATATGPKFIGSVIRGIYKENNL--------KRLVDKFKKSSDLGRF-RT-NTGIYTGTVQRLA-------   68 (377)
Q Consensus         6 r~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~--------~~A~~~~~~~~~~~~~-~~-~~~~~~~l~~~~~-------   68 (377)
                      .++.+.+...+.+|++..|...+....+.++.        +...++|+.+...-|. .+ +...|...+....       
T Consensus       124 ~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~  203 (679)
T 4e6h_A          124 PVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNK  203 (679)
T ss_dssp             HHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSH
T ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCc
Confidence            34555555554468899999988877665443        3455788877654334 33 4567777776544       


Q ss_pred             --hcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHH-------------ccCCHHHHHHHHHhc------CCCCC----
Q 042154           69 --NAKRFRWIEEILEHQKQYKDISKEGFTARLIALYG-------------KAAMFENARKVFDEM------PGRNC----  123 (377)
Q Consensus        69 --~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------------~~~~~~~A~~~~~~~------~~~~~----  123 (377)
                        ..++.+.+..+|+++...+......+|......-.             ...+++.|...+.++      ....+    
T Consensus       204 ~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~  283 (679)
T 4e6h_A          204 FEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITL  283 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSS
T ss_pred             HHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhcccccc
Confidence              23457788899998886432222333321111110             012334455555442      11111    


Q ss_pred             --------Cc-------cHHHHHHHHHHHHhCC-------ChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHH
Q 042154          124 --------EQ-------TVLSFNALLGACVNSK-------KFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDS  181 (377)
Q Consensus       124 --------~~-------~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  181 (377)
                              |+       ....|...+..--..+       ..+.+..+|+++...  ++-....|-..+..+...|+.++
T Consensus       284 ~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~--~p~~~~lW~~ya~~~~~~~~~~~  361 (679)
T 4e6h_A          284 NQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH--VCFAPEIWFNMANYQGEKNTDST  361 (679)
T ss_dssp             TTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH--TTTCHHHHHHHHHHHHHHSCCTT
T ss_pred             ccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHhcCcHHH
Confidence                    11       0234555555433322       123456778888764  33456678888888889999999


Q ss_pred             HH-HHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC---------CCCC------------HHHHHHH
Q 042154          182 AN-TLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN---------VRPN------------VRSYNAR  239 (377)
Q Consensus       182 a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~~------------~~~~~~l  239 (377)
                      |. ++|++.... .+.+...|...+...-+.|+++.|.++|+.+....         -.|+            ...|...
T Consensus       362 a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y  440 (679)
T 4e6h_A          362 VITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVY  440 (679)
T ss_dssp             HHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHH
Confidence            96 999999875 44566677888888999999999999999988631         0131            2367778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhc-CCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCC
Q 042154          240 LDGLAIEKQTKKALELVGEMRSK-EINPDVFTFYALIKGFVNE-GNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGD  315 (377)
Q Consensus       240 ~~~~~~~~~~~~a~~~~~~~~~~-g~~p~~~~~~~l~~~~~~~-~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~  315 (377)
                      +....+.|..+.|..+|.+..+. +. +....|...+..-.+. ++.+.|.++|+  -...+.+...+...+......|+
T Consensus       441 ~~~erR~~~l~~AR~vf~~A~~~~~~-~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~  519 (679)
T 4e6h_A          441 MNTMKRIQGLAASRKIFGKCRRLKKL-VTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNE  519 (679)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHTGGG-SCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCC
Confidence            88888889999999999999886 21 2234444333333343 55899999999  22234466677888888889999


Q ss_pred             hHHHHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          316 LDFAFNLCKRTFSERCLV--DQAPLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       316 ~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      .+.|..+|++.+.....+  ....|..++..-.+.|+.+.+.++.+++.+..+.
T Consensus       520 ~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          520 ESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPE  573 (679)
T ss_dssp             HHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            999999999998864422  3347888888888999999999999999876654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.30  E-value=2.4e-10  Score=95.13  Aligned_cols=212  Identities=9%  Similarity=0.012  Sum_probs=146.4

Q ss_pred             ChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCC----CCCcc-HHHHHHHHHHHHhCCChhHH
Q 042154           72 RFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGR----NCEQT-VLSFNALLGACVNSKKFDEV  146 (377)
Q Consensus        72 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a  146 (377)
                      ++++|.+.+++.               ...|...|++++|...|++..+.    |-+++ ..+|+.+..+|.+.|++++|
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            477777777664               34566778888888887766432    21122 56788888888899999998


Q ss_pred             HHHHHhchhhc---CCCc-CHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHCCCCC-C----HHhHHHHHHHHHcCCCHHH
Q 042154          147 DGLFKDLPHKL---GIEP-DLVSYNTIIKAFVDK-GSLDSANTLLYEMEKKGIRL-D----LITFNTLLLGFYSNGRFAD  216 (377)
Q Consensus       147 ~~~~~~~~~~~---~~~p-~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~  216 (377)
                      +..|++...-.   |-.. ...+++.+...|... |++++|+..|++..+..... +    ..++..+...+.+.|++++
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            88888775431   1111 134788888899986 99999999999887542110 1    3568888999999999999


Q ss_pred             HHHHHHHHHhCCCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHH--hcC
Q 042154          217 AEKIWETMVNMNVRPNV------RSYNARLDGLAIEKQTKKALELVGEMRSKEINPDV------FTFYALIKGFV--NEG  282 (377)
Q Consensus       217 a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~------~~~~~l~~~~~--~~~  282 (377)
                      |+..|++..+.......      ..|..+..++...|++++|...|++..+.  .|+.      ..+..++.++.  ..+
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            99999999876432221      15677788888999999999999998874  3332      13444556664  456


Q ss_pred             CHHHHHHHHH-hcCCCCCH
Q 042154          283 NLEEAKRWYN-KSGCGMNK  300 (377)
Q Consensus       283 ~~~~a~~~~~-~~~~~~~~  300 (377)
                      ++++|++.++ .....|+.
T Consensus       255 ~~~~A~~~~~~~~~l~~~~  273 (292)
T 1qqe_A          255 QLSEHCKEFDNFMRLDKWK  273 (292)
T ss_dssp             THHHHHHHHTTSSCCCHHH
T ss_pred             HHHHHHHHhccCCccHHHH
Confidence            7888888887 44444433

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.29  E-value=5.4e-09  Score=85.71  Aligned_cols=177  Identities=11%  Similarity=0.001  Sum_probs=107.4

Q ss_pred             HHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCHHhHHHHHHHHHcCCCHHHHHHHHHHH
Q 042154          146 VDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGI-RLDLITFNTLLLGFYSNGRFADAEKIWETM  224 (377)
Q Consensus       146 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  224 (377)
                      |+..|++.... + .++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|
T Consensus        85 a~~~l~~l~~~-~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENLLKD-K-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHTTTT-S-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc-C-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            55666665543 2 34444555666777777777777777777765543 225556667777777777777777777777


Q ss_pred             HhCCCCC-----CHHHHHHHHHHH--HhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hc
Q 042154          225 VNMNVRP-----NVRSYNARLDGL--AIEK--QTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KS  294 (377)
Q Consensus       225 ~~~~~~~-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~  294 (377)
                      .+.  .|     +..+...++.++  ...|  ++.+|..+|+++.+.  .|+..+...++.++...|++++|.+.++ ..
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            664  24     244445555442  2223  777777777777654  3443333444446777788888877776 11


Q ss_pred             C-----------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          295 G-----------CGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       295 ~-----------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      .           -+.|+.+...+|......|+  +|.++++++.+..
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            1           02345555455555555565  7777777777743

>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=3.5e-09  Score=86.85  Aligned_cols=246  Identities=7%  Similarity=-0.037  Sum_probs=173.7

Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      ++-..-.|++..++.-...+....  + ......+.++|+..|+++..      .    .-.|....+..+...+ .. +
T Consensus        20 ikn~fy~G~yq~~i~e~~~~~~~~--~-~~~~~~~~Rs~iAlg~~~~~------~----~~~~~~~a~~~la~~~-~~-~   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKFSKVT--D-NTLLFYKAKTLLALGQYQSQ------D----PTSKLGKVLDLYVQFL-DT-K   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTSSCCC--C-HHHHHHHHHHHHHTTCCCCC------C----SSSTTHHHHHHHHHHH-TT-T
T ss_pred             HHHHHHhhHHHHHHHHHHhcCccc--h-HHHHHHHHHHHHHcCCCccC------C----CCCHHHHHHHHHHHHh-cc-c
Confidence            455556889998888666655432  2 33444567888888887642      1    2234444444444433 32 2


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNV-RPNVRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                         ++..|++....+ .++..++..+..++...|++++|++++.+.+..+. .-+...+...+..+.+.|+.+.|.+.++
T Consensus        85 ---a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~  160 (310)
T 3mv2_B           85 ---NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFD  160 (310)
T ss_dssp             ---CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ---HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence               778888887665 44566667888999999999999999999987663 1356778888999999999999999999


Q ss_pred             HHHhCCCCC-----CHHHHHHHHHHHH--hcC--CHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042154          258 EMRSKEINP-----DVFTFYALIKGFV--NEG--NLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTF  327 (377)
Q Consensus       258 ~~~~~g~~p-----~~~~~~~l~~~~~--~~~--~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  327 (377)
                      +|.+.  .|     +..+...|..++.  ..|  +..+|..+|+ .....|+..+-..++.++.+.|++++|.+.++.+.
T Consensus       161 ~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          161 NYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99874  56     3556666666633  334  8999999999 33445653344445558999999999999999776


Q ss_pred             hcC---------CCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          328 SER---------CLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       328 ~~~---------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      +..         -+-++.++..+|......|+  +|.++++++.+..+.
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~  285 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHE  285 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCC
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCC
Confidence            541         02366677667777777787  889999998876643

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.24  E-value=2.4e-10  Score=93.53  Aligned_cols=103  Identities=17%  Similarity=0.110  Sum_probs=77.3

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccc---hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCC--cc
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTN---TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDIS--KE   92 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~   92 (377)
                      +.++..+-.+...+.+.|++++|+..|+.+.+..  |.+   ...+..+..++...|++++|+..++++.+..+..  ..
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~   89 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVP   89 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhH
Confidence            4456777888888888999999999999888764  333   5677888888889999999999999888764322  12


Q ss_pred             chhHHHHHHHHc--------cCCHHHHHHHHHhcCCCC
Q 042154           93 GFTARLIALYGK--------AAMFENARKVFDEMPGRN  122 (377)
Q Consensus        93 ~~~~~l~~~~~~--------~~~~~~A~~~~~~~~~~~  122 (377)
                      ..+..+..++..        .|++++|...|+++.+..
T Consensus        90 ~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~  127 (261)
T 3qky_A           90 QAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY  127 (261)
T ss_dssp             HHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC
Confidence            233357777777        888888888888877653

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.22  E-value=5.3e-10  Score=91.45  Aligned_cols=210  Identities=11%  Similarity=-0.030  Sum_probs=122.6

Q ss_pred             ccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-C-CCHHhH
Q 042154          125 QTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGI-R-LDLITF  201 (377)
Q Consensus       125 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~-~~~~~~  201 (377)
                      .+...+..+...+.+.|++++|+..|+++.....-.|. ...+..+..++.+.|++++|...|+++.+... . .....+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            34566666677777777788888777777654211111 45666777777777777777777777776522 1 123455


Q ss_pred             HHHHHHHHc--------CCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 042154          202 NTLLLGFYS--------NGRFADAEKIWETMVNMNVRPNV-RSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFY  272 (377)
Q Consensus       202 ~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~  272 (377)
                      ..+..++..        .|++++|...|+++.+..  |+. .....+.              .+..+...    -...+.
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~--------------~~~~~~~~----~~~~~~  152 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQ--------------KIRELRAK----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHH--------------HHHHHHHH----HHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHH--------------HHHHHHHH----HHHHHH
Confidence            566666666        777777777777777643  321 1111110              01110000    011235


Q ss_pred             HHHHHHHhcCCHHHHHHHHH-hcCCCC----CHHHHHHHHHHHHhc----------CChHHHHHHHHHHHhcCCCCC--h
Q 042154          273 ALIKGFVNEGNLEEAKRWYN-KSGCGM----NKAIFKLLVPFVCEK----------GDLDFAFNLCKRTFSERCLVD--Q  335 (377)
Q Consensus       273 ~l~~~~~~~~~~~~a~~~~~-~~~~~~----~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~--~  335 (377)
                      .+...|...|++++|...++ .....|    ....+..+..+|...          |++++|...|+++++..+...  .
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  232 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLR  232 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHH
Confidence            56777888888888888888 222223    234666777777765          888999999999888643211  1


Q ss_pred             hhHHHHHHHHHhcCCHHHH
Q 042154          336 APLQLVVDRLAKELRVEEA  354 (377)
Q Consensus       336 ~~~~~l~~~~~~~g~~~~A  354 (377)
                      .....+...+...|+++++
T Consensus       233 ~a~~~l~~~~~~~~~~~~~  251 (261)
T 3qky_A          233 TAEELYTRARQRLTELEGD  251 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHhhhh
Confidence            2334444455555554443

>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=99.21  E-value=4.2e-09  Score=83.12  Aligned_cols=174  Identities=11%  Similarity=0.042  Sum_probs=84.1

Q ss_pred             HHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCC----CHHHHHHH
Q 042154          145 EVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNG----RFADAEKI  220 (377)
Q Consensus       145 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~  220 (377)
                      +|++.|++..+.    -++..+..+...+...+++++|+..|++..+.|   +...+..+...|.. +    ++++|.+.
T Consensus         4 eA~~~~~~aa~~----g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            4 EPGSQYQQQAEA----GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             CTTHHHHHHHHT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             hHHHHHHHHHHC----CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            344555554332    244455555555555666666666666655543   34445555555554 4    55566666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHH
Q 042154          221 WETMVNMNVRPNVRSYNARLDGLAI----EKQTKKALELVGEMRSKEIN-PDVFTFYALIKGFVN----EGNLEEAKRWY  291 (377)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~g~~-p~~~~~~~l~~~~~~----~~~~~~a~~~~  291 (377)
                      |++..+.|   +...+..+...|..    .+++++|+.+|++..+.|.. .+...+..|...|..    .+++++|..++
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            65555543   33444455555544    45555555555555554311 013444445555544    44555555555


Q ss_pred             H-hcCCCCCHHHHHHHHHHHHhc-C-----ChHHHHHHHHHHHhc
Q 042154          292 N-KSGCGMNKAIFKLLVPFVCEK-G-----DLDFAFNLCKRTFSE  329 (377)
Q Consensus       292 ~-~~~~~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~  329 (377)
                      + ......+...+..|..+|... |     ++++|...|++..+.
T Consensus       153 ~~A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~  197 (212)
T 3rjv_A          153 KGSSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLE  197 (212)
T ss_dssp             HHHHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHc
Confidence            5 111112333344444444322 1     455555555555444

>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=99.20  E-value=1.8e-10  Score=88.12  Aligned_cols=159  Identities=10%  Similarity=0.054  Sum_probs=72.1

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHH-
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIAL-  101 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-  101 (377)
                      .+..+...+.+.|++++|+..|+...+..  |.+...+..+...+...|++++|+..++++....+  +..+...+... 
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~   83 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL--QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLE   83 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH--HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHH
Confidence            34445555556666666666666655443  44455555666666666666666666655554432  22222111111 


Q ss_pred             HHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC---HHHHHHHHHHHHHcCC
Q 042154          102 YGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD---LVSYNTIIKAFVDKGS  178 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~~~  178 (377)
                      +...++..+|...+++..+.. |.+...+..+...+...|++++|...|+++.+.   .|+   ...+..+...+...|+
T Consensus        84 ~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~a~~~l~~~~~~~g~  159 (176)
T 2r5s_A           84 LHQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKV---NLGAQDGEVKKTFMDILSALGQ  159 (176)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CTTTTTTHHHHHHHHHHHHHCS
T ss_pred             HHhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHh---CcccChHHHHHHHHHHHHHhCC
Confidence            111111122344444443332 123444444444455555555555555444322   221   2244444444444444


Q ss_pred             HHHHHHHHHHH
Q 042154          179 LDSANTLLYEM  189 (377)
Q Consensus       179 ~~~a~~~~~~~  189 (377)
                      .++|...|++.
T Consensus       160 ~~~A~~~y~~a  170 (176)
T 2r5s_A          160 GNAIASKYRRQ  170 (176)
T ss_dssp             SCHHHHHHHHH
T ss_pred             CCcHHHHHHHH
Confidence            44444444433

>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=99.20  E-value=9.9e-10  Score=79.47  Aligned_cols=127  Identities=13%  Similarity=0.103  Sum_probs=63.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhc
Q 042154          236 YNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEK  313 (377)
Q Consensus       236 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~  313 (377)
                      |..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|..+++  ....+.+...+..+...+...
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHh
Confidence            3344444445555555555555544431 1233444444555555555555555555  111122344455555555666


Q ss_pred             CChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccC
Q 042154          314 GDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTN  364 (377)
Q Consensus       314 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  364 (377)
                      |++++|.+.++++.+.... +...+..++..+.+.|++++|.+.++++.+.
T Consensus        83 ~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            6666666666665554322 3445555566666666666666666655443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.20  E-value=2e-09  Score=84.68  Aligned_cols=134  Identities=13%  Similarity=0.036  Sum_probs=91.9

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 042154          202 NTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNE  281 (377)
Q Consensus       202 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~  281 (377)
                      ..+..+|.+.|++++|...|++..+.. +-+...+..+...+...|++++|+..|++..+.. +.+...+..+..+|...
T Consensus        58 ~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           58 TELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHH
Confidence            337788888888888888888888765 3467788888888888899999998888888752 33567777777777665


Q ss_pred             CCH--HHHHHHHHhcCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHH
Q 042154          282 GNL--EEAKRWYNKSGCGMNK--AIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQL  340 (377)
Q Consensus       282 ~~~--~~a~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  340 (377)
                      |+.  ..+...++.. ..|+.  ..+.....++...|++++|+..|+++++  ..|+......
T Consensus       136 ~~~~~~~~~~~~~~~-~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~  195 (208)
T 3urz_A          136 AEQEKKKLETDYKKL-SSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKT  195 (208)
T ss_dssp             HHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHH
T ss_pred             hHHHHHHHHHHHHHH-hCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHH
Confidence            543  3344444422 23333  2344455567778889999999998887  4556554433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.18  E-value=5.6e-10  Score=87.89  Aligned_cols=180  Identities=12%  Similarity=0.072  Sum_probs=83.7

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHH
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIA  100 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  100 (377)
                      ...+......+...|++++|+..|+...+..  |.+...|...     ...+.              ......+...+..
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~-----~~~~~--------------~~~~~~~~~~lg~   62 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWT-----NVDKN--------------SEISSKLATELAL   62 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHH-----HSCTT--------------SHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHh-----hhcch--------------hhhhHHHHHHHHH
Confidence            3444555667778899999999998887654  3344444440     00000              0000111122455


Q ss_pred             HHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCC-
Q 042154          101 LYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGS-  178 (377)
Q Consensus       101 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~-  178 (377)
                      +|.+.|++++|...|++..+.. |-+...+..+..++...|++++|+..|++..+.   .| +..++..+..++...|+ 
T Consensus        63 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~~~~  138 (208)
T 3urz_A           63 AYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL---EADNLAANIFLGNYYYLTAEQ  138 (208)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHHhHH
Confidence            5555555555555555554433 224445555555555555555555555555432   22 23344444444443332 


Q ss_pred             -HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC
Q 042154          179 -LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM  227 (377)
Q Consensus       179 -~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  227 (377)
                       .+.+...+.....  ..|....+.....++...|++++|...|++..+.
T Consensus       139 ~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  186 (208)
T 3urz_A          139 EKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR  186 (208)
T ss_dssp             HHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence             2223333333321  1112222222333444445555555555555543

>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=99.18  E-value=2.8e-10  Score=106.09  Aligned_cols=171  Identities=9%  Similarity=-0.035  Sum_probs=112.3

Q ss_pred             HhcCChHHHHHHHHHhh--------hhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 042154           68 ANAKRFRWIEEILEHQK--------QYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN  139 (377)
Q Consensus        68 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  139 (377)
                      ...|++++|++.++++.        +.. +.+...+..+...+...|++++|...|++..+.+ +.+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            66777777777777766        332 2333344456777777777777777777776654 3356677777777777


Q ss_pred             CCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHH
Q 042154          140 SKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAE  218 (377)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  218 (377)
                      .|++++|+..|++..+.   .| +...|..+..++.+.|++++ ++.|+++.+.+.. +...+..+..++.+.|++++|.
T Consensus       480 ~g~~~~A~~~~~~al~l---~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~  554 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDT---FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAV  554 (681)
T ss_dssp             HTCHHHHHHHHHHHHHH---STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHH
Confidence            77777777777777653   33 34567777777777777777 7777777765432 5667777777777777777777


Q ss_pred             HHHHHHHhCCCCCC-HHHHHHHHHHHHhcC
Q 042154          219 KIWETMVNMNVRPN-VRSYNARLDGLAIEK  247 (377)
Q Consensus       219 ~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~  247 (377)
                      +.|++..+.+  |+ ...+..+..++...+
T Consensus       555 ~~~~~al~l~--P~~~~a~~~~~~~~~~~~  582 (681)
T 2pzi_A          555 RTLDEVPPTS--RHFTTARLTSAVTLLSGR  582 (681)
T ss_dssp             HHHHTSCTTS--TTHHHHHHHHHHHTC---
T ss_pred             HHHHhhcccC--cccHHHHHHHHHHHHccC
Confidence            7777776654  33 445555666654433

>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=99.17  E-value=2.3e-09  Score=77.46  Aligned_cols=129  Identities=11%  Similarity=0.157  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 042154          129 SFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGF  208 (377)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  208 (377)
                      .|..+...+...|++++|..+++++.+.  .+.+...+..+...+...|++++|...++++.+.+. .+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC-CchHHHHHHHHHH
Confidence            3455555666666666666666665443  122344555566666666666666666666665432 2455566666666


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          209 YSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       209 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                      ...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++..
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            66666666666666666543 23455566666666666666666666666654

>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=99.15  E-value=1.9e-09  Score=82.35  Aligned_cols=159  Identities=12%  Similarity=0.047  Sum_probs=98.4

Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHH-HHH
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKA-FVD  175 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~  175 (377)
                      .+...+...|++++|...|++..+.. |.+...+..+...+...|++++|+..|++....   .|+...+...... +..
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHHh
Confidence            45666677777777777777766543 334566677777777777777777777776543   2233222222111 112


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 042154          176 KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRP-NVRSYNARLDGLAIEKQTKKALE  254 (377)
Q Consensus       176 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~  254 (377)
                      .++...+...+++..+... .+...+..+..++...|++++|...|+++.+....+ +...+..+...+...|+.++|..
T Consensus        87 ~~~~~~a~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           87 QAAESPELKRLEQELAANP-DNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HHTSCHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             hcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            2233345667777666532 256677777777777777777777777777654222 24466677777777777777777


Q ss_pred             HHHHHH
Q 042154          255 LVGEMR  260 (377)
Q Consensus       255 ~~~~~~  260 (377)
                      .|++..
T Consensus       166 ~y~~al  171 (176)
T 2r5s_A          166 KYRRQL  171 (176)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            777654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.14  E-value=4.8e-10  Score=93.02  Aligned_cols=180  Identities=11%  Similarity=0.003  Sum_probs=138.5

Q ss_pred             HHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHH
Q 042154           37 LKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFD  116 (377)
Q Consensus        37 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  116 (377)
                      .+.....+...     .+.+...+..+...+...|++++|+..++++....+..... +..+...+.+.|++++|...++
T Consensus       102 ~~~l~~~l~~~-----lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a-~~~la~~~~~~g~~~~A~~~l~  175 (287)
T 3qou_A          102 EEAIRALLDXV-----LPREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEI-GLLLAETLIALNRSEDAEAVLX  175 (287)
T ss_dssp             HHHHHHHHHHH-----SCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHH-HHHHHHHHHHTTCHHHHHHHHT
T ss_pred             HHHHHHHHHHH-----cCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhH-HHHHHHHHHHCCCHHHHHHHHH
Confidence            34444444444     24566778888889999999999999999998876544444 4469999999999999999999


Q ss_pred             hcCCCCCCccHHHHHHH-HHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 042154          117 EMPGRNCEQTVLSFNAL-LGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIR  195 (377)
Q Consensus       117 ~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  195 (377)
                      ++....  |+....... ...+.+.++.+.|+..|++....  -+.+...+..+...+...|++++|...|.++.+....
T Consensus       176 ~~~~~~--p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~--~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~  251 (287)
T 3qou_A          176 TIPLQD--QDTRYQGLVAQIELLXQAADTPEIQQLQQQVAE--NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLT  251 (287)
T ss_dssp             TSCGGG--CSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             hCchhh--cchHHHHHHHHHHHHhhcccCccHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccc
Confidence            998765  554433333 33467778888899999888764  2345678889999999999999999999999987433


Q ss_pred             C-CHHhHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 042154          196 L-DLITFNTLLLGFYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       196 ~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  226 (377)
                      . +...+..++..+...|+.++|...|++...
T Consensus       252 ~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          252 AADGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             GGGGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            2 267889999999999999999998887653

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.12  E-value=5.2e-09  Score=83.43  Aligned_cols=188  Identities=8%  Similarity=-0.003  Sum_probs=121.9

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCcc-chhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCcc---chh
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRT-NTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKE---GFT   95 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~   95 (377)
                      ++..+..+...+.+.|++++|+..|+.+.+.....| ....+..+..++.+.|++++|+..++++.+..+....   ..+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            345666777888999999999999999986541122 2357888899999999999999999998876544332   223


Q ss_pred             HHHHHHHHc------------------cCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhc
Q 042154           96 ARLIALYGK------------------AAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKL  157 (377)
Q Consensus        96 ~~l~~~~~~------------------~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  157 (377)
                       .+..++..                  .|++++|...|+++.+.. |-+..++......          ..+...+    
T Consensus        83 -~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l----------~~~~~~~----  146 (225)
T 2yhc_A           83 -MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRL----------VFLKDRL----  146 (225)
T ss_dssp             -HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHH----------HHHHHHH----
T ss_pred             -HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHH----------HHHHHHH----
Confidence             34444443                  456667777777666543 2222222211110          0000000    


Q ss_pred             CCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 042154          158 GIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLD--LITFNTLLLGFYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       158 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  228 (377)
                           ......+...+.+.|++++|...|+++.+......  ...+..+..+|.+.|++++|.+.++.+...+
T Consensus       147 -----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 -----AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             -----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             -----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                 01123456778888999999999988887632211  2467778888889999999999998888765

>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=99.11  E-value=2.9e-09  Score=89.26  Aligned_cols=127  Identities=9%  Similarity=0.027  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCC-CCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCC---CC--CHH
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKK----GIR-LDLITFNTLLLGFYSNGRFADAEKIWETMVNMNV---RP--NVR  234 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~  234 (377)
                      +|+.+...|...|++++|+..|++..+.    |-. ....++..+...|.. |++++|+..|++..+...   .+  ...
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~  156 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAE  156 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHH
Confidence            4444455555555555555555544321    100 012344455555555 666666665555443210   00  023


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSK----EINPD-VFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ++..+...|...|++++|+..|++....    +..+. ...+..+..++...|++++|...++
T Consensus       157 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~  219 (307)
T 2ifu_A          157 LIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVR  219 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            4555555566666666666666655442    11111 1134444445555566666666666

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.11  E-value=5.8e-09  Score=83.14  Aligned_cols=189  Identities=13%  Similarity=0.084  Sum_probs=128.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-C-CHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH----HH
Q 042154          162 DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIR-L-DLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNV----RS  235 (377)
Q Consensus       162 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~  235 (377)
                      +...+..+...+.+.|++++|...|+++.+.... + ....+..+..+|.+.|++++|+..|+++.+..  |+.    ..
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHH
Confidence            3445666777889999999999999999875332 1 13567778899999999999999999998764  332    23


Q ss_pred             HHHHHHHHHh------------------cCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 042154          236 YNARLDGLAI------------------EKQTKKALELVGEMRSKEINPDV-FTFYALIKGFVNEGNLEEAKRWYNKSGC  296 (377)
Q Consensus       236 ~~~l~~~~~~------------------~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  296 (377)
                      +..+..++..                  .|++++|...|+++.+.  .|+. .........-    .      +....  
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~----~------~~~~~--  146 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLV----F------LKDRL--  146 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHH----H------HHHHH--
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHH----H------HHHHH--
Confidence            4444555543                  45677777777777764  2332 2221111100    0      00000  


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHhhccCCceee
Q 042154          297 GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVD--QAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRY  369 (377)
Q Consensus       297 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  369 (377)
                         ......+...|.+.|++++|+..|+++++..+...  ...+..+..+|.+.|++++|.+.++.+...++.+.
T Consensus       147 ---~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          147 ---AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             ---HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             ---HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence               01123456788999999999999999998643311  24678899999999999999999999988776544

>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=99.10  E-value=1.5e-08  Score=79.94  Aligned_cols=175  Identities=11%  Similarity=-0.032  Sum_probs=120.3

Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----CHHHHHHHH
Q 042154          181 SANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEK----QTKKALELV  256 (377)
Q Consensus       181 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  256 (377)
                      +|++.|++..+.|   +...+..+...|...+++++|...|++..+.|   +...+..+...|.. +    ++++|+.+|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4566666666653   56667777777777788888888888877765   45666666666666 5    788888888


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHH-hcCCCCC---HHHHHHHHHHHHh----cCChHHHHHHHH
Q 042154          257 GEMRSKEINPDVFTFYALIKGFVN----EGNLEEAKRWYN-KSGCGMN---KAIFKLLVPFVCE----KGDLDFAFNLCK  324 (377)
Q Consensus       257 ~~~~~~g~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~-~~~~~~~---~~~~~~l~~~~~~----~g~~~~a~~~~~  324 (377)
                      ++..+.|   +...+..|...|..    .+++++|.++++ .....+.   +..+..|...|..    .+++++|++.|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            8877654   55666667777766    678888888888 3333332   5667777777777    677888888888


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhc-C-----CHHHHHHHHHhhccCCce
Q 042154          325 RTFSERCLVDQAPLQLVVDRLAKE-L-----RVEEAKELVELGKTNSYC  367 (377)
Q Consensus       325 ~~~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~~~~~~~~  367 (377)
                      +..+.  ..++..+..|...|... |     +.++|.++++++.+.|.+
T Consensus       154 ~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          154 GSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            87775  22445666677766543 3     778888888877776643

>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=3.6e-09  Score=98.61  Aligned_cols=174  Identities=10%  Similarity=0.028  Sum_probs=140.7

Q ss_pred             HhCCChhHHHHHHHhchh-----h-cCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC
Q 042154          138 VNSKKFDEVDGLFKDLPH-----K-LGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN  211 (377)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~-----~-~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  211 (377)
                      ...|++++|++.+++..+     . ...+.+...+..+..++...|++++|++.|+++.+.... +...+..+..+|...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHHc
Confidence            788999999999998861     0 022345568888899999999999999999999986433 778899999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 042154          212 GRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWY  291 (377)
Q Consensus       212 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~  291 (377)
                      |++++|...|++..+.. +.+...|..+..++.+.|++++ +..|++..+.. +.+...+..+..++...|++++|.+.+
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999999865 3356788899999999999999 99999998863 335778899999999999999999999


Q ss_pred             H-hcCCCCC-HHHHHHHHHHHHhcCC
Q 042154          292 N-KSGCGMN-KAIFKLLVPFVCEKGD  315 (377)
Q Consensus       292 ~-~~~~~~~-~~~~~~l~~~~~~~g~  315 (377)
                      + .....|+ ...+..+..++...++
T Consensus       558 ~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HhhcccCcccHHHHHHHHHHHHccCC
Confidence            9 5556675 4567777777766554

>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=99.08  E-value=7e-10  Score=82.31  Aligned_cols=143  Identities=10%  Similarity=-0.021  Sum_probs=76.0

Q ss_pred             HHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCC
Q 042154           28 IRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAM  107 (377)
Q Consensus        28 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  107 (377)
                      ...+...|++++|+..++......  +.+...+-.+...|...|++++|++.+++..+..+. +...+..+..+|...|+
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~~--p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPSP--RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCSH--HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcChHHHHHHHHHHhcccC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCc
Confidence            344555666666666666665432  334445556666666666666666666666655432 23333346666666666


Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHH-HHhchhhcCCCc-CHHHHHHHHHHHHHcC
Q 042154          108 FENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGL-FKDLPHKLGIEP-DLVSYNTIIKAFVDKG  177 (377)
Q Consensus       108 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~p-~~~~~~~l~~~~~~~~  177 (377)
                      +++|...|++..+.. |-+..+|..+...|.+.|++++|... +++..+.   .| ++.+|......+...|
T Consensus        81 ~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l---~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           81 TDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL---FPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH---STTCHHHHHHHHHHHHTCC
T ss_pred             hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHhC
Confidence            666666666665543 22455566666666666666554443 3444332   23 2334444444444433

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.08  E-value=7.2e-09  Score=85.89  Aligned_cols=158  Identities=9%  Similarity=0.022  Sum_probs=86.5

Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHH-HHHHHH
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTI-IKAFVD  175 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l-~~~~~~  175 (377)
                      .+...+...|++++|...|++..+.. |-+...+..+...+.+.|++++|...++++...   .|+....... ...+..
T Consensus       122 ~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~~~~~~l~~  197 (287)
T 3qou_A          122 QQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ---DQDTRYQGLVAQIELLX  197 (287)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG---GCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh---hcchHHHHHHHHHHHHh
Confidence            45555666666666666666665543 234555666666666666666666666665433   3333322221 222445


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHH
Q 042154          176 KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVR-PNVRSYNARLDGLAIEKQTKKALE  254 (377)
Q Consensus       176 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~  254 (377)
                      .++.+.|...+++...... .+...+..+...+...|++++|...|.++.+.... .+...+..++..+...|+.++|..
T Consensus       198 ~~~~~~a~~~l~~al~~~P-~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~  276 (287)
T 3qou_A          198 QAADTPEIQQLQQQVAENP-EDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALAS  276 (287)
T ss_dssp             HHTSCHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHH
T ss_pred             hcccCccHHHHHHHHhcCC-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHH
Confidence            5555556666666555432 24555666666666666666666666666654311 113455566666666666666665


Q ss_pred             HHHHH
Q 042154          255 LVGEM  259 (377)
Q Consensus       255 ~~~~~  259 (377)
                      .|++.
T Consensus       277 ~~r~a  281 (287)
T 3qou_A          277 XYRRQ  281 (287)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.06  E-value=9e-09  Score=83.30  Aligned_cols=197  Identities=13%  Similarity=-0.003  Sum_probs=144.4

Q ss_pred             hcccHHHHHHHHHhcccCCCCccchhhHHHH-------HHHHHhcCChHHHHHHHHHhhhhcCC-----Cc---------
Q 042154           33 KENNLKRLVDKFKKSSDLGRFRTNTGIYTGT-------VQRLANAKRFRWIEEILEHQKQYKDI-----SK---------   91 (377)
Q Consensus        33 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~---------   91 (377)
                      ..++...|.+.|.++.+..  |.....|..+       ...+.+.++..+++..+.......+.     .+         
T Consensus        18 ~~~d~~~A~~~F~~a~~~d--P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD--ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhC--hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccc
Confidence            5799999999999999876  6667788888       56777777777777666665542111     11         


Q ss_pred             ------cchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC--H
Q 042154           92 ------EGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD--L  163 (377)
Q Consensus        92 ------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~--~  163 (377)
                            ..+.-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+..... . .|.  .
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~  171 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAG  171 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHH
Confidence                  1222346778889999999999999998866  54446666777899999999999999866432 1 121  2


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 042154          164 VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLD--LITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYN  237 (377)
Q Consensus       164 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  237 (377)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++....  |+...+.
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~--P~~~~~~  245 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH--PEPKVAA  245 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--CCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHH
Confidence            3677888899999999999999999885433243  3356667778888999999999999998864  5533333

>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=99.06  E-value=6.6e-10  Score=82.45  Aligned_cols=111  Identities=9%  Similarity=-0.104  Sum_probs=48.5

Q ss_pred             HHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHH
Q 042154          102 YGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDS  181 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  181 (377)
                      +...|++++|+..++...... +.+...+..+...|.+.|++++|++.|++..+.  -+-+..+|..+..++.+.|++++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCchHH
Confidence            334444444444444444332 112223334444444555555555555444432  01123344444445555555555


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHH
Q 042154          182 ANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFAD  216 (377)
Q Consensus       182 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  216 (377)
                      |+..|++..+.... +...+..+...|.+.|++++
T Consensus        84 A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~  117 (150)
T 4ga2_A           84 AVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDG  117 (150)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSS
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHH
Confidence            55555544443221 34444444445554444443

>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=99.05  E-value=6e-09  Score=95.29  Aligned_cols=162  Identities=10%  Similarity=-0.003  Sum_probs=118.5

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          176 KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALEL  255 (377)
Q Consensus       176 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  255 (377)
                      .|++++|.+.++++.+... .+...+..+...+...|++++|.+.|++..+.. +.+...+..+...|...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRP-QDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4788999999999887643 367889999999999999999999999999875 34678899999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCC-CCHHHHHHHHHHHHhc---CChHHHHHHHHHHHhcC
Q 042154          256 VGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCG-MNKAIFKLLVPFVCEK---GDLDFAFNLCKRTFSER  330 (377)
Q Consensus       256 ~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~-~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~  330 (377)
                      +++..+.. +.+...+..+..++...|++++|.+.++ ..... .+...+..+..++...   |++++|.+.++++++.+
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            99998863 3357788999999999999999999999 22223 3577888899999999   99999999999999875


Q ss_pred             CCCChhhHHHH
Q 042154          331 CLVDQAPLQLV  341 (377)
Q Consensus       331 ~~~~~~~~~~l  341 (377)
                      .. +...+..+
T Consensus       159 p~-~~~~~~~l  168 (568)
T 2vsy_A          159 VG-AVEPFAFL  168 (568)
T ss_dssp             CC-CSCHHHHT
T ss_pred             Cc-ccChHHHh
Confidence            44 33444433

>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=99.03  E-value=1.2e-08  Score=85.50  Aligned_cols=224  Identities=12%  Similarity=0.038  Sum_probs=153.0

Q ss_pred             ccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHH
Q 042154          104 KAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSAN  183 (377)
Q Consensus       104 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  183 (377)
                      ..|++++|.+++++..+.. +.+         .+...++++.|...|.+.                ...|...|++++|.
T Consensus         3 ~~~~~~eA~~~~~~a~k~~-~~~---------~~~~~~~~~~A~~~~~~a----------------~~~~~~~g~~~~A~   56 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYL-KTS---------FMKWKPDYDSAASEYAKA----------------AVAFKNAKQLEQAK   56 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHH-CCC---------SSSCSCCHHHHHHHHHHH----------------HHHHHHTTCHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHc-ccc---------ccCCCCCHHHHHHHHHHH----------------HHHHHHcCCHHHHH
Confidence            3567788888887665421 111         011146677777766654                45677889999999


Q ss_pred             HHHHHHHHC----CCC-CCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHhcCCHHHH
Q 042154          184 TLLYEMEKK----GIR-LDLITFNTLLLGFYSNGRFADAEKIWETMVNM----NVRPN--VRSYNARLDGLAIEKQTKKA  252 (377)
Q Consensus       184 ~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a  252 (377)
                      ..|.+....    +-. .-..+|+.+...|...|++++|+..|++..+.    | .+.  ..++..+...|.. |++++|
T Consensus        57 ~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g-~~~~~a~~~~~lg~~~~~-g~~~~A  134 (307)
T 2ifu_A           57 DAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENG-TPDTAAMALDRAGKLMEP-LDLSKA  134 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHHTT-TCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHHHc-CCHHHH
Confidence            999887643    111 11457888899999999999999999987643    2 121  3567788888988 999999


Q ss_pred             HHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH-------hcCCCCC-HHHHHHHHHHHHhcCChHHH
Q 042154          253 LELVGEMRSK----EINP-DVFTFYALIKGFVNEGNLEEAKRWYN-------KSGCGMN-KAIFKLLVPFVCEKGDLDFA  319 (377)
Q Consensus       253 ~~~~~~~~~~----g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~~~~-~~~~~~l~~~~~~~g~~~~a  319 (377)
                      +..|++..+.    |..+ ...++..+...|...|++++|+..++       ..+..+. ...+..++.++...|++++|
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            9999988753    1111 14578889999999999999999999       1221111 22566677788888999999


Q ss_pred             HHHHHHHHhcCCCC-Ch---hhHHHHHHHHHhcCCHHHHHHH
Q 042154          320 FNLCKRTFSERCLV-DQ---APLQLVVDRLAKELRVEEAKEL  357 (377)
Q Consensus       320 ~~~~~~~~~~~~~~-~~---~~~~~l~~~~~~~g~~~~A~~~  357 (377)
                      ...|++.+ ..... +.   .....++.++ ..|+.+.+.++
T Consensus       215 ~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          215 QKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            99999998 43211 11   1344455555 57787766653

>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=1.1e-08  Score=93.57  Aligned_cols=154  Identities=8%  Similarity=-0.169  Sum_probs=91.8

Q ss_pred             cCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHH
Q 042154           70 AKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGL  149 (377)
Q Consensus        70 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  149 (377)
                      .|++++|++.++++.+..+. +...+..+...+...|++++|.+.|++..+.. +.+...+..+...|...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            35677777777776665332 23344457777777777777777777777654 34566777777777777777777777


Q ss_pred             HHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC---CCHHHHHHHHHHHHh
Q 042154          150 FKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN---GRFADAEKIWETMVN  226 (377)
Q Consensus       150 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~  226 (377)
                      |++..+.  .+.+...+..+..++.+.|++++|.+.+++..+... .+...+..+..++...   |++++|.+.+++..+
T Consensus        80 ~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           80 LQQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            7777653  122455677777777777777777777777776532 2556677777777777   777777777777776


Q ss_pred             CC
Q 042154          227 MN  228 (377)
Q Consensus       227 ~~  228 (377)
                      .+
T Consensus       157 ~~  158 (568)
T 2vsy_A          157 QG  158 (568)
T ss_dssp             HT
T ss_pred             cC
Confidence            54

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.02  E-value=3e-07  Score=76.09  Aligned_cols=215  Identities=8%  Similarity=-0.061  Sum_probs=123.4

Q ss_pred             CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCC--ChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHH----HHc---
Q 042154          107 MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSK--KFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAF----VDK---  176 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~----~~~---  176 (377)
                      ..++|+.+++.++..+ |-...+|+.--..+...+  ++++++..++.+...   .| +..+|+.-...+    ...   
T Consensus        48 ~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~---nPk~y~aW~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           48 YSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALD---NEKNYQIWNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHH---CTTCCHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHH---CcccHHHHHHHHHHHHHHHHhcccc
Confidence            3456777777776654 334556666666666666  677777777766653   22 223444433333    334   


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHH--HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC------
Q 042154          177 GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFA--DAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQ------  248 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------  248 (377)
                      +++++++++++.+.+.... +..+|+.-..++.+.|+++  ++++.++++.+.+ +-|...|+.....+...+.      
T Consensus       124 ~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhh
Confidence            5666777777777665333 6666666666666666666  6677777776654 2455666665555555554      


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHH---hcC--CCCCHHHHHHHHHHHHhcCChHHHHHH
Q 042154          249 TKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEE-AKRWYN---KSG--CGMNKAIFKLLVPFVCEKGDLDFAFNL  322 (377)
Q Consensus       249 ~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~---~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~  322 (377)
                      ++++++.++++.... +-|...|+.+...+.+.|+... +..+..   ..+  -..+...+..+..+|.+.|+.++|.++
T Consensus       202 ~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          202 IDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            666666666666542 2355566666556655555333 223333   111  123455566666666666666666666


Q ss_pred             HHHHHh
Q 042154          323 CKRTFS  328 (377)
Q Consensus       323 ~~~~~~  328 (377)
                      ++.+.+
T Consensus       281 ~~~l~~  286 (306)
T 3dra_A          281 YDLLKS  286 (306)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            666654

>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=1.9e-07  Score=77.27  Aligned_cols=223  Identities=9%  Similarity=-0.041  Sum_probs=135.2

Q ss_pred             hhccc-HHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcC--ChHHHHHHHHHhhhhcCCCccchhHHHHHHH----Hc
Q 042154           32 YKENN-LKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAK--RFRWIEEILEHQKQYKDISKEGFTARLIALY----GK  104 (377)
Q Consensus        32 ~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~  104 (377)
                      .+.|. .++|+..++.+...+  |.+..+|+.--..+...+  +++++++.++.+....+.....++ .-...+    ..
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~n--P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~-~R~~iL~~~~~~  119 (306)
T 3dra_A           43 MKAEEYSERALHITELGINEL--ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWN-YRQLIIGQIMEL  119 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHH-HHHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHC--cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHH-HHHHHHHHHHHh
Confidence            34443 468888888887765  556667777777777777  888888888888776544433333 222222    33


Q ss_pred             c---CCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChh--HHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC-
Q 042154          105 A---AMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFD--EVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS-  178 (377)
Q Consensus       105 ~---~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~-  178 (377)
                      .   +++++++.+++.+.+.. +-+..+|+.-.-.+.+.+.++  ++++.++++.+.  -.-|..+|+.-...+.+.+. 
T Consensus       120 l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~  196 (306)
T 3dra_A          120 NNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHL  196 (306)
T ss_dssp             TTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGG
T ss_pred             ccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcccc
Confidence            3   66777777777777654 446667776666666667766  777777777654  12344556555555555554 


Q ss_pred             -----HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHH-HHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHH
Q 042154          179 -----LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFAD-AEKIWETMVNMN--VRPNVRSYNARLDGLAIEKQTK  250 (377)
Q Consensus       179 -----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  250 (377)
                           ++++++.++.+....+. |...|+-+-..+.+.|+... +..+..++.+.+  -+.+...+..+...|.+.|+.+
T Consensus       197 ~~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~  275 (306)
T 3dra_A          197 ATDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYN  275 (306)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHH
T ss_pred             chhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHH
Confidence                 66666666666655433 66666666666666655332 334444443321  1235556666666666666666


Q ss_pred             HHHHHHHHHHh
Q 042154          251 KALELVGEMRS  261 (377)
Q Consensus       251 ~a~~~~~~~~~  261 (377)
                      +|.++++.+.+
T Consensus       276 ~A~~~~~~l~~  286 (306)
T 3dra_A          276 ESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            66666666654

>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=98.94  E-value=3.7e-07  Score=75.81  Aligned_cols=161  Identities=10%  Similarity=-0.026  Sum_probs=103.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCH----HhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC-CC----HHHHH
Q 042154          168 TIIKAFVDKGSLDSANTLLYEMEKKGI-RLDL----ITFNTLLLGFYSNGRFADAEKIWETMVNMNVR-PN----VRSYN  237 (377)
Q Consensus       168 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~  237 (377)
                      ..+..+...|++++|.+.+++..+... .++.    ..+..+...+...|++++|...|++..+.... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            345667778888888888888776422 2221    12334566666777888888888887763221 22    23577


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH-------hcCCCCC-HHHH
Q 042154          238 ARLDGLAIEKQTKKALELVGEMRSK-----EINPD-VFTFYALIKGFVNEGNLEEAKRWYN-------KSGCGMN-KAIF  303 (377)
Q Consensus       238 ~l~~~~~~~~~~~~a~~~~~~~~~~-----g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~~~~-~~~~  303 (377)
                      .+...|...|++++|+..|+++.+.     +..+. ..++..+...|.+.|++++|..+++       ..+..+. ..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            7778888888888888888877631     11112 2356677777778888888877777       2222222 4567


Q ss_pred             HHHHHHHHhcCC-hHHHHHHHHHHHh
Q 042154          304 KLLVPFVCEKGD-LDFAFNLCKRTFS  328 (377)
Q Consensus       304 ~~l~~~~~~~g~-~~~a~~~~~~~~~  328 (377)
                      ..+..++.+.|+ +++|.+.++++..
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            777777777774 5777777777654

>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=98.93  E-value=2.3e-07  Score=73.00  Aligned_cols=125  Identities=11%  Similarity=-0.010  Sum_probs=62.5

Q ss_pred             HHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC
Q 042154          132 ALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN  211 (377)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  211 (377)
                      .+...+...|++++|+..|++..     .|+...+..+...+...|++++|...+++..+.. +.+...+..+..+|...
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHc
Confidence            34444445555555555554442     2344455555555555555555555555554432 12344455555555555


Q ss_pred             CCHHHHHHHHHHHHhCCCC--------------C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          212 GRFADAEKIWETMVNMNVR--------------P-NVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       212 ~~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      |++++|...|++..+....              | ....+..+..+|...|++++|...|++..+.
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            5555555555555543210              0 1244555556666666666666666666553

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.92  E-value=4e-07  Score=81.20  Aligned_cols=202  Identities=10%  Similarity=-0.047  Sum_probs=128.7

Q ss_pred             hHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHH
Q 042154          144 DEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWET  223 (377)
Q Consensus       144 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  223 (377)
                      +.+..+|+++...  .+.+...|...+..+.+.|+++.|..++++....  +.+...+..    |....+.++.   ++.
T Consensus       196 ~Rv~~~ye~al~~--~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~---~~~  264 (493)
T 2uy1_A          196 SRMHFIHNYILDS--FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAV---YGD  264 (493)
T ss_dssp             HHHHHHHHHHHHH--TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHH---HHH
T ss_pred             HHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHH---HHH
Confidence            3456778877653  3445667877788888899999999999999887  333333322    2211111111   222


Q ss_pred             HHhCC---------C---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCCHHHHHHH
Q 042154          224 MVNMN---------V---RPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVN-EGNLEEAKRW  290 (377)
Q Consensus       224 ~~~~~---------~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~-~~~~~~a~~~  290 (377)
                      +.+.-         .   ......|...+....+.++.+.|..+|++. ... ..+...|......-.. .++.+.|..+
T Consensus       265 l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~i  342 (493)
T 2uy1_A          265 LKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNI  342 (493)
T ss_dssp             HHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHH
T ss_pred             HHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHH
Confidence            22110         0   011245666666666778899999999998 321 2344455432222222 3469999999


Q ss_pred             HH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          291 YN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       291 ~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      |+  ....+-++..+...++...+.|+.+.|..+|+++.+     ....|...+..-...|+.+.+.++++++.+
T Consensus       343 fe~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~k-----~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          343 FSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLEK-----TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSCC-----BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99  222222455566677878889999999999998732     466788888777788999999998888764

>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=98.92  E-value=7.2e-08  Score=75.88  Aligned_cols=126  Identities=10%  Similarity=-0.061  Sum_probs=91.3

Q ss_pred             HhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 042154          199 ITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGF  278 (377)
Q Consensus       199 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~  278 (377)
                      ..+..+...+...|++++|...|++..    .|+...+..+...|...|++++|+..|++..+.. +.+...+..+..++
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            345556677778888888888887663    4577788888888888888888888888877653 33566777788888


Q ss_pred             HhcCCHHHHHHHHH-hcCCCC-C----------------HHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          279 VNEGNLEEAKRWYN-KSGCGM-N----------------KAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       279 ~~~~~~~~a~~~~~-~~~~~~-~----------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      ...|++++|.+.++ .....| +                ...+..+..++...|++++|.+.|+++.+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            88888888888887 221111 1                256777777888888888888888887763

>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=98.90  E-value=6.1e-08  Score=80.57  Aligned_cols=205  Identities=9%  Similarity=-0.028  Sum_probs=145.7

Q ss_pred             CCCCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCC-Cc--
Q 042154           15 TATATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDI-SK--   91 (377)
Q Consensus        15 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~--   91 (377)
                      ....|+..+...+...+.-.-+     .++..-...  .......+...+..+...|++++|.+++++....... ++  
T Consensus        40 g~~~~~~~~l~~i~~~l~~~~~-----~~~~~~~~~--~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~  112 (293)
T 3u3w_A           40 GAVYPSMDILQGIAAKLQIPII-----HFYEVLIYS--DIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQ  112 (293)
T ss_dssp             TSCCCCHHHHHHHHHHHTCCTH-----HHHHTTTSS--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             CCCCCCHHHHHHHHHHhCcCHH-----HHhCCCCCC--cchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHH
Confidence            3445788888888777654322     223322211  1345667777788889999999999999998775322 22  


Q ss_pred             --cchhHHHHHHHHccCCHHHHHHHHHhcCCCCCC-cc----HHHHHHHHHHHHhCCChhHHHHHHHhchhh---c-CCC
Q 042154           92 --EGFTARLIALYGKAAMFENARKVFDEMPGRNCE-QT----VLSFNALLGACVNSKKFDEVDGLFKDLPHK---L-GIE  160 (377)
Q Consensus        92 --~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~-~~~  160 (377)
                        ..++..+...+...+++++|...|++..+.... ++    ..+++.+...|...|++++|+..|++..+.   . +..
T Consensus       113 ~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~  192 (293)
T 3u3w_A          113 QFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNE  192 (293)
T ss_dssp             HHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCH
T ss_pred             HHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccch
Confidence              123445777888888999999999987653211 22    336889999999999999999999988631   1 222


Q ss_pred             cC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCC-HHhHHHHHHHHHcCCC-HHHHHHHHHHHHh
Q 042154          161 PD-LVSYNTIIKAFVDKGSLDSANTLLYEMEKK----GIRLD-LITFNTLLLGFYSNGR-FADAEKIWETMVN  226 (377)
Q Consensus       161 p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~  226 (377)
                      +. ..++..+...|.+.|++++|...+++..+.    +..+. ..+|..+..+|.+.|+ +++|.+.|++...
T Consensus       193 ~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          193 EFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            33 337888999999999999999999887742    22222 6788889999999994 6999999987764

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.90  E-value=1.7e-07  Score=77.83  Aligned_cols=162  Identities=10%  Similarity=0.041  Sum_probs=74.2

Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCC-cc----HHHHHHHHHHHHhCCChhHHHHHHHhchhhcC--CCcC--HHHHHH
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCE-QT----VLSFNALLGACVNSKKFDEVDGLFKDLPHKLG--IEPD--LVSYNT  168 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~p~--~~~~~~  168 (377)
                      .+..+...|++++|.+.+.+..+.... ++    ...+..+...+...|++++|+..+++......  ..+.  ..+++.
T Consensus        81 ~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 2qfc_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHH
Confidence            444445555555555555443322100 00    11222334444555555555555555432100  0111  235555


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHH---C-CCCC--CHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC----CCC-CHHHHH
Q 042154          169 IIKAFVDKGSLDSANTLLYEMEK---K-GIRL--DLITFNTLLLGFYSNGRFADAEKIWETMVNMN----VRP-NVRSYN  237 (377)
Q Consensus       169 l~~~~~~~~~~~~a~~~~~~~~~---~-~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~  237 (377)
                      +...|...|++++|...++++.+   . +..+  ...++..+...|...|++++|...+++..+..    ... -..+|.
T Consensus       161 lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~  240 (293)
T 2qfc_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            55555566666666665555541   1 1011  11355555556666666666666665544321    101 134555


Q ss_pred             HHHHHHHhcCCHHHH-HHHHHHH
Q 042154          238 ARLDGLAIEKQTKKA-LELVGEM  259 (377)
Q Consensus       238 ~l~~~~~~~~~~~~a-~~~~~~~  259 (377)
                      .+...|...|++++| ...+++.
T Consensus       241 ~lg~~y~~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          241 QRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCcHHHHHHHHHHH
Confidence            555666666666666 4445443

>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=98.89  E-value=2e-08  Score=82.91  Aligned_cols=191  Identities=10%  Similarity=0.037  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDG  242 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  242 (377)
                      ...+..+...+.+.|++++|...|+++.+... .+...+..+..+|.+.|++++|...+++..+.. +.+...+..+..+
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            34455555666666666666666666665422 255556666666666666666666666666543 2345556666666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHH
Q 042154          243 LAIEKQTKKALELVGEMRSKEINPDV-FTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFA  319 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a  319 (377)
                      +...|++++|...|++..+..  |+. ..+...+....+.   .++.....  ......+......+...  ..|++++|
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~i~~~l~~l--~~~~~~~A  154 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRI---AKKKRWNSIEERRIHQESELHSYLTRL--IAAERERE  154 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHH---HHHHHHHHHHHTCCCCCCHHHHHHHHH--HHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHH---HHHHHHHHHHHHHHhhhHHHHHHHHHH--HHHHHHHH
Confidence            666666666666666655431  110 0011111111111   11111111  22223333333333222  25677777


Q ss_pred             HHHHHHHHhcCCCCChh-hHHHHHHHHHhc-CCHHHHHHHHHhhccC
Q 042154          320 FNLCKRTFSERCLVDQA-PLQLVVDRLAKE-LRVEEAKELVELGKTN  364 (377)
Q Consensus       320 ~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  364 (377)
                      ++.++++.+.  .|+.. ....+...+.+. +++++|.++|.++.+.
T Consensus       155 ~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          155 LEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            7777766653  33332 223333334443 5677777777777654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.88  E-value=2.1e-07  Score=77.30  Aligned_cols=162  Identities=11%  Similarity=0.001  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-----HhHHHHHHHHHcCCCHHHHHHHHHHHHhCCC---CCC--HH
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDL-----ITFNTLLLGFYSNGRFADAEKIWETMVNMNV---RPN--VR  234 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~  234 (377)
                      .+...+..+...|++++|.+.+.+..+.......     ..+..+...+...|++++|...+++..+...   .+.  ..
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            3444455566666666666666665554221110     1122334445555566666666665553211   111  23


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCC-------H
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSK-EINPD-----VFTFYALIKGFVNEGNLEEAKRWYN-KSGCGMN-------K  300 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-g~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~-------~  300 (377)
                      +|+.+...|...|++++|...|++..+. ...|+     ..++..+...|...|++++|..+++ .....++       .
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            4555555566666666666666555421 00111     1344555555555555555555555 1100011       3


Q ss_pred             HHHHHHHHHHHhcCChHHH-HHHHHHH
Q 042154          301 AIFKLLVPFVCEKGDLDFA-FNLCKRT  326 (377)
Q Consensus       301 ~~~~~l~~~~~~~g~~~~a-~~~~~~~  326 (377)
                      .+|..+..+|.+.|++++| ...+++.
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence            3444555555555555555 4444443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.83  E-value=6.5e-06  Score=73.43  Aligned_cols=327  Identities=9%  Similarity=0.007  Sum_probs=194.6

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCC-hHHHHHHHHHhhhh-c-CCCccchhHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKR-FRWIEEILEHQKQY-K-DISKEGFTARLI   99 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~-~-~~~~~~~~~~l~   99 (377)
                      .|...+..+-. |+++.+..+|+.....   .|+...|...+....+.+. .+....+|+.+... | ...+..++...+
T Consensus        17 vyer~l~~~P~-~~~e~~~~iferal~~---~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi   92 (493)
T 2uy1_A           17 IMEHARRLYMS-KDYRSLESLFGRCLKK---SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYI   92 (493)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHSTT---CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHH
T ss_pred             HHHHHHHHCCC-CCHHHHHHHHHHHhcc---CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHH
Confidence            45555555544 8899999999999874   4688899988887777663 45667778877664 3 233556666666


Q ss_pred             HHHH----ccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh-------------CCChhHHHHHHHhchhhcCCCcC
Q 042154          100 ALYG----KAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN-------------SKKFDEVDGLFKDLPHKLGIEPD  162 (377)
Q Consensus       100 ~~~~----~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------------~~~~~~a~~~~~~~~~~~~~~p~  162 (377)
                      ..+.    ..++.+.+.++|++.+......-...|......-..             .+.+..|..+++.+..... ..+
T Consensus        93 ~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~-~~s  171 (493)
T 2uy1_A           93 EEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIR-GWS  171 (493)
T ss_dssp             HHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-TCS
T ss_pred             HHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHh-hcc
Confidence            6544    246788899999999874211112222222211100             1122334444444322100 012


Q ss_pred             HHHHHHHHHHHHHcC--C-----HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHH
Q 042154          163 LVSYNTIIKAFVDKG--S-----LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRS  235 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~--~-----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  235 (377)
                      ...|...+..-...+  -     .+.+..+|+++.... +.+...|...+..+.+.|+.+.|..+|++....  +.+...
T Consensus       172 ~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l  248 (493)
T 2uy1_A          172 VKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFL  248 (493)
T ss_dssp             HHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHH
T ss_pred             HHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHH
Confidence            335555544322211  0     345778899988763 446788888899999999999999999999987  334333


Q ss_pred             HHHHHHHHHhcCCHHHHH-HHHHHHHhC-----CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHhcCCC-CCHHHHHH
Q 042154          236 YNARLDGLAIEKQTKKAL-ELVGEMRSK-----EINP---DVFTFYALIKGFVNEGNLEEAKRWYNKSGCG-MNKAIFKL  305 (377)
Q Consensus       236 ~~~l~~~~~~~~~~~~a~-~~~~~~~~~-----g~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~  305 (377)
                      |.    .|....+.++.. .+.+.....     +..+   ....|...+....+.++.+.|+.+|+....+ .+...|..
T Consensus       249 ~~----~y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A~~~~~~~~v~i~  324 (493)
T 2uy1_A          249 SL----YYGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIELGNEGVGPHVFIY  324 (493)
T ss_dssp             HH----HHHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHTTSCCCHHHHHH
T ss_pred             HH----HHHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHhhCCCCChHHHHH
Confidence            32    222222222221 122111000     0001   1245667777777788999999999933322 23444443


Q ss_pred             HHHHHHh-cCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          306 LVPFVCE-KGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       306 l~~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      ....-.. .++.+.|..+|+...+... -++..+...++...+.|+.+.|..+++++.
T Consensus       325 ~A~lE~~~~~d~~~ar~ife~al~~~~-~~~~~~~~yid~e~~~~~~~~aR~l~er~~  381 (493)
T 2uy1_A          325 CAFIEYYATGSRATPYNIFSSGLLKHP-DSTLLKEEFFLFLLRIGDEENARALFKRLE  381 (493)
T ss_dssp             HHHHHHHHHCCSHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHSC
T ss_pred             HHHHHHHHCCChHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3332222 3369999999999998642 245566677888889999999999999984

>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=98.82  E-value=2.1e-07  Score=69.83  Aligned_cols=126  Identities=8%  Similarity=-0.035  Sum_probs=76.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcC-CCCCHHHHHHHHHHHHh
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSG-CGMNKAIFKLLVPFVCE  312 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~-~~~~~~~~~~l~~~~~~  312 (377)
                      .+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...++ ... .+.+...+..+..++..
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            34455555666666666666666665542 2245566666666667777777777666 111 12345566677777777


Q ss_pred             cCChHHHHHHHHHHHhcCCCCChhhHHH--HHHHHHhcCCHHHHHHHHHhhc
Q 042154          313 KGDLDFAFNLCKRTFSERCLVDQAPLQL--VVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       313 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      .|++++|.+.++++.+.... +...+..  ++..+.+.|++++|.+.++...
T Consensus        94 ~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            77777777777777765432 3444432  3333666777777777766553

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.81  E-value=3.6e-08  Score=71.02  Aligned_cols=119  Identities=7%  Similarity=0.042  Sum_probs=75.7

Q ss_pred             CCCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhH
Q 042154           17 TATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTA   96 (377)
Q Consensus        17 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   96 (377)
                      .+.+...+..+...+...|++++|+..|++..+..  +.+...+..+...+...|++++|++.++++.+..+. +...+.
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~   88 (133)
T 2lni_A           12 NPDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN--PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYT   88 (133)
T ss_dssp             SSCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHH
Confidence            33456677777777888888888888888777654  445667777777777777777777777777665432 233333


Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN  139 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  139 (377)
                      .+..++...|++++|.+.|++..+.. +.+...+..+..++..
T Consensus        89 ~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~  130 (133)
T 2lni_A           89 RKAAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMA  130 (133)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHH
Confidence            56666667777777777776665543 2233444444444443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.80  E-value=2.5e-07  Score=66.06  Aligned_cols=96  Identities=14%  Similarity=0.100  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLA  244 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  244 (377)
                      .+......+.+.|++++|++.|++..+... .+...|..+..+|.+.|++++|+..|++.++.+ +.+...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDP-ENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            455555566666666666666666555432 245555666666666666666666666665543 234455556666666


Q ss_pred             hcCCHHHHHHHHHHHHhC
Q 042154          245 IEKQTKKALELVGEMRSK  262 (377)
Q Consensus       245 ~~~~~~~a~~~~~~~~~~  262 (377)
                      ..|++++|+..|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            666666666666666553

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.79  E-value=2e-08  Score=71.82  Aligned_cols=97  Identities=9%  Similarity=0.122  Sum_probs=52.2

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHH
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIAL  101 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  101 (377)
                      ..+......+.+.|++++|++.|++..+..  |.+...|..+..++...|++++|++.+++..+..+.....++ .+..+
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~-~lg~~   90 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD--PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYI-RKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH-HHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHH-HHHHH
Confidence            345555555666666666666666555543  444555555555555666666666665555554333222222 35555


Q ss_pred             HHccCCHHHHHHHHHhcCCC
Q 042154          102 YGKAAMFENARKVFDEMPGR  121 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~  121 (377)
                      +...|++++|.+.|++..+.
T Consensus        91 ~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH
Confidence            55555555555555555443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.79  E-value=1.5e-07  Score=76.12  Aligned_cols=123  Identities=14%  Similarity=-0.025  Sum_probs=61.2

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhc
Q 042154          204 LLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD--VFTFYALIKGFVNE  281 (377)
Q Consensus       204 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~--~~~~~~l~~~~~~~  281 (377)
                      +...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  ...+..+..++...
T Consensus       108 yA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~L  184 (282)
T 4f3v_A          108 FAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANL  184 (282)
T ss_dssp             HHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHC
Confidence            4445555566666666665555433  333233344445555666666666665443321 010  12444555555666


Q ss_pred             CCHHHHHHHHH--hcCCC-CC--HHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          282 GNLEEAKRWYN--KSGCG-MN--KAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       282 ~~~~~a~~~~~--~~~~~-~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      |++++|+..|+  ..+.. |.  .........++.+.|+.++|..+|+++...
T Consensus       185 G~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          185 ALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             TCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            66666666666  12211 32  223344444555666666666666666553

>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=3.3e-07  Score=68.75  Aligned_cols=127  Identities=9%  Similarity=0.068  Sum_probs=67.5

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 042154          129 SFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGF  208 (377)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  208 (377)
                      .+..+...+...|++++|...|++....  .+.+..++..+..++...|++++|...+++..+... .+...+..+..++
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~   91 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHH
Confidence            4445555556666666666666655443  122344555555666666666666666666655422 2455555566666


Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHH--HHHHHHhcCCHHHHHHHHHHH
Q 042154          209 YSNGRFADAEKIWETMVNMNVRPNVRSYNA--RLDGLAIEKQTKKALELVGEM  259 (377)
Q Consensus       209 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~~a~~~~~~~  259 (377)
                      ...|++++|...|++..+.. +.+...+..  .+..+...|++++|+..+...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            66666666666666655543 122333322  222244556666666555544

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.78  E-value=9e-08  Score=74.60  Aligned_cols=26  Identities=19%  Similarity=0.043  Sum_probs=15.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          303 FKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       303 ~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      +..+...+...|++++|.+.+++..+
T Consensus       150 ~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          150 FRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            44555566666666666666655544

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.78  E-value=6.3e-08  Score=75.49  Aligned_cols=85  Identities=13%  Similarity=0.042  Sum_probs=41.0

Q ss_pred             hhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcC-----CCccchhHHHHHHHHccC
Q 042154           32 YKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKD-----ISKEGFTARLIALYGKAA  106 (377)
Q Consensus        32 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~  106 (377)
                      ...|++++|.+.++.+....  .....++..+...+...|++++|...+++......     ......+..+...+...|
T Consensus         3 ~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAHP--ATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             ----CHHHHHHHHHHHHTST--TTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             cccccHHHHHHHHHHhcCCh--HHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            34677777777444333211  23455666666666677777777776666544211     011122233444455555


Q ss_pred             CHHHHHHHHHhc
Q 042154          107 MFENARKVFDEM  118 (377)
Q Consensus       107 ~~~~A~~~~~~~  118 (377)
                      ++++|...+++.
T Consensus        81 ~~~~A~~~~~~a   92 (203)
T 3gw4_A           81 NWDAARRCFLEE   92 (203)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            555555544443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.78  E-value=1.6e-07  Score=69.20  Aligned_cols=94  Identities=7%  Similarity=-0.111  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHh
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCE  312 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~  312 (377)
                      .+..+...+.+.|++++|+..|++..... +.+...|..+..+|...|++++|...|+ .....| ++..|..+..+|..
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~  116 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLR  116 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHH
Confidence            44455555556666666666666655542 2244555555566666666666666665 222222 34455555556666


Q ss_pred             cCChHHHHHHHHHHHhc
Q 042154          313 KGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       313 ~g~~~~a~~~~~~~~~~  329 (377)
                      .|++++|.+.|+++++.
T Consensus       117 lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          117 LKAPLKAKECFELVIQH  133 (151)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66666666666665553

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.76  E-value=5.5e-07  Score=63.69  Aligned_cols=95  Identities=12%  Similarity=0.206  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLA  244 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  244 (377)
                      .+..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~   88 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            44444455555555555555555554432 1234445555555555555555555555555432 223444555555555


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 042154          245 IEKQTKKALELVGEMRS  261 (377)
Q Consensus       245 ~~~~~~~a~~~~~~~~~  261 (377)
                      ..|++++|...++++.+
T Consensus        89 ~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHH
Confidence            55555555555555544

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.76  E-value=2.3e-08  Score=73.86  Aligned_cols=109  Identities=11%  Similarity=0.030  Sum_probs=75.2

Q ss_pred             HHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCC
Q 042154           44 FKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNC  123 (377)
Q Consensus        44 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  123 (377)
                      ++.+.+..  |.+...+..+...+.+.|++++|++.|+++....+. +...+..+..+|...|++++|+..|++..+.. 
T Consensus        25 l~~al~l~--p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-  100 (151)
T 3gyz_A           25 LKDINAIP--DDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-  100 (151)
T ss_dssp             TGGGCCSC--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHhCCC--HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-
Confidence            34444433  445666777777777788888888888877776543 33344457777778888888888887777654 


Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHhchhh
Q 042154          124 EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK  156 (377)
Q Consensus       124 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (377)
                      |.++..|..+..+|.+.|++++|+..|++..+.
T Consensus       101 P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          101 KNDYTPVFHTGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             SSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345667777777788888888888888777654

>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=98.74  E-value=7.6e-08  Score=79.44  Aligned_cols=192  Identities=7%  Similarity=-0.028  Sum_probs=120.0

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHH
Q 042154          126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTL  204 (377)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  204 (377)
                      +...+..+...+.+.|++++|+..|++....   .| +...|..+..++.+.|++++|...++++.+... .+...+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l   78 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFL   78 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHH
Confidence            4567777788888888888888888887754   33 566788888888888888888888888887643 367778888


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 042154          205 LLGFYSNGRFADAEKIWETMVNMNVRPNV-RSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGN  283 (377)
Q Consensus       205 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~  283 (377)
                      ..+|...|++++|...|++..+.+  |+. ..+...+....+   ..++.. +........+.+......+.. + ..|+
T Consensus        79 g~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~i~~~l~~-l-~~~~  150 (281)
T 2c2l_A           79 GQCQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALR---IAKKKR-WNSIEERRIHQESELHSYLTR-L-IAAE  150 (281)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHH---HHHHHH-HHHHHHTCCCCCCHHHHHHHH-H-HHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHH---HHHHHH-HHHHHHHHHhhhHHHHHHHHH-H-HHHH
Confidence            888888888888888888877542  211 011111111111   111111 112222223344444333322 2 2688


Q ss_pred             HHHHHHHHH-hcCCCCCHHH-HHHHHHHHHhc-CChHHHHHHHHHHHhc
Q 042154          284 LEEAKRWYN-KSGCGMNKAI-FKLLVPFVCEK-GDLDFAFNLCKRTFSE  329 (377)
Q Consensus       284 ~~~a~~~~~-~~~~~~~~~~-~~~l~~~~~~~-g~~~~a~~~~~~~~~~  329 (377)
                      .++|.+.++ .....|+... ...+...+.+. +.+++|.++|.++.+.
T Consensus       151 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          151 RERELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            888888887 5555665443 33344444444 6678888888877653

>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=6.7e-07  Score=63.25  Aligned_cols=112  Identities=14%  Similarity=0.144  Sum_probs=64.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHH
Q 042154          234 RSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVC  311 (377)
Q Consensus       234 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~  311 (377)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|..+++  ....+.+..++..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            445555555666666666666666655532 2244555566666666666666666666  1111334556666677777


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 042154          312 EKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAK  347 (377)
Q Consensus       312 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  347 (377)
                      ..|++++|...++++.+.... +...+..+..++..
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~  123 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAKQK  123 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHh
Confidence            777777777777777665432 44455555554443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.74  E-value=4.7e-07  Score=64.99  Aligned_cols=116  Identities=5%  Similarity=-0.091  Sum_probs=75.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHH
Q 042154          232 NVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPF  309 (377)
Q Consensus       232 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~  309 (377)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|.+.++ .... +.+...+..+..+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            44556666667777777777777777766642 2355666677777777777777777777 1112 3355677777777


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 042154          310 VCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKEL  349 (377)
Q Consensus       310 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  349 (377)
                      +...|++++|.+.|++..+.... +...+..+..++.+.|
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLDSS-CKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCGG-GTHHHHHHHHHHHHHT
T ss_pred             HHHHhhHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHhc
Confidence            88888888888888877765432 4455666666666554

>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=98.73  E-value=3.5e-06  Score=70.59  Aligned_cols=176  Identities=6%  Similarity=-0.069  Sum_probs=105.3

Q ss_pred             hhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcC-ChHHHHHHHHHhhhhcCCCccchhHHHHHHHHcc-C-C
Q 042154           31 IYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAK-RFRWIEEILEHQKQYKDISKEGFTARLIALYGKA-A-M  107 (377)
Q Consensus        31 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~  107 (377)
                      ..+.+..++|+++++.+...+  |.+..+|+.--..+...| .++++++.++.+....+.....+. .-..++.+. + +
T Consensus        64 ~~~~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~-hR~wlL~~l~~~~  140 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWH-HRLLLLDRISPQD  140 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHH-HHHHHHHHHCCSC
T ss_pred             HHhCCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHH-HHHHHHHHhcCCC
Confidence            334455567888888887765  556666777767776777 478888888887776544333333 344444444 5 6


Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChh--------HHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC-
Q 042154          108 FENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFD--------EVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS-  178 (377)
Q Consensus       108 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~-  178 (377)
                      +++++++++++.+.. +-+..+|+.-.-.+.+.+.++        ++++.++++.+.  ..-|..+|+.....+.+.+. 
T Consensus       141 ~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          141 PVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             CHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTC
T ss_pred             hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcccc
Confidence            778888888877765 446666666555555444444        666666666553  12344556665555555554 


Q ss_pred             ------HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC
Q 042154          179 ------LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR  213 (377)
Q Consensus       179 ------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  213 (377)
                            ++++++.++++....+. |...|+-+-..+.+.|+
T Consensus       218 ~~~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             ccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCC
Confidence                  45666666666655332 55555555544444443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.72  E-value=3.4e-07  Score=65.41  Aligned_cols=95  Identities=8%  Similarity=0.038  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 042154          129 SFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGF  208 (377)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  208 (377)
                      .+..+...+...|++++|...|++....  .+.+...+..+...+...|++++|...++...+... .+...+..+...+
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~   90 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDP-AYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCc-cCHHHHHHHHHHH
Confidence            3444444444444444444444444332  111233344444444444444444444444443311 1233444444444


Q ss_pred             HcCCCHHHHHHHHHHHHh
Q 042154          209 YSNGRFADAEKIWETMVN  226 (377)
Q Consensus       209 ~~~~~~~~a~~~~~~~~~  226 (377)
                      ...|++++|...|++..+
T Consensus        91 ~~~~~~~~A~~~~~~~~~  108 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALE  108 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHh
Confidence            444444444444444443

>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=98.72  E-value=5.7e-08  Score=71.67  Aligned_cols=98  Identities=5%  Similarity=-0.106  Sum_probs=48.1

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHH
Q 042154           56 NTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLG  135 (377)
Q Consensus        56 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  135 (377)
                      +...+..+...+...|++++|+..|+++....+. +...+..+..+|...|++++|...|++..... |.+...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            3444444555555555555555555555444322 22222235555555555555555555554432 223444555555


Q ss_pred             HHHhCCChhHHHHHHHhchh
Q 042154          136 ACVNSKKFDEVDGLFKDLPH  155 (377)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~  155 (377)
                      +|...|++++|...|++..+
T Consensus        98 ~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.71  E-value=4.6e-07  Score=64.73  Aligned_cols=116  Identities=8%  Similarity=-0.059  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcC-CCCCHHHHHHHHHHH
Q 042154          233 VRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSG-CGMNKAIFKLLVPFV  310 (377)
Q Consensus       233 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~-~~~~~~~~~~l~~~~  310 (377)
                      ...+..+...+...|++++|...+++..... +.+...+..+...+...|++++|.+.++ ... .+.+...+..+..++
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            3445555566666666666666666665542 2245566666666666777777776666 111 123455666677777


Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 042154          311 CEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELR  350 (377)
Q Consensus       311 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  350 (377)
                      ...|++++|.+.+++..+.... +...+..+..++.+.|+
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHhc
Confidence            7777777777777777765432 45566666666666655

>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=98.70  E-value=1.6e-05  Score=66.62  Aligned_cols=32  Identities=19%  Similarity=0.109  Sum_probs=23.7

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          298 MNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       298 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      +....+..+++.|...|+.++|.++++.+.+.
T Consensus       300 ~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          300 PVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            45667777777888888888888888877543

>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=98.69  E-value=4.8e-07  Score=76.65  Aligned_cols=130  Identities=11%  Similarity=-0.035  Sum_probs=71.5

Q ss_pred             CHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          197 DLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPN--------------VRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       197 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      +...+..+...|.+.|++++|...|++..+......              ...|..+..+|.+.|++++|+..+++.++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            455677777777777788888877777776531111              345555555566666666666666655554


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHH-HHHHHHHH
Q 042154          263 EINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFA-FNLCKRTF  327 (377)
Q Consensus       263 g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a-~~~~~~~~  327 (377)
                      . +.+...+..+..+|...|++++|...|+ .....| +...+..+..++.+.|+.++| ...|+.|.
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2 2234455555555555555555555555 212222 344455555555555555555 23444443

>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=98.68  E-value=6.6e-08  Score=73.73  Aligned_cols=122  Identities=9%  Similarity=0.094  Sum_probs=85.4

Q ss_pred             hhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHH-HHccCCH-
Q 042154           31 IYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIAL-YGKAAMF-  108 (377)
Q Consensus        31 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~-  108 (377)
                      +...|++++|+..|+...+..  +.+...|..+...+...|++++|+..++++....+.. ...+..+..+ +...|++ 
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~-~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGEN-AELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSC-HHHHHHHHHHHHHHTTTCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-HHHHHHHHHHHHHhcCCcc
Confidence            456778888888888877654  5567778888888888888888888888887765433 3344456666 6677887 


Q ss_pred             -HHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhh
Q 042154          109 -ENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK  156 (377)
Q Consensus       109 -~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (377)
                       ++|...|++..+.. +.+...+..+...+...|++++|...|++....
T Consensus        97 ~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           97 TAQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence             88888888877654 335667777777888888888888888877654

>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=98.67  E-value=1.7e-07  Score=71.43  Aligned_cols=121  Identities=6%  Similarity=0.048  Sum_probs=70.6

Q ss_pred             HhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHH-HHcCCCH--
Q 042154          138 VNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLG-FYSNGRF--  214 (377)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--  214 (377)
                      ...|++++|+..+++....  .+.+...|..+...+...|++++|...|+++.+... .+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcch
Confidence            3455666666666665543  123445666666666667777777777766665432 245555566666 5566666  


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          215 ADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      ++|...+++..+.. +.+...+..+...+...|++++|...|+++.+.
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            67777776666543 234555666666666677777777777666664

>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=98.66  E-value=1.7e-07  Score=69.08  Aligned_cols=98  Identities=14%  Similarity=-0.030  Sum_probs=53.2

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHH
Q 042154          126 TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLL  205 (377)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  205 (377)
                      +...+..+...+.+.|++++|+..|++....  -+.+...|..+..++...|++++|+..|+++..... .+...+..+.
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg   96 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI-XEPRFPFHAA   96 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHH
Confidence            3444555555556666666666666555432  122344555555556666666666666666555432 2444555555


Q ss_pred             HHHHcCCCHHHHHHHHHHHHh
Q 042154          206 LGFYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       206 ~~~~~~~~~~~a~~~~~~~~~  226 (377)
                      .+|...|++++|...|++..+
T Consensus        97 ~~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           97 ECLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            556666666666666655554

>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=98.64  E-value=7.6e-07  Score=75.46  Aligned_cols=128  Identities=8%  Similarity=-0.059  Sum_probs=69.5

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC----------------HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 042154          127 VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD----------------LVSYNTIIKAFVDKGSLDSANTLLYEME  190 (377)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~  190 (377)
                      ...+..+...+.+.|++++|+..|++....   .|+                ..+|..+..++.+.|++++|+..++++.
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  223 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSW---LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKAL  223 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            445555556666666666666666665543   222                2455555556666666666666666655


Q ss_pred             HCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH-HHHHHHH
Q 042154          191 KKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKA-LELVGEM  259 (377)
Q Consensus       191 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~  259 (377)
                      +... .+...+..+..+|...|++++|...|++..+.. +.+...+..+..++...|+.++| ...|+.|
T Consensus       224 ~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          224 ELDS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             HHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5432 245555555666666666666666666555543 22344555555555555555555 2344443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.63  E-value=4.8e-06  Score=73.14  Aligned_cols=200  Identities=10%  Similarity=-0.021  Sum_probs=141.5

Q ss_pred             HHHHhhhcccHHHHHHHHHhcccCCCCccch---------------hhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCC-
Q 042154           27 VIRGIYKENNLKRLVDKFKKSSDLGRFRTNT---------------GIYTGTVQRLANAKRFRWIEEILEHQKQYKDIS-   90 (377)
Q Consensus        27 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-   90 (377)
                      -.+.+.+.|++++|++.|..+.+...-..+.               ..+..++..|...|++++|.+.+..+....... 
T Consensus        10 ~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~   89 (434)
T 4b4t_Q           10 EARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFA   89 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence            3466788999999999999987654222221               237788999999999999999999877642222 


Q ss_pred             cc----chhHHHHHHHHccCCHHHHHHHHHhcCC----CC-CCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCC--
Q 042154           91 KE----GFTARLIALYGKAAMFENARKVFDEMPG----RN-CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGI--  159 (377)
Q Consensus        91 ~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--  159 (377)
                      ..    .+.+.+...+...|+.+.|..+++....    .+ ...-..++..+...|...|++++|..++++......-  
T Consensus        90 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~  169 (434)
T 4b4t_Q           90 KSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD  169 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS
T ss_pred             chHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc
Confidence            11    2233344455567889999988877532    11 1223567788899999999999999999887543211  


Q ss_pred             -Cc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCC--HHhHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 042154          160 -EP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKK----GIRLD--LITFNTLLLGFYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       160 -~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  226 (377)
                       .+ ...++..++..|...|++++|...+++....    +.++.  ...+..+...+...|++++|...|.+..+
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          170 DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence             12 2457888899999999999999999887642    11211  34566677778888999999988876653

>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=98.62  E-value=2.7e-08  Score=77.46  Aligned_cols=171  Identities=9%  Similarity=-0.046  Sum_probs=77.0

Q ss_pred             HHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCH
Q 042154           29 RGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMF  108 (377)
Q Consensus        29 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  108 (377)
                      ......|+++++.+.++.-....  ......+..+...+...|++++|++.+++.....+....... ..         .
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~-~~---------~   79 (198)
T 2fbn_A           12 SGRENLYFQGAKKSIYDYTDEEK--VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDD-QI---------L   79 (198)
T ss_dssp             ----------CCCSGGGCCHHHH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCC-HH---------H
T ss_pred             hhhhhhhhccccCchhhCCHHHH--HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccch-hh---------H
Confidence            34444566666666665433221  223445666677777777777777777777654322110000 00         0


Q ss_pred             HHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 042154          109 ENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYE  188 (377)
Q Consensus       109 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  188 (377)
                      ..-..          ......|..+..+|...|++++|+..+++....  .+.+...+..+..++...|++++|...|++
T Consensus        80 ~~~~~----------~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~  147 (198)
T 2fbn_A           80 LDKKK----------NIEISCNLNLATCYNKNKDYPKAIDHASKVLKI--DKNNVKALYKLGVANMYFGFLEEAKENLYK  147 (198)
T ss_dssp             HHHHH----------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHH----------HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            00000          001244555555566666666666666655443  122344555556666666666666666666


Q ss_pred             HHHCCCCCCHHhHHHHHHHHHcCCCHHHHH-HHHHHH
Q 042154          189 MEKKGIRLDLITFNTLLLGFYSNGRFADAE-KIWETM  224 (377)
Q Consensus       189 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~  224 (377)
                      ..+... .+...+..+..++...++..++. ..|..+
T Consensus       148 al~~~p-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  183 (198)
T 2fbn_A          148 AASLNP-NNLDIRNSYELCVNKLKEARKKDKLTFGGM  183 (198)
T ss_dssp             HHHHST-TCHHHHHHHHHHHHHHHHHHC---------
T ss_pred             HHHHCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            655422 24445555555555555444444 333333

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.60  E-value=3.5e-06  Score=74.05  Aligned_cols=22  Identities=9%  Similarity=0.138  Sum_probs=12.6

Q ss_pred             HHHHHccCCHHHHHHHHHhcCC
Q 042154           99 IALYGKAAMFENARKVFDEMPG  120 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~  120 (377)
                      ...+.+.|++++|++.|..+.+
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~   32 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLD   32 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHh
Confidence            3445556666666666665544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.58  E-value=4.4e-07  Score=66.34  Aligned_cols=98  Identities=8%  Similarity=-0.054  Sum_probs=52.3

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHH
Q 042154           56 NTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLG  135 (377)
Q Consensus        56 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  135 (377)
                      +...+..+...+...|++++|++.|+++....+. +...+..+..++...|++++|...|++..... |.+...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            3444445555555566666666666655554332 22233345555556666666666666555443 234445555555


Q ss_pred             HHHhCCChhHHHHHHHhchh
Q 042154          136 ACVNSKKFDEVDGLFKDLPH  155 (377)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~  155 (377)
                      ++...|++++|...|++...
T Consensus        95 ~~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            56666666666666655543

>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=98.58  E-value=4e-07  Score=65.10  Aligned_cols=97  Identities=13%  Similarity=0.140  Sum_probs=61.7

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCcc------chh
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKE------GFT   95 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~   95 (377)
                      ..+..+...+.+.|++++|+..|++..+..  |.+...|..+..++...|++++|++.+++..+..+....      ..+
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~--p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD--PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            356667777777788888888887777654  556667777777777777777777777776654322211      122


Q ss_pred             HHHHHHHHccCCHHHHHHHHHhcCC
Q 042154           96 ARLIALYGKAAMFENARKVFDEMPG  120 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~A~~~~~~~~~  120 (377)
                      ..+..++...|++++|++.|++...
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3344555555666666666555443

>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=98.57  E-value=1.9e-06  Score=61.52  Aligned_cols=104  Identities=11%  Similarity=0.129  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC--CCCC----HHHHHH
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN--VRPN----VRSYNA  238 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~  238 (377)
                      ++..+...+.+.|++++|+..|+++.+... .+...|..+..+|...|++++|++.+++.++..  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p-~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDP-SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            455555666666666666666666655432 245556666666666666666666666555421  0011    124455


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 042154          239 RLDGLAIEKQTKKALELVGEMRSKEINPDVFTF  271 (377)
Q Consensus       239 l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~  271 (377)
                      +..++...|++++|++.|++.+..  .||+.+.
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~  119 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSE--FRDPELV  119 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHH
Confidence            555666666666666666665552  3444433

>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=98.57  E-value=3e-06  Score=60.28  Aligned_cols=94  Identities=18%  Similarity=0.125  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 042154          166 YNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAI  245 (377)
Q Consensus       166 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  245 (377)
                      +......+.+.|++++|+..|++..+... .+...|..+..+|.+.|++++|+..+++..+.. +.+...|..+..++..
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   84 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHH
Confidence            34444444455555555555555444321 134444445555555555555555555544432 1234444444555555


Q ss_pred             cCCHHHHHHHHHHHHh
Q 042154          246 EKQTKKALELVGEMRS  261 (377)
Q Consensus       246 ~~~~~~a~~~~~~~~~  261 (377)
                      .|++++|...|++..+
T Consensus        85 ~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           85 VKEYASALETLDAART  100 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HhCHHHHHHHHHHHHH
Confidence            5555555555554444

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.55  E-value=1.3e-06  Score=63.85  Aligned_cols=97  Identities=13%  Similarity=-0.041  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 042154          127 VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLL  206 (377)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  206 (377)
                      ...+..+...+.+.|++++|+..|++....  -+.+...|..+..++...|++++|...|+++...... +...+..+..
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   94 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHH
Confidence            344445555566666666666666655443  1223445555556666666666666666666554322 4445555566


Q ss_pred             HHHcCCCHHHHHHHHHHHHh
Q 042154          207 GFYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       207 ~~~~~~~~~~a~~~~~~~~~  226 (377)
                      +|...|++++|...|++..+
T Consensus        95 ~~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666665554

>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=98.54  E-value=5.5e-06  Score=57.71  Aligned_cols=95  Identities=12%  Similarity=0.053  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 042154          129 SFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGF  208 (377)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  208 (377)
                      .+..+...+...|++++|...|++....  .+.+...+..+...+...|++++|...+++..+... .+...+..+..++
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~   82 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHHHH
Confidence            3444444444455555555555444332  111333444444444444555555544444444321 1333444444444


Q ss_pred             HcCCCHHHHHHHHHHHHh
Q 042154          209 YSNGRFADAEKIWETMVN  226 (377)
Q Consensus       209 ~~~~~~~~a~~~~~~~~~  226 (377)
                      ...|++++|...+++..+
T Consensus        83 ~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHT
T ss_pred             HHHhhHHHHHHHHHHHHH
Confidence            444444444444444443

>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=98.54  E-value=6.7e-06  Score=57.25  Aligned_cols=98  Identities=12%  Similarity=0.084  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDG  242 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  242 (377)
                      ...+..+...+...|++++|...++....... .+...+..+...+...|++++|...+++..+.. +.+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            34566666777777777777777777776532 256667777777777777777777777777654 2345666777777


Q ss_pred             HHhcCCHHHHHHHHHHHHhC
Q 042154          243 LAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~  262 (377)
                      +...|++++|...+++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhhHHHHHHHHHHHHHc
Confidence            77777777777777777664

>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=98.54  E-value=2.7e-06  Score=66.03  Aligned_cols=95  Identities=9%  Similarity=-0.206  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 042154          269 FTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLA  346 (377)
Q Consensus       269 ~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  346 (377)
                      ..+..+..+|...|++++|...++ .... +.+...+..+..+|...|++++|++.|++.++.... +...+..+..++.
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~  167 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHH
Confidence            556667777777777777777777 2222 335566777777778888888888888877775433 5556666777777


Q ss_pred             hcCCHHHHH-HHHHhhccC
Q 042154          347 KELRVEEAK-ELVELGKTN  364 (377)
Q Consensus       347 ~~g~~~~A~-~~~~~~~~~  364 (377)
                      ..|+.+++. ..+..+...
T Consensus       168 ~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          168 KLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHHHC------------
T ss_pred             HHHHHHHHHHHHHHHHhcc
Confidence            777766665 445554443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.53  E-value=4.8e-07  Score=62.67  Aligned_cols=100  Identities=12%  Similarity=-0.028  Sum_probs=57.8

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCC-CccchhHHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDI-SKEGFTARL   98 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l   98 (377)
                      +...+..+...+...|++++|+..|+++.+..  +.+...+..+...+...|++++|++.+++..+..+. .....+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHH
Confidence            45556666666666666777766666665543  344555666666666666666666666666554322 022333345


Q ss_pred             HHHHHcc-CCHHHHHHHHHhcCCC
Q 042154           99 IALYGKA-AMFENARKVFDEMPGR  121 (377)
Q Consensus        99 ~~~~~~~-~~~~~A~~~~~~~~~~  121 (377)
                      ..++... |++++|.+.+++....
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhc
Confidence            5566666 6666666666665544

>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=98.52  E-value=8.5e-05  Score=61.92  Aligned_cols=137  Identities=10%  Similarity=0.024  Sum_probs=71.1

Q ss_pred             ccCCH-HHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCC----------hhHHHHHHHhchhhcCCCcCHHHHHHHHHH
Q 042154          104 KAAMF-ENARKVFDEMPGRNCEQTVLSFNALLGACVNSKK----------FDEVDGLFKDLPHKLGIEPDLVSYNTIIKA  172 (377)
Q Consensus       104 ~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  172 (377)
                      +.|.+ ++|+.+++.+...+ |-+..+|+.--..+...+.          +++++.+++.+...  .+-+..+|+.-...
T Consensus        41 ~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~--~PKny~aW~hR~wl  117 (331)
T 3dss_A           41 QAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWL  117 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            34443 36777777777665 3344455544333333222          45555666555543  12233455554445


Q ss_pred             HHHcC--CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 042154          173 FVDKG--SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR-FADAEKIWETMVNMNVRPNVRSYNARLDGLAI  245 (377)
Q Consensus       173 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  245 (377)
                      +.+.+  ++++++.+++.+.+.... |...|+.-..++...|. ++++++.++++.+.. +-|...|+.....+..
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~  191 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQ  191 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             HhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
Confidence            55555  356666666666655333 55555555555555555 356666666666554 2355555555444443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.51  E-value=3.9e-06  Score=62.85  Aligned_cols=96  Identities=10%  Similarity=0.091  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 042154          127 VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLL  206 (377)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  206 (377)
                      ...+..+...+.+.|++++|+..|++..+..  +.+...|..+..++.+.|++++|+..+++..+.... +...|..+..
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   87 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            3344444444444444444444444443320  113334444444444444444444444444443211 3344444444


Q ss_pred             HHHcCCCHHHHHHHHHHHH
Q 042154          207 GFYSNGRFADAEKIWETMV  225 (377)
Q Consensus       207 ~~~~~~~~~~a~~~~~~~~  225 (377)
                      +|...|++++|...|++..
T Consensus        88 ~~~~~g~~~~A~~~~~~al  106 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGI  106 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHH
Confidence            4444444444444444444

>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=98.49  E-value=3.9e-06  Score=59.64  Aligned_cols=94  Identities=9%  Similarity=-0.077  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHh
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCE  312 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~  312 (377)
                      .+..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|...++ .....| +...|..+..++..
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   84 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            34445555555666666666666555532 2244555556666666666666666666 222222 34555666666666


Q ss_pred             cCChHHHHHHHHHHHhc
Q 042154          313 KGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       313 ~g~~~~a~~~~~~~~~~  329 (377)
                      .|++++|.+.|++..+.
T Consensus        85 ~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           85 VKEYASALETLDAARTK  101 (126)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             HhCHHHHHHHHHHHHHh
Confidence            66666666666666554

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.49  E-value=1.6e-06  Score=61.37  Aligned_cols=95  Identities=12%  Similarity=-0.087  Sum_probs=63.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 042154          271 FYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKE  348 (377)
Q Consensus       271 ~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  348 (377)
                      +..+...+.+.|++++|...++ .....| +...|..+..++...|++++|+..|++.++..+. +...+..+..+|.+.
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            3445556667777777777777 222233 5666777777777777777777777777776443 556677777777777


Q ss_pred             CCHHHHHHHHHhhccCCc
Q 042154          349 LRVEEAKELVELGKTNSY  366 (377)
Q Consensus       349 g~~~~A~~~~~~~~~~~~  366 (377)
                      |++++|.+.++++.+..+
T Consensus        99 g~~~~A~~~~~~al~~~P  116 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQP  116 (121)
T ss_dssp             HHHHHHHHHHHHHHC---
T ss_pred             CCHHHHHHHHHHHHHhCc
Confidence            778888777777776544

>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=98.48  E-value=3.4e-06  Score=60.87  Aligned_cols=99  Identities=13%  Similarity=0.072  Sum_probs=79.1

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHH
Q 042154          231 PNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVP  308 (377)
Q Consensus       231 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~  308 (377)
                      .+...+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...++ .... +.+...+..+..
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            466788888888999999999999999888753 3357788888888889999999999888 2222 335678888888


Q ss_pred             HHHhcCChHHHHHHHHHHHhcC
Q 042154          309 FVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       309 ~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      ++...|++++|...|+++.+..
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHC
Confidence            8999999999999998888753

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.48  E-value=2.9e-06  Score=58.58  Aligned_cols=96  Identities=14%  Similarity=0.086  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHH
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRP--NVRSYNARLDG  242 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~  242 (377)
                      .+..+...+...|++++|...++++.+... .+...+..+...+...|++++|...|++..+.. +.  +...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHH
Confidence            344444445555555555555555544322 234445555555555555555555555555443 12  34445555555


Q ss_pred             HHhc-CCHHHHHHHHHHHHhC
Q 042154          243 LAIE-KQTKKALELVGEMRSK  262 (377)
Q Consensus       243 ~~~~-~~~~~a~~~~~~~~~~  262 (377)
                      +... |++++|.+.+++....
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHhCCHHHHHHHHHHHhhc
Confidence            5555 5555555555555543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.48  E-value=1.4e-06  Score=65.39  Aligned_cols=97  Identities=7%  Similarity=0.017  Sum_probs=46.6

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHH
Q 042154           57 TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGA  136 (377)
Q Consensus        57 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  136 (377)
                      ...+..+...+...|++++|++.|++.....+. +...+..+..+|.+.|++++|+..|++..+.. +.+...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            334444444444555555555555544443322 22223334555555555555555555544433 2234455555555


Q ss_pred             HHhCCChhHHHHHHHhchh
Q 042154          137 CVNSKKFDEVDGLFKDLPH  155 (377)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~  155 (377)
                      |...|++++|+..|++..+
T Consensus        89 ~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHH
Confidence            5555555555555555543

>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=98.47  E-value=6.2e-06  Score=59.46  Aligned_cols=96  Identities=6%  Similarity=-0.075  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDG  242 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  242 (377)
                      ...+..+...+...|++++|...|........ .+...+..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   86 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHH
Confidence            33444444444455555555555544444321 134444444445555555555555555444432 1233444444445


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 042154          243 LAIEKQTKKALELVGEMR  260 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~  260 (377)
                      +...|++++|...|++..
T Consensus        87 ~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            555555555555554444

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.46  E-value=6e-07  Score=63.52  Aligned_cols=98  Identities=10%  Similarity=-0.069  Sum_probs=71.4

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHH
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIAL  101 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  101 (377)
                      ..+..+...+.+.|++++|+..|+.+.+..  |.+...|..+..++...|++++|+..+++..+..+.... .+..+..+
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~-~~~~la~~   94 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIA-VHAALAVS   94 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHH
Confidence            345566677778888888888888887765  556777788888888888888888888887776544333 33357778


Q ss_pred             HHccCCHHHHHHHHHhcCCCC
Q 042154          102 YGKAAMFENARKVFDEMPGRN  122 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~~  122 (377)
                      +...|++++|...|++..+..
T Consensus        95 ~~~~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           95 HTNEHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHcCCHHHHHHHHHHHHHhC
Confidence            888888888888888777653

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.46  E-value=2.7e-06  Score=62.27  Aligned_cols=101  Identities=7%  Similarity=-0.024  Sum_probs=74.0

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccc---hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTN---TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT   95 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   95 (377)
                      .+...+..+...+...|++++|+..|+...+..  +.+   ...+..+...+...|++++|++.+++.....+.. ...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGD-VKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCC-HHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccC-HHHH
Confidence            456678888888888999999999998887654  222   5677777888888888888888888877664332 3334


Q ss_pred             HHHHHHHHccCCHHHHHHHHHhcCCCC
Q 042154           96 ARLIALYGKAAMFENARKVFDEMPGRN  122 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~A~~~~~~~~~~~  122 (377)
                      ..+..++...|++++|...|++..+..
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            457777777888888888887776543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.45  E-value=1e-05  Score=59.03  Aligned_cols=96  Identities=13%  Similarity=-0.034  Sum_probs=54.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHH
Q 042154          232 NVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD----VFTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKL  305 (377)
Q Consensus       232 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~  305 (377)
                      +...+..+...+...|++++|...|++..+.  .|+    ...+..+..++...|++++|...++ .... +.+...+..
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  104 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYR  104 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHH
Confidence            3444555555555556666666666555543  233    3455555556666666666666666 1111 224455666


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhc
Q 042154          306 LVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       306 l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      +..++...|++++|.+.|++..+.
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc
Confidence            666666667777777777666664

>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=98.44  E-value=5e-06  Score=59.17  Aligned_cols=107  Identities=7%  Similarity=0.060  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-----hcCCCCC----HHHHHH
Q 042154          235 SYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-----KSGCGMN----KAIFKL  305 (377)
Q Consensus       235 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-----~~~~~~~----~~~~~~  305 (377)
                      .+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++     .....++    ..++..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            34444555555555555555555555432 2234455555555555666666665555     1111112    445666


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 042154          306 LVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDR  344 (377)
Q Consensus       306 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  344 (377)
                      +..++...|++++|.+.|+++.+..  |+......+..+
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~  121 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKCQQA  121 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHHHHH
Confidence            6677777777777777777777643  345444444433

>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=98.43  E-value=2e-06  Score=61.36  Aligned_cols=97  Identities=13%  Similarity=0.222  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCC----HHhH
Q 042154          128 LSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGI--RLD----LITF  201 (377)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~  201 (377)
                      ..+..+...+...|++++|...|++....  .+.+...+..+...+...|++++|...++++.....  .++    ..++
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            34444455555555555555555554432  122334444455555555555555555555443311  011    3344


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHh
Q 042154          202 NTLLLGFYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       202 ~~l~~~~~~~~~~~~a~~~~~~~~~  226 (377)
                      ..+..++...|++++|.+.|++..+
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHH
Confidence            4444455555555555555555444

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.40  E-value=1.2e-06  Score=65.19  Aligned_cols=62  Identities=8%  Similarity=-0.120  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcC--CC---CChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTFSER--CL---VDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      .+..+...+...|++++|.+.+++..+..  ..   ....++..+...+...|++++|.+.++++.+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            44555556666666666666666655431  00   0123455566667777777777777666543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.36  E-value=3.3e-06  Score=62.68  Aligned_cols=132  Identities=11%  Similarity=-0.069  Sum_probs=56.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCcc-----chhHHHHHHHHccCCHHHHHHHHHhcCCC----CCC-ccHH
Q 042154           59 IYTGTVQRLANAKRFRWIEEILEHQKQYKDISKE-----GFTARLIALYGKAAMFENARKVFDEMPGR----NCE-QTVL  128 (377)
Q Consensus        59 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~-~~~~  128 (377)
                      ++..+...+...|++++|++.+++..........     ..+..+...+...|++++|...+++..+.    +-+ ....
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            4444555555555555555555554433111100     12233444555555555555555443321    000 0123


Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHhchhhc---CCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 042154          129 SFNALLGACVNSKKFDEVDGLFKDLPHKL---GIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEME  190 (377)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  190 (377)
                      .+..+...+...|++++|...+++.....   +..+ ...++..+...+...|++++|.+.+++..
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            34444555555555555555555443210   0000 11234444444455555555555554443

>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=98.34  E-value=1e-05  Score=71.61  Aligned_cols=86  Identities=10%  Similarity=-0.011  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 042154          269 FTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLA  346 (377)
Q Consensus       269 ~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  346 (377)
                      ..|..+..+|.+.|++++|+..++ .... +.+...|..+..+|...|++++|+..|+++++.... +...+..+..++.
T Consensus       318 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~  396 (457)
T 1kt0_A          318 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            344455555555555555555555 1111 223444555555555555555555555555553322 3334455555555


Q ss_pred             hcCCHHHHH
Q 042154          347 KELRVEEAK  355 (377)
Q Consensus       347 ~~g~~~~A~  355 (377)
                      +.|+.++|.
T Consensus       397 ~~~~~~~a~  405 (457)
T 1kt0_A          397 KAKEHNERD  405 (457)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555443

>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=98.32  E-value=0.0004  Score=57.88  Aligned_cols=99  Identities=3%  Similarity=-0.080  Sum_probs=56.8

Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCC--ChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC-HHHHHH
Q 042154          108 FENARKVFDEMPGRNCEQTVLSFNALLGACVNSK--KFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS-LDSANT  184 (377)
Q Consensus       108 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~-~~~a~~  184 (377)
                      +++++.+++.+.... |-+..+|+.-.-.+...+  ++++++.+++++.+.  -+-+..+|+.-...+...|. ++++++
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel~  166 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELA  166 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHHH
Confidence            456666666666543 345666666555555555  366677777666653  12344555555555556665 466666


Q ss_pred             HHHHHHHCCCCCCHHhHHHHHHHHHc
Q 042154          185 LLYEMEKKGIRLDLITFNTLLLGFYS  210 (377)
Q Consensus       185 ~~~~~~~~~~~~~~~~~~~l~~~~~~  210 (377)
                      .++.+.+..+. |...|+.....+.+
T Consensus       167 ~~~~~I~~~p~-N~SAW~~R~~ll~~  191 (331)
T 3dss_A          167 FTDSLITRNFS-NYSSWHYRSCLLPQ  191 (331)
T ss_dssp             HHHHHHHHCSC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCC-CHHHHHHHHHHHHH
Confidence            66666665443 55555555544443

>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=98.31  E-value=2.5e-06  Score=75.85  Aligned_cols=84  Identities=15%  Similarity=0.192  Sum_probs=40.5

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 042154          207 GFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEE  286 (377)
Q Consensus       207 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~  286 (377)
                      .+.+.|++++|.+.|++..+.. +.+...|..+..+|.+.|++++|+..+++..+.. +.+...+..+..+|...|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            3444555555555555555432 1234445555555555555555555555555431 1233444444444444555555


Q ss_pred             HHHHHH
Q 042154          287 AKRWYN  292 (377)
Q Consensus       287 a~~~~~  292 (377)
                      |.+.++
T Consensus        93 A~~~~~   98 (477)
T 1wao_1           93 ALRDYE   98 (477)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            554444

>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=98.29  E-value=1.6e-05  Score=70.37  Aligned_cols=88  Identities=8%  Similarity=0.064  Sum_probs=40.1

Q ss_pred             HhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 042154          199 ITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGF  278 (377)
Q Consensus       199 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~  278 (377)
                      ..|..+..+|.+.|++++|+..+++.++.. +.+...|..+..+|...|++++|+..|++.++.. +-+...+..+..++
T Consensus       318 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~  395 (457)
T 1kt0_A          318 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQ  395 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344445555555555555555555554433 2234444445555555555555555555554431 11223444444444


Q ss_pred             HhcCCHHHHH
Q 042154          279 VNEGNLEEAK  288 (377)
Q Consensus       279 ~~~~~~~~a~  288 (377)
                      .+.++.+++.
T Consensus       396 ~~~~~~~~a~  405 (457)
T 1kt0_A          396 KKAKEHNERD  405 (457)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.29  E-value=7.3e-06  Score=58.36  Aligned_cols=93  Identities=10%  Similarity=-0.004  Sum_probs=44.3

Q ss_pred             HHHHHhhhcccHHHHHHHHHhcccCCCCccch---hhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCc--cchhHHHHH
Q 042154           26 SVIRGIYKENNLKRLVDKFKKSSDLGRFRTNT---GIYTGTVQRLANAKRFRWIEEILEHQKQYKDISK--EGFTARLIA  100 (377)
Q Consensus        26 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~  100 (377)
                      .+...+...|++++|+..|+.+.+..  +.+.   ..+..+..++...|++++|+..++++....+...  ...+..+..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHH
Confidence            34444555556666666655555432  2222   3444555555555555555555555554432221  111223445


Q ss_pred             HHHccCCHHHHHHHHHhcCC
Q 042154          101 LYGKAAMFENARKVFDEMPG  120 (377)
Q Consensus       101 ~~~~~~~~~~A~~~~~~~~~  120 (377)
                      ++...|++++|...|+++.+
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555444

>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=1.6e-07  Score=83.57  Aligned_cols=125  Identities=9%  Similarity=0.021  Sum_probs=96.8

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALY  102 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  102 (377)
                      .+..+...+.+.|++++|++.|+++.+..  +.+..+|..+..++.+.|++++|++.++++.+..+. +...+..+..+|
T Consensus         8 ~~~~lg~~~~~~g~~~~A~~~~~~Al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~   84 (477)
T 1wao_1            8 ELKTQANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASN   84 (477)
T ss_dssp             TSSSSSSSTTTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            34455567788999999999999998765  567889999999999999999999999999887543 344455689999


Q ss_pred             HccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHH--HHhCCChhHHHHHHH
Q 042154          103 GKAAMFENARKVFDEMPGRNCEQTVLSFNALLGA--CVNSKKFDEVDGLFK  151 (377)
Q Consensus       103 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  151 (377)
                      ...|++++|.+.|++..+.. +.+...+..+..+  +.+.|++++|++.++
T Consensus        85 ~~~g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           85 MALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHTCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999999987754 2344556555555  888899999999998

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.24  E-value=3.7e-05  Score=54.57  Aligned_cols=60  Identities=10%  Similarity=0.131  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHhHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 042154          166 YNTIIKAFVDKGSLDSANTLLYEMEKKGIRLD---LITFNTLLLGFYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       166 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  226 (377)
                      +..+..++...|++++|...++.+.+.... +   ...+..+..++...|++++|...|+++.+
T Consensus        42 ~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           42 LYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            333444444444444444444444433211 1   23333344444444444444444444443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.24  E-value=8.9e-07  Score=62.21  Aligned_cols=84  Identities=11%  Similarity=0.084  Sum_probs=33.2

Q ss_pred             ccHHHHHHHHHhcccCCC-CccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHH
Q 042154           35 NNLKRLVDKFKKSSDLGR-FRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARK  113 (377)
Q Consensus        35 ~~~~~A~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  113 (377)
                      |++++|+..|++..+.+. -+.+...+..+..++...|++++|++.+++..+..+.. ...+..+..++...|++++|..
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~-~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNH-QALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc-hHHHHHHHHHHHHcCCHHHHHH
Confidence            444444444444443210 02223344444444444444444444444444433222 1222234444444444444444


Q ss_pred             HHHhcC
Q 042154          114 VFDEMP  119 (377)
Q Consensus       114 ~~~~~~  119 (377)
                      .|++..
T Consensus        83 ~~~~al   88 (117)
T 3k9i_A           83 LLLKII   88 (117)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444433

>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=98.21  E-value=2.4e-05  Score=67.08  Aligned_cols=89  Identities=9%  Similarity=-0.122  Sum_probs=70.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 042154          267 DVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDR  344 (377)
Q Consensus       267 ~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  344 (377)
                      +...|..+..+|.+.|++++|++.++ .....| +...|..+..+|...|++++|++.|+++.+.... +...+..+..+
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~  350 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKV  350 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            34677888888889999999999998 444445 5678888888999999999999999999886543 66677778888


Q ss_pred             HHhcCCHHHHHH
Q 042154          345 LAKELRVEEAKE  356 (377)
Q Consensus       345 ~~~~g~~~~A~~  356 (377)
                      +...++.+++.+
T Consensus       351 ~~~~~~~~~a~k  362 (370)
T 1ihg_A          351 KQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            888888777654

>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=98.18  E-value=2.8e-05  Score=66.61  Aligned_cols=120  Identities=12%  Similarity=0.022  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHC---------------CCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCC
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKK---------------GIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNV  229 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  229 (377)
                      .+..+...+.+.|++++|++.|+++.+.               -.+.+...|..+..+|.+.|++++|+..+++.++.. 
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  303 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-  303 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-
Confidence            3556666777777777777777776651               001123344445555555555555555555555433 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 042154          230 RPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEE  286 (377)
Q Consensus       230 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~  286 (377)
                      +.+...|..+..+|...|++++|+..|++..+.. +.+...+..+..++...++.++
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~  359 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKD  359 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            1234444445555555555555555555544431 1133334444444444443333

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.18  E-value=4.4e-06  Score=58.59  Aligned_cols=84  Identities=12%  Similarity=0.091  Sum_probs=36.4

Q ss_pred             CChhHHHHHHHhchhhcCC-Cc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHH
Q 042154          141 KKFDEVDGLFKDLPHKLGI-EP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAE  218 (377)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  218 (377)
                      |++++|+..|++..+. +. .| +...+..+..++...|++++|+..|+++.+.... +...+..+..++...|++++|.
T Consensus         4 g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ---CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHH
Confidence            4455555555544421 10 12 2234444444555555555555555555444222 3444444444555555555555


Q ss_pred             HHHHHHHh
Q 042154          219 KIWETMVN  226 (377)
Q Consensus       219 ~~~~~~~~  226 (377)
                      ..|++...
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55544443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.17  E-value=1.5e-05  Score=58.30  Aligned_cols=63  Identities=11%  Similarity=-0.122  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhc-----CCCC-ChhhH----HHHHHHHHhcCCHHHHHHHHHhhccC
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTFSE-----RCLV-DQAPL----QLVVDRLAKELRVEEAKELVELGKTN  364 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~-~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~  364 (377)
                      .|..+..++.+.|++++|+..+++.++.     .+.| +...|    .....++...|++++|.+.|+++.+.
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            5555555666666666666666666553     0122 23345    55666666666666666666666543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.17  E-value=8.3e-06  Score=60.90  Aligned_cols=100  Identities=12%  Similarity=0.108  Sum_probs=56.8

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcccC--------CC--------CccchhhHHHHHHHHHhcCChHHHHHHHHHhh
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSSDL--------GR--------FRTNTGIYTGTVQRLANAKRFRWIEEILEHQK   84 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--------~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   84 (377)
                      ...+......+.+.|++++|+..|....+.        ..        .+.+...|..+..++...|++++|+..++++.
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            446777778888889999999988887654        00        01122345555555555555555555555555


Q ss_pred             hhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCC
Q 042154           85 QYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGR  121 (377)
Q Consensus        85 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  121 (377)
                      ...+.....++ .+..+|...|++++|...|++..+.
T Consensus        91 ~~~p~~~~a~~-~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KREETNEKALF-RRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHSTTCHHHHH-HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcCCcchHHHH-HHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            54332222222 3555555555555555555555443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.14  E-value=6.6e-06  Score=69.68  Aligned_cols=146  Identities=10%  Similarity=0.044  Sum_probs=66.6

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHH
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALY  102 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  102 (377)
                      .+..+...+.+.|++++|+..|++..+..   |+...       +...++.+++...+.          ...+..+..+|
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~---p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~  240 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAYM---GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHHS---CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHh---ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHH
Confidence            45555566666677777777776665432   22110       111222222222110          12444577777


Q ss_pred             HccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC-HHHHHHHHHH-HHHcCCHH
Q 042154          103 GKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD-LVSYNTIIKA-FVDKGSLD  180 (377)
Q Consensus       103 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~-~~~~~~~~  180 (377)
                      .+.|++++|+..+++..+.. +.+..+|..+..+|...|++++|+..|++..+.   .|+ ...+..+... ....+..+
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l---~p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY---APDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHHHHHHH
Confidence            78888888888887776654 345667777777888888888888888777532   343 3344444433 23345666


Q ss_pred             HHHHHHHHHHHC
Q 042154          181 SANTLLYEMEKK  192 (377)
Q Consensus       181 ~a~~~~~~~~~~  192 (377)
                      .+...|..|...
T Consensus       317 ~a~~~~~~~l~~  328 (338)
T 2if4_A          317 KQKEMYKGIFKG  328 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHHHhhCC
Confidence            777777777654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.14  E-value=3.7e-05  Score=57.27  Aligned_cols=28  Identities=14%  Similarity=0.138  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHhch
Q 042154          127 VLSFNALLGACVNSKKFDEVDGLFKDLP  154 (377)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~  154 (377)
                      ...+......+.+.|++++|+..|.+..
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al   38 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDAL   38 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445555555566666666666665554

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.11  E-value=7.8e-06  Score=69.24  Aligned_cols=150  Identities=10%  Similarity=-0.053  Sum_probs=73.7

Q ss_pred             CHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 042154          197 DLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIK  276 (377)
Q Consensus       197 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~  276 (377)
                      ....+..+...+.+.|++++|...|++.....  |+...       +...++.+++...+   .       ...|..+..
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l---~-------~~~~~nla~  238 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAV---K-------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHH---H-------THHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHH---H-------HHHHHHHHH
Confidence            35567777888888999999999999887753  44331       11223333332221   1       125666777


Q ss_pred             HHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHH-HHhcCCHHH
Q 042154          277 GFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDR-LAKELRVEE  353 (377)
Q Consensus       277 ~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~  353 (377)
                      +|.+.|++++|+..++ .....| +...|..+..+|...|++++|...|+++++.... +...+..+... ....+..++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence            7777888888887777 222233 5667777777788888888888888777664322 34444444444 233455667


Q ss_pred             HHHHHHhhccCCc
Q 042154          354 AKELVELGKTNSY  366 (377)
Q Consensus       354 A~~~~~~~~~~~~  366 (377)
                      +.+.+++|.+..+
T Consensus       318 a~~~~~~~l~~~p  330 (338)
T 2if4_A          318 QKEMYKGIFKGKD  330 (338)
T ss_dssp             -------------
T ss_pred             HHHHHHHhhCCCC
Confidence            7777777765543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.08  E-value=1.2e-05  Score=71.22  Aligned_cols=121  Identities=7%  Similarity=-0.064  Sum_probs=74.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhC-----CC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHH--------hcC-CCCCH-HHHHH
Q 042154          243 LAIEKQTKKALELVGEMRSK-----EI-NPD-VFTFYALIKGFVNEGNLEEAKRWYN--------KSG-CGMNK-AIFKL  305 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~-----g~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~-~~~~~-~~~~~  305 (377)
                      +...|++++|+.++++.++.     |. .|+ ..+++.|..+|...|++++|..+++        ..| ..|+. .+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            44667777777777666542     11 122 3466777777777777777777766        112 12222 35677


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhc---CCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          306 LVPFVCEKGDLDFAFNLCKRTFSE---RCLVD----QAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       306 l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      |...|...|++++|+.+++++++.   -..|+    ..+...+..++...|++++|..++.++.+
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777788888888888777776643   11122    12345566677777778888877777655

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.08  E-value=0.00055  Score=62.09  Aligned_cols=137  Identities=11%  Similarity=0.001  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHH
Q 042154          214 FADAEKIWETMVNMNVRPNVRSYNARLDGLAIEK--QTKKALELVGEMRSKEINPDVFTFYALIKGFVNEG-NLEEAKRW  290 (377)
Q Consensus       214 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~-~~~~a~~~  290 (377)
                      ++++++.++.+.+.. +-+..+|+.-...+.+.+  +++++++.++++.+.. +-+...|+.-..++.+.| .++++++.
T Consensus        89 ~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~  166 (567)
T 1dce_A           89 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  166 (567)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHH
Confidence            455555555555443 234445555555555555  4455555555555542 124444544444444555 55555555


Q ss_pred             HH-hcCCCC-CHHHHHHHHHHHHhc--------------CChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHH
Q 042154          291 YN-KSGCGM-NKAIFKLLVPFVCEK--------------GDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEE  353 (377)
Q Consensus       291 ~~-~~~~~~-~~~~~~~l~~~~~~~--------------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  353 (377)
                      ++ .....| |...|+.....+.+.              +.++++++.+++++...+. +...|..+...+.+.|+.++
T Consensus       167 ~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          167 TDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             HHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCSC
T ss_pred             HHHHHHHCCCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCccc
Confidence            55 222222 444555444443332              4578899999998887655 77788888888877777444

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.07  E-value=8.4e-05  Score=53.68  Aligned_cols=109  Identities=10%  Similarity=-0.036  Sum_probs=50.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHH
Q 042154          213 RFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVN----EGNLEEAK  288 (377)
Q Consensus       213 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~~~~~~a~  288 (377)
                      ++++|.+.|++..+.| .|+..    +...|...+.+++|+++|++..+.|   +...+..|...|..    .+++++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4555555555555554 12222    4444444445555555555555543   33444444444444    44555555


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHhc
Q 042154          289 RWYNKSGCGMNKAIFKLLVPFVCE----KGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       289 ~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~  329 (377)
                      ++++..-..-++..+..|...|..    .+++++|.+.|++..+.
T Consensus        82 ~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           82 QYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            555510001233444444444444    44555555555554444

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.02  E-value=0.00013  Score=53.42  Aligned_cols=96  Identities=10%  Similarity=0.026  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC------C-----HHhHHHHHHHHHcCCCHHHHHHHHHHHHhC-----CC
Q 042154          166 YNTIIKAFVDKGSLDSANTLLYEMEKKGIRL------D-----LITFNTLLLGFYSNGRFADAEKIWETMVNM-----NV  229 (377)
Q Consensus       166 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~  229 (377)
                      +......+.+.|++++|+..|++..+.....      +     ...|..+..++.+.|++++|+..+++.++.     .+
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            3444455556666666666666665432210      1     125666666666666666666666666653     01


Q ss_pred             CCC-HHHH----HHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          230 RPN-VRSY----NARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       230 ~~~-~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                      .|+ ...|    .....++...|++++|+..|++.++
T Consensus        94 ~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           94 NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            233 3445    5666666666666666666666654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.98  E-value=7.5e-05  Score=66.15  Aligned_cols=125  Identities=10%  Similarity=-0.015  Sum_probs=80.5

Q ss_pred             HHhCCChhHHHHHHHhchhhc----C-CCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CC--CCCHHhHHH
Q 042154          137 CVNSKKFDEVDGLFKDLPHKL----G-IEPD-LVSYNTIIKAFVDKGSLDSANTLLYEMEKK-----GI--RLDLITFNT  203 (377)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~~~----~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~--~~~~~~~~~  203 (377)
                      +...|++++|+.++++..+..    | -.|+ ..+++.+..+|...|++++|+.++++..+.     |.  +....+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            456788888888777665431    1 1122 346777888888888888888887776531     21  123456777


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHh-----CCC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          204 LLLGFYSNGRFADAEKIWETMVN-----MNV-RPN-VRSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       204 l~~~~~~~~~~~~a~~~~~~~~~-----~~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                      |...|...|++++|+.++++..+     .|. .|+ ..+.+.+..++...+.+++|+.+|.++++
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888776653     231 122 23345555666677777888877777765

>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=97.98  E-value=0.00032  Score=63.59  Aligned_cols=171  Identities=7%  Similarity=-0.070  Sum_probs=112.1

Q ss_pred             cHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCC----------hHHHHHHHHHhhhhcCCCccchhHHHHHHHHcc
Q 042154           36 NLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKR----------FRWIEEILEHQKQYKDISKEGFTARLIALYGKA  105 (377)
Q Consensus        36 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  105 (377)
                      .-++|++.++.+...+  |.+..+|+.--.++...|+          ++++++.++.+.+..+.....++ .-...+.+.
T Consensus        44 ~~eeal~~~~~~l~~n--P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~-hR~w~l~~l  120 (567)
T 1dce_A           44 LDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWH-HRCWLLSRL  120 (567)
T ss_dssp             CSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHH-HHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHH-HHHHHHHHc
Confidence            3457788888887765  5556667766666666666          78888888888776544433333 456666677


Q ss_pred             C--CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCC-ChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHc------
Q 042154          106 A--MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSK-KFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDK------  176 (377)
Q Consensus       106 ~--~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~------  176 (377)
                      +  +++++++.++++.+.. +-+..+|+.....+.+.| .++++++.++++.+.  .+-+..+|+.....+.+.      
T Consensus       121 ~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~--~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT--TCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHH--CCCCccHHHHHHHHHHhhcccccc
Confidence            7  6688888888887765 446777777777777777 777888888777653  233455666666655553      


Q ss_pred             --------CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC
Q 042154          177 --------GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR  213 (377)
Q Consensus       177 --------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  213 (377)
                              +.++++++.++++....+. +...|.-+-..+.+.++
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCC
T ss_pred             cccccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCC
Confidence                    3456777777776665332 55666666666655555

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.96  E-value=3.5e-06  Score=58.19  Aligned_cols=63  Identities=10%  Similarity=0.108  Sum_probs=32.2

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhh
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQY   86 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   86 (377)
                      ..+..+...+...|++++|+..|++..+..  +.+...+..+..++...|++++|++.+++....
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITAQ--PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            344455555555555555555555554433  334444555555555555555555555554443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.93  E-value=1.2e-05  Score=55.52  Aligned_cols=92  Identities=11%  Similarity=0.001  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC------hhhHH
Q 042154          268 VFTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVD------QAPLQ  339 (377)
Q Consensus       268 ~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~  339 (377)
                      ...+..+...+...|++++|.+.++ .... +.+...+..+..++...|++++|++.++++++.... +      ...+.
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~   82 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTST-AEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSS-TTSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ccHHHHHHHHHH
Confidence            3455566666666677777776666 1112 234556666777777777777777777777664322 2      33444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHh
Q 042154          340 LVVDRLAKELRVEEAKELVEL  360 (377)
Q Consensus       340 ~l~~~~~~~g~~~~A~~~~~~  360 (377)
                      .+..++...|+.+.|.+.+++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHHH
Confidence            455555555555555444433

>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=97.91  E-value=0.00066  Score=48.90  Aligned_cols=89  Identities=8%  Similarity=-0.105  Sum_probs=42.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042154          169 IIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYS----NGRFADAEKIWETMVNMNVRPNVRSYNARLDGLA  244 (377)
Q Consensus       169 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  244 (377)
                      +...|...+.+++|.++|++..+.|   +...+..+...|..    .+++++|.+.|++..+.|   +...+..+...|.
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~  104 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQY  104 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHH
Confidence            3344444444555555555555442   33444444444444    445555555555555443   3344444444444


Q ss_pred             h----cCCHHHHHHHHHHHHhCC
Q 042154          245 I----EKQTKKALELVGEMRSKE  263 (377)
Q Consensus       245 ~----~~~~~~a~~~~~~~~~~g  263 (377)
                      .    .++.++|..+|++..+.|
T Consensus       105 ~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A          105 AGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCC
Confidence            4    445555555555554443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.85  E-value=0.0001  Score=49.80  Aligned_cols=63  Identities=17%  Similarity=0.128  Sum_probs=38.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          267 DVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       267 ~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      +...+..+..+|...|++++|...++ .....| +...|..+..+|...|++++|++.|++.++.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45566666666667777777777666 222222 3455666666677777777777777666553

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.76  E-value=7.8e-05  Score=50.37  Aligned_cols=67  Identities=12%  Similarity=0.065  Sum_probs=53.8

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhh
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQY   86 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   86 (377)
                      |.++..+..+...+...|++++|+..|+++.+..  |.+...|..+..++...|++++|++.+++....
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETD--PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5567788888888888888888888888888765  556677888888888888888888888877654

>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=97.75  E-value=3e-05  Score=56.61  Aligned_cols=95  Identities=11%  Similarity=0.034  Sum_probs=65.0

Q ss_pred             hhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCCh----------HHHHHHHHHhhhhcCCCccchhHHHHH
Q 042154           31 IYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRF----------RWIEEILEHQKQYKDISKEGFTARLIA  100 (377)
Q Consensus        31 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~  100 (377)
                      ..+.+.+++|+..++...+..  |.+...|..+..++...+++          ++|+..|++..+..+.....++ .+..
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~--P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~-~LG~   88 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVW-CIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHH-HHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHH-HHHH
Confidence            345677889999999888776  66788888888888887765          4777777777777655444444 4777


Q ss_pred             HHHccC-----------CHHHHHHHHHhcCCCCCCccHHHH
Q 042154          101 LYGKAA-----------MFENARKVFDEMPGRNCEQTVLSF  130 (377)
Q Consensus       101 ~~~~~~-----------~~~~A~~~~~~~~~~~~~~~~~~~  130 (377)
                      +|...|           ++++|.+.|++..+..  |+...|
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~--P~~~~y  127 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ--PDNTHY  127 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC--TTCHHH
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHHhC--CCCHHH
Confidence            776654           5666666666655543  444333

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.74  E-value=0.00053  Score=44.86  Aligned_cols=61  Identities=13%  Similarity=0.260  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  226 (377)
                      .+..+...+...|++++|...+++..+... .+...+..+..++...|++++|...|++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            333344444444444444444444443321 1333444444444444444444444444443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.73  E-value=0.00041  Score=45.45  Aligned_cols=79  Identities=18%  Similarity=0.217  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 042154          269 FTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLA  346 (377)
Q Consensus       269 ~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  346 (377)
                      ..+..+...+...|++++|...++ .... +.+...+..+..++...|++++|.+.+++..+..+. +...+..+..++.
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~~   88 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHH
Confidence            345555566666666666666666 1111 224555666666777777777777777777665332 4455555555554


Q ss_pred             hc
Q 042154          347 KE  348 (377)
Q Consensus       347 ~~  348 (377)
                      +.
T Consensus        89 ~~   90 (91)
T 1na3_A           89 KQ   90 (91)
T ss_dssp             HH
T ss_pred             hc
Confidence            43

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.72  E-value=0.00037  Score=48.28  Aligned_cols=78  Identities=13%  Similarity=0.101  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          251 KALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       251 ~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      .|+..|++..+.. +.+...+..+...+...|++++|...++ .... +.+...|..+..+|...|++++|...|++.++
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5777888887753 3467788889999999999999999999 2222 33567888889999999999999999999887


Q ss_pred             c
Q 042154          329 E  329 (377)
Q Consensus       329 ~  329 (377)
                      .
T Consensus        82 ~   82 (115)
T 2kat_A           82 A   82 (115)
T ss_dssp             H
T ss_pred             h
Confidence            5

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.66  E-value=0.0007  Score=46.79  Aligned_cols=60  Identities=18%  Similarity=0.153  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMV  225 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  225 (377)
                      .+..+...+...|++++|+..+++..+... .+...+..+..+|...|++++|...|++..
T Consensus        21 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A           21 LRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444444444444444444444444443321 133344444444444444444444444433

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.54  E-value=0.0011  Score=55.62  Aligned_cols=74  Identities=15%  Similarity=0.034  Sum_probs=55.1

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHH
Q 042154          124 EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFN  202 (377)
Q Consensus       124 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  202 (377)
                      +.++.+|..+...+...|++++|...+++....   .|+...|..+...+.-.|++++|.+.++++...  .|...+|.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L---n~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDL---EMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence            456777777777777778888888888888765   367777777778888888888888888888776  34555554

>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=97.49  E-value=0.0003  Score=51.32  Aligned_cols=36  Identities=6%  Similarity=-0.032  Sum_probs=14.7

Q ss_pred             CChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154          141 KKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      +.+++|.+.+++..+.  -+.+...|..+..++...++
T Consensus        16 ~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~   51 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQ   51 (158)
T ss_dssp             HHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcc
Confidence            3344444444444332  01233344444444444433

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.32  E-value=0.002  Score=42.59  Aligned_cols=63  Identities=10%  Similarity=-0.069  Sum_probs=29.0

Q ss_pred             CHHHHHHHHHHHHhcCC---HHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          267 DVFTFYALIKGFVNEGN---LEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       267 ~~~~~~~l~~~~~~~~~---~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      +...+..+..++...++   .++|..+++ .....| ++.....+...+.+.|++++|+..|+++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34444444444433322   455555555 222222 3344444445555555555555555555554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.30  E-value=0.00073  Score=45.18  Aligned_cols=60  Identities=3%  Similarity=0.047  Sum_probs=41.3

Q ss_pred             HHHHhhhcccHHHHHHHHHhcccCCCCccchh-hHHHHHHHHHhcCChHHHHHHHHHhhhhcC
Q 042154           27 VIRGIYKENNLKRLVDKFKKSSDLGRFRTNTG-IYTGTVQRLANAKRFRWIEEILEHQKQYKD   88 (377)
Q Consensus        27 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   88 (377)
                      ....+.+.|++++|+..|+.+.+..  +.+.. .+..+..++...|++++|++.+++..+..+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p   66 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE--PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNP   66 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            3455666777777777777776654  44555 677777777777777777777777766543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.26  E-value=0.0098  Score=56.63  Aligned_cols=102  Identities=10%  Similarity=0.101  Sum_probs=53.2

Q ss_pred             HHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHH
Q 042154           96 ARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVD  175 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  175 (377)
                      ..++..+.+.|..++|.++.+.       |.     .-.......|+++.|.++.+.+.       +...|..+...+.+
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~~~A~~~~~~~~-------~~~~W~~la~~al~  693 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQLTLARDLLTDES-------AEMKWRALGDASLQ  693 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCHHHHHHHHTTCC-------CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCHHHHHHHHHhhC-------cHhHHHHHHHHHHH
Confidence            3455566666666666654421       10     11223445666666666654442       44566666666666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 042154          176 KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMV  225 (377)
Q Consensus       176 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  225 (377)
                      .++++.|++.|..+..         |..+...+...|+.+...++-+...
T Consensus       694 ~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~  734 (814)
T 3mkq_A          694 RFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAE  734 (814)
T ss_dssp             TTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHH
Confidence            6666666666665532         2334444444555554444433333

>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=97.22  E-value=0.00074  Score=58.81  Aligned_cols=61  Identities=3%  Similarity=-0.087  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhc-----CC-CCCh-hhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTFSE-----RC-LVDQ-APLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      +++.|..+|...|++++|+.+++++++.     |. .|+. .+++.|...|...|++++|..+++++.
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            3445555555555555555555554432     11 1111 134455555555555555555555543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.22  E-value=0.014  Score=55.51  Aligned_cols=191  Identities=12%  Similarity=0.052  Sum_probs=100.8

Q ss_pred             HHHHccCCHHHHHH-HHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154          100 ALYGKAAMFENARK-VFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus       100 ~~~~~~~~~~~A~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      ......+++++|.+ ++..+.      +......++..+.+.|.++.|+++.+.-..             -.......|+
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i~------~~~~~~~~~~~l~~~~~~~~a~~~~~~~~~-------------~f~~~l~~~~  667 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNVE------GKDSLTKIARFLEGQEYYEEALNISPDQDQ-------------KFELALKVGQ  667 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGCC------CHHHHHHHHHHHHHTTCHHHHHHHCCCHHH-------------HHHHHHHHTC
T ss_pred             hHHHHhCCHHHHHHHHHhcCC------chHHHHHHHHHHHhCCChHHheecCCCcch-------------heehhhhcCC
Confidence            34445677777766 443322      022236666777777777777765532211             1233456778


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGE  258 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (377)
                      ++.|.++.+.+      .+...|..+...+.+.++++.|.+.|.++..         |..+...+...|+.+....+-+.
T Consensus       668 ~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~  732 (814)
T 3mkq_A          668 LTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKD  732 (814)
T ss_dssp             HHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHH
Confidence            88777775333      3566777788888888888888777776542         22233334445555544444333


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCh---
Q 042154          259 MRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQ---  335 (377)
Q Consensus       259 ~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---  335 (377)
                      ....|.      ++....+|.+.|++++|.                   +.|.+.+++++|..+-+.     ..|..   
T Consensus       733 a~~~~~------~~~A~~~~~~~g~~~~a~-------------------~~~~~~~~~~~A~~lA~~-----~~~~~~~i  782 (814)
T 3mkq_A          733 AETTGK------FNLAFNAYWIAGDIQGAK-------------------DLLIKSQRFSEAAFLGST-----YGLGDNEV  782 (814)
T ss_dssp             HHHTTC------HHHHHHHHHHHTCHHHHH-------------------HHHHHTTCHHHHHHHHHH-----TTCCHHHH
T ss_pred             HHHcCc------hHHHHHHHHHcCCHHHHH-------------------HHHHHcCChHHHHHHHHH-----hCCChHHH
Confidence            333221      122222333344444443                   345566666666665443     22333   


Q ss_pred             -hhHHHHHHHHHhcCCHHHH
Q 042154          336 -APLQLVVDRLAKELRVEEA  354 (377)
Q Consensus       336 -~~~~~l~~~~~~~g~~~~A  354 (377)
                       .........+...|+.+.|
T Consensus       783 ~~~~~~~~~~L~~~~~~~~a  802 (814)
T 3mkq_A          783 NDIVTKWKENLILNGKNTVS  802 (814)
T ss_dssp             HHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHHHHHHHHHhccchhHH
Confidence             3444444555666665443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.20  E-value=0.019  Score=40.03  Aligned_cols=141  Identities=13%  Similarity=0.071  Sum_probs=95.6

Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 042154          208 FYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEA  287 (377)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a  287 (377)
                      +.-.|..++..++..+....   .+..-||-+|--....-+-+-..+.++.+-..   .|..          ..|+....
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDis----------~C~NlKrV   80 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDLD----------KCQNLKSV   80 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCGG----------GCSCTHHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCcH----------hhhcHHHH
Confidence            34467778888888777764   35566666666666666666666666655432   2211          22333333


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCce
Q 042154          288 KRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYC  367 (377)
Q Consensus       288 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  367 (377)
                      ...+-..+  .+...+...+..+...|+-++-.+++..+.. +..|++...-.+..+|.+.|+..+|.++++++.++|..
T Consensus        81 i~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           81 VECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            33333222  3445666778888999999999999988655 45678888889999999999999999999999998864

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.13  E-value=0.0019  Score=56.24  Aligned_cols=89  Identities=13%  Similarity=0.064  Sum_probs=47.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCC---CCCC----HHHHHHHHHHHHhcCCHHHHHHHHH--------hcC-CCCCH-HHH
Q 042154          241 DGLAIEKQTKKALELVGEMRSKE---INPD----VFTFYALIKGFVNEGNLEEAKRWYN--------KSG-CGMNK-AIF  303 (377)
Q Consensus       241 ~~~~~~~~~~~a~~~~~~~~~~g---~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~-~~~~~-~~~  303 (377)
                      ..+.+.|++++|+.++++.++..   +.|+    ..+++.+..+|...|++++|..+++        ..| ..|+. .++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            33445566666666666665431   1111    2355666666666666666666655        111 12222 245


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          304 KLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       304 ~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      +.|...|...|++++|+.+++++++.
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~i  400 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFDI  400 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            55666666666666666666666554

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.12  E-value=0.0071  Score=50.77  Aligned_cols=73  Identities=11%  Similarity=0.078  Sum_probs=44.9

Q ss_pred             CCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 042154          196 LDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFY  272 (377)
Q Consensus       196 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~  272 (377)
                      .+..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.|++....  .|...+|.
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence            355566665555555566777777776666654  56555656666666667777777666666653  45555543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.03  E-value=0.004  Score=41.07  Aligned_cols=69  Identities=10%  Similarity=0.011  Sum_probs=44.3

Q ss_pred             CCCchHHHHHHHHhhhccc---HHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcC
Q 042154           18 ATGPKFIGSVIRGIYKENN---LKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKD   88 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~---~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   88 (377)
                      |.++..+..+..++...++   .++|..+|++..+.+  |.+......+...+...|++++|+..|+++....+
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d--p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p   74 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE--PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSND   74 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            5566666666666654433   567777777776655  55566666666666777777777777777666543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.97  E-value=0.0022  Score=42.75  Aligned_cols=83  Identities=18%  Similarity=0.099  Sum_probs=60.7

Q ss_pred             HHHHHHhcCCHHHHHHHHH-hcCCCC-CHH-HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 042154          274 LIKGFVNEGNLEEAKRWYN-KSGCGM-NKA-IFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELR  350 (377)
Q Consensus       274 l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  350 (377)
                      ....+...|++++|.+.++ .....| +.. .+..+..+|...|++++|.+.|++.++.... +...+..        +.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~--------~~   76 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPD-SPALQAR--------KM   76 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHH--------HH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHH--------HH
Confidence            4567788999999999999 222334 566 8888899999999999999999999986543 3333311        56


Q ss_pred             HHHHHHHHHhhccCC
Q 042154          351 VEEAKELVELGKTNS  365 (377)
Q Consensus       351 ~~~A~~~~~~~~~~~  365 (377)
                      +.++...+++..+..
T Consensus        77 ~~~a~~~~~~~~~~~   91 (99)
T 2kc7_A           77 VMDILNFYNKDMYNQ   91 (99)
T ss_dssp             HHHHHHHHCCTTHHH
T ss_pred             HHHHHHHHHHHhccC
Confidence            677777777665443

>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=96.92  E-value=0.003  Score=55.05  Aligned_cols=88  Identities=9%  Similarity=0.069  Sum_probs=56.5

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCC---CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCCC-HHH
Q 042154          205 LLGFYSNGRFADAEKIWETMVNMN---VRPN----VRSYNARLDGLAIEKQTKKALELVGEMRSK-----E-INPD-VFT  270 (377)
Q Consensus       205 ~~~~~~~~~~~~a~~~~~~~~~~~---~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----g-~~p~-~~~  270 (377)
                      +..+.+.|++++|+.++++..+..   +.|+    ..+++.+..+|...|++++|+.++++.++.     | ..|+ ..+
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            445556677777777777776431   1121    345677777777777787777777766532     2 1233 245


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHH
Q 042154          271 FYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       271 ~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ++.|...|...|++++|..+++
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~  395 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLR  395 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHH
Confidence            6777777777777777777766

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.84  E-value=0.064  Score=37.44  Aligned_cols=149  Identities=17%  Similarity=0.157  Sum_probs=92.8

Q ss_pred             HHHHHHHH--hhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHH
Q 042154           23 FIGSVIRG--IYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIA  100 (377)
Q Consensus        23 ~~~~li~~--~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  100 (377)
                      +...|+.+  +.-.|..++..++..+.....    +..-|+.+|--....-+-+-..+.++.+-+.-..           
T Consensus         7 l~kkLmeAK~~ildG~v~qGveii~k~~~ss----ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi-----------   71 (172)
T 1wy6_A            7 IIRKLMDAKKFLLDGYIDEGVKIVLEITKSS----TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL-----------   71 (172)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS----CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG-----------
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHcCCC----CccccceeeeecchhhchhHHHHHHHHHhhhcCc-----------
Confidence            44445544  334677777888877776432    4445666666666666666666666665443211           


Q ss_pred             HHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHH
Q 042154          101 LYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLD  180 (377)
Q Consensus       101 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  180 (377)
                        ..+|++......+-.+-.     +.......++.+..+|+-++..+++..+..  +.+|++...-.+..+|.+.|+..
T Consensus        72 --s~C~NlKrVi~C~~~~n~-----~se~vd~ALd~lv~~~KkDqLdki~~~~l~--n~~~~~~~l~kia~Ay~Klg~~r  142 (172)
T 1wy6_A           72 --DKCQNLKSVVECGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILK--NNEVSASILVAIANALRRVGDER  142 (172)
T ss_dssp             --GGCSCTHHHHHHHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHH
T ss_pred             --HhhhcHHHHHHHHHHhcc-----hHHHHHHHHHHHHHhccHhHHHHHHHHHhc--cCCCChHHHHHHHHHHHHhcchh
Confidence              123344444444433322     345556667777788888888888877433  44677777777888888888888


Q ss_pred             HHHHHHHHHHHCCCC
Q 042154          181 SANTLLYEMEKKGIR  195 (377)
Q Consensus       181 ~a~~~~~~~~~~~~~  195 (377)
                      ++.+++.++-+.|++
T Consensus       143 ~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A          143 DATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHhhhH
Confidence            888888888877754

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.80  E-value=1e-05  Score=69.29  Aligned_cols=245  Identities=12%  Similarity=0.170  Sum_probs=146.0

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      ..+..|..|..+..+.+...+|++.|-+.       .|+..|..+|....+.|++++.++++....+..  .+..+-+.|
T Consensus        52 n~p~VWs~LgkAqL~~~~v~eAIdsyIkA-------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteL  122 (624)
T 3lvg_A           52 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETEL  122 (624)
T ss_dssp             CCCCCSSSHHHHTTTSSSCTTTTTSSCCC-------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHH
T ss_pred             CCccHHHHHHHHHHccCchHHHHHHHHhC-------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHH
Confidence            46778999999999999988888876433       245568899999999999999999998777653  333445569


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhc-------------------CC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKL-------------------GI  159 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------------~~  159 (377)
                      +-+|++.++..+-++.    +.   .|+..-...+.+-|...|.++.|.-+|..+..-.                   .-
T Consensus       123 i~ayAk~~rL~elEef----l~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArK  195 (624)
T 3lvg_A          123 IFALAKTNRLAELEEF----IN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARK  195 (624)
T ss_dssp             HHHHHTSCSSSTTTST----TS---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTT
T ss_pred             HHHHHhhCcHHHHHHH----Hc---CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999986654322    22   2666666777888888888888887776653210                   00


Q ss_pred             CcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 042154          160 EPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNAR  239 (377)
Q Consensus       160 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  239 (377)
                      .-++.||..+-.+|...+++..|.-.--.+.-..   +  -...++..|-..|.+++.+.+++.-.... ......|+-|
T Consensus       196 Ans~ktWKeV~~ACvd~~EfrLAqicGLniIvha---d--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTEL  269 (624)
T 3lvg_A          196 ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHA---D--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTEL  269 (624)
T ss_dssp             CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCCS---S--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHH
T ss_pred             cCChhHHHHHHHHHhCchHHHHHHHhcchhcccH---H--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHH
Confidence            1234456666666666666555443333332111   1  12234455556666666666666555321 2344555555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          240 LDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       240 ~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      .-.|++- ++++..+.++....+ +  |   .-.++++|.+..-|.++.-++.
T Consensus       270 aILYsKY-~PeKlmEHlklf~sr-i--N---ipKviracE~ahLW~ElvfLY~  315 (624)
T 3lvg_A          270 AILYSKF-KPQKMREHLELFWSR-V--N---IPKVLRAAEQAHLWAELVFLYD  315 (624)
T ss_dssp             HHHHHSS-CTTHHHHHHTTSSSS-S--C---CTTTHHHHTTTTCHHHHHHHHH
T ss_pred             HHHHHhc-CHHHHHHHHHHHHHh-c--c---HHHHHHHHHHHhhHHHHHHHHh
Confidence            5555443 344444444433322 1  0   0123455555555555554444

>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=96.79  E-value=0.0055  Score=53.34  Aligned_cols=63  Identities=5%  Similarity=0.091  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHhchhh----cC-CCcCH-HHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 042154          128 LSFNALLGACVNSKKFDEVDGLFKDLPHK----LG-IEPDL-VSYNTIIKAFVDKGSLDSANTLLYEME  190 (377)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~  190 (377)
                      .+++.+...|...|++++|+.++++...-    .| -.|++ .+++.+...|...|++++|+.+++++.
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            44555555555555555555555544321    11 11222 245555555555555555555555443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.68  E-value=0.19  Score=40.62  Aligned_cols=127  Identities=10%  Similarity=0.056  Sum_probs=79.3

Q ss_pred             CCHHHHHHHHHhcCCCCCCccHHHHHHHHHH-HHhC--CC------hhHHHHHHHhchhhcCCCcC---HHHHHHHHHHH
Q 042154          106 AMFENARKVFDEMPGRNCEQTVLSFNALLGA-CVNS--KK------FDEVDGLFKDLPHKLGIEPD---LVSYNTIIKAF  173 (377)
Q Consensus       106 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~--~~------~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~  173 (377)
                      ++..+-.+.+.++....  +....|..++.+ +...  |+      ...|...+++..+   +.|+   ...|..+...|
T Consensus       135 ~~~~~~~~~l~~~~~~d--ve~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY  209 (301)
T 3u64_A          135 GDEQRLHKVLSRCTRVD--VGTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACD---LWPSYQEGAVWNVLTKFY  209 (301)
T ss_dssp             SCHHHHHHHHTTCCGGG--HHHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHcCccc--cHHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHH---hCCCcccCHHHHHHHHHH
Confidence            33334444444443322  334455555443 3332  33      3456666666653   3555   45788888888


Q ss_pred             HHc-----CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC-CCHHHHHHHHHHHHhCCCC--CCHHHHH
Q 042154          174 VDK-----GSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSN-GRFADAEKIWETMVNMNVR--PNVRSYN  237 (377)
Q Consensus       174 ~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~--~~~~~~~  237 (377)
                      .+.     |+.++|.+.|++..+.+..-+..++......++.. |+.+.+.+.+++.+.....  |+....+
T Consensus       210 ~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          210 AAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             HHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             HhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHH
Confidence            884     88888888888888865433477777788888874 8888888888888887655  5543333

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.60  E-value=0.12  Score=38.31  Aligned_cols=98  Identities=8%  Similarity=0.221  Sum_probs=45.4

Q ss_pred             HHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHH
Q 042154          102 YGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDS  181 (377)
Q Consensus       102 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  181 (377)
                      ....|+++.|.++.+.+      .+...|..|.......|+++-|...|.+...          +..+.-.|.-.|+.+.
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D----------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS----------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC----------HHHHHHHHHHHTCHHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC----------HHHHHHHHHHhCCHHH
Confidence            34455555555554443      1344555555555555555555555554421          3333334444455544


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHH
Q 042154          182 ANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIW  221 (377)
Q Consensus       182 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  221 (377)
                      ..++-+.....|      -++.....+.-.|+++++.++|
T Consensus        79 L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL  112 (177)
T 3mkq_B           79 LSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIF  112 (177)
T ss_dssp             HHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHH
Confidence            444443333332      1233333344445555555554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.55  E-value=0.012  Score=39.65  Aligned_cols=65  Identities=20%  Similarity=0.224  Sum_probs=51.5

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHH---h---c---CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          266 PDVFTFYALIKGFVNEGNLEEAKRWYN---K---S---GCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       266 p~~~~~~~l~~~~~~~~~~~~a~~~~~---~---~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      .+..-+..|...+...|++..|...++   .   .   .-.+....+..+..++.+.|+++.|...++++.+..
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            355666788888999999999999998   1   1   113456678889999999999999999999998853

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.48  E-value=0.018  Score=41.52  Aligned_cols=79  Identities=11%  Similarity=-0.024  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCC---CHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHH
Q 042154          181 SANTLLYEMEKKGIRLDLITFNTLLLGFYSNG---RFADAEKIWETMVNMNVRP--NVRSYNARLDGLAIEKQTKKALEL  255 (377)
Q Consensus       181 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~  255 (377)
                      .+.+.|.+..+.+. ++..+...+..++++.+   +.++++.+++...+.+ .|  ....+-.+.-+|.+.|++++|.+.
T Consensus        16 ~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y   93 (152)
T 1pc2_A           16 KFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKY   93 (152)
T ss_dssp             HHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHH
Confidence            33444444444333 35555555555555555   3445555555555443 12  122333344445555666666665


Q ss_pred             HHHHHh
Q 042154          256 VGEMRS  261 (377)
Q Consensus       256 ~~~~~~  261 (377)
                      ++.+++
T Consensus        94 ~~~lL~   99 (152)
T 1pc2_A           94 VRGLLQ   99 (152)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            555555

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.48  E-value=0.035  Score=37.36  Aligned_cols=64  Identities=13%  Similarity=0.084  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHhchhhcC-----CCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 042154          128 LSFNALLGACVNSKKFDEVDGLFKDLPHKLG-----IEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEK  191 (377)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  191 (377)
                      ..+..+...+.+.++++.|..+|+...+...     -.+....+..+..++.+.|+++.|...++++.+
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            3334444445555555555555544433210     011223444444444444444444444444443

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.23  E-value=0.059  Score=38.42  Aligned_cols=103  Identities=11%  Similarity=0.093  Sum_probs=58.8

Q ss_pred             cHHHHHHHHHHHHhCCCh------hHHHHHHHhchhhcCCCcCHH-HHHHHHH------HHHHcCCHHHHHHHHHHHHHC
Q 042154          126 TVLSFNALLGACVNSKKF------DEVDGLFKDLPHKLGIEPDLV-SYNTIIK------AFVDKGSLDSANTLLYEMEKK  192 (377)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~p~~~-~~~~l~~------~~~~~~~~~~a~~~~~~~~~~  192 (377)
                      |..+|-..+...-+.|+.      ++..++|++...  .++|+.. .|...+.      .+...+|+++|.++|+.+.+.
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            556666666666666666      666677776654  3445421 1111111      112336777777777777654


Q ss_pred             CCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC
Q 042154          193 GIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRP  231 (377)
Q Consensus       193 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  231 (377)
                      .-. =...|......=.+.|++.+|.+++...+..+.+|
T Consensus        90 hKk-FAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           90 CKK-FAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             CTT-BHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             hHH-HHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            222 25556666666666777777777777777666443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.20  E-value=0.00017  Score=62.02  Aligned_cols=216  Identities=15%  Similarity=0.186  Sum_probs=145.4

Q ss_pred             CCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHH
Q 042154           19 TGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARL   98 (377)
Q Consensus        19 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   98 (377)
                      -|+..|..+|.+..+.|.+++-+..+...++..   -++..=+.|+-+|++.++..+..+++.       .|+..-...+
T Consensus        81 ~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~---ke~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~V  150 (624)
T 3lvg_A           81 DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA---RESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQV  150 (624)
T ss_dssp             SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC---CSTTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh---cccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHH
Confidence            578899999999999999999999988776543   233344589999999999877665542       2333333457


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCC--------------------CCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRN--------------------CEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLG  158 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~--------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  158 (377)
                      .+-|...|.++.|.-+|..+....                    -.-++.+|..+-.+|...+.+.-|.-.--.+.-   
T Consensus       151 GDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIv---  227 (624)
T 3lvg_A          151 GDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV---  227 (624)
T ss_dssp             HHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC---
T ss_pred             HHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcc---
Confidence            777777777777777766553321                    023677899999999999988776544333321   


Q ss_pred             CCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHH-hCCCCCCHHHHH
Q 042154          159 IEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMV-NMNVRPNVRSYN  237 (377)
Q Consensus       159 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~  237 (377)
                       .||  -...++..|-..|-+++.+.+++..... -......|+-|.-.|++- ++++..+-++..- +.++ |      
T Consensus       228 -had--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNi-p------  295 (624)
T 3lvg_A          228 -HAD--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNI-P------  295 (624)
T ss_dssp             -CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCC-T------
T ss_pred             -cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccH-H------
Confidence             122  1334567788999999999999988743 345788899999999875 4554444333222 2222 2      


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHH
Q 042154          238 ARLDGLAIEKQTKKALELVGEM  259 (377)
Q Consensus       238 ~l~~~~~~~~~~~~a~~~~~~~  259 (377)
                      -++++|.+..-|.++.-+|..-
T Consensus       296 KviracE~ahLW~ElvfLY~~y  317 (624)
T 3lvg_A          296 KVLRAAEQAHLWAELVFLYDKY  317 (624)
T ss_dssp             TTHHHHTTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHhcc
Confidence            2566776667777666666543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.12  E-value=0.27  Score=36.44  Aligned_cols=100  Identities=15%  Similarity=0.232  Sum_probs=44.2

Q ss_pred             HHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHH
Q 042154          137 CVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFAD  216 (377)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  216 (377)
                      ..+.|+++.|.++.+.+       .+...|..+.......|+++-|++.|.....         +..+.-.|...|+.++
T Consensus        15 AL~lg~l~~A~e~a~~l-------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL-------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHH
T ss_pred             HHhcCCHHHHHHHHHHh-------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHH
Confidence            34455555555554433       1334455555555555555555555544432         2233333444444444


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042154          217 AEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGE  258 (377)
Q Consensus       217 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (377)
                      ..++-+.....|      -++.....+...|+++++.++|.+
T Consensus        79 L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           79 LSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHH
Confidence            444433333332      122233333444555555555433

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.11  E-value=0.021  Score=41.20  Aligned_cols=84  Identities=7%  Similarity=-0.012  Sum_probs=61.4

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHH---hcCCCC--CHHHHHHHHHHHHhcCChHHH
Q 042154          248 QTKKALELVGEMRSKEINPDVFTFYALIKGFVNEG---NLEEAKRWYN---KSGCGM--NKAIFKLLVPFVCEKGDLDFA  319 (377)
Q Consensus       248 ~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~---~~~~~~--~~~~~~~l~~~~~~~g~~~~a  319 (377)
                      ....+.+-|.+..+.|. ++..+...+..++++.+   +.++++.+++   ... .|  +...+-.+.-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            45667777777777654 67777778888888888   6668998888   322 24  234555566688999999999


Q ss_pred             HHHHHHHHhcCCCCCh
Q 042154          320 FNLCKRTFSERCLVDQ  335 (377)
Q Consensus       320 ~~~~~~~~~~~~~~~~  335 (377)
                      .+.++.+++.  .|+.
T Consensus        91 ~~y~~~lL~i--eP~n  104 (152)
T 1pc2_A           91 LKYVRGLLQT--EPQN  104 (152)
T ss_dssp             HHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHhc--CCCC
Confidence            9999999985  4443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.91  E-value=0.79  Score=40.05  Aligned_cols=189  Identities=10%  Similarity=0.085  Sum_probs=96.4

Q ss_pred             cCChHHHHHHHHHhhhhc-----CCCccchhHHHHHHHHccCCHHHHHHHHHhcCC-CCCCccHHHHHHHHHHH----Hh
Q 042154           70 AKRFRWIEEILEHQKQYK-----DISKEGFTARLIALYGKAAMFENARKVFDEMPG-RNCEQTVLSFNALLGAC----VN  139 (377)
Q Consensus        70 ~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~l~~~~----~~  139 (377)
                      .|+++.|++.+-.+.+..     ..........++..|...++++...+.+..+.+ +|..+..  ...+++.+    ..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~a--i~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLS--IQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHH--HHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHH--HHHHHHHHHHHHhc
Confidence            367788877765555432     222334455678888888888888777666544 3422222  22333322    22


Q ss_pred             CCChh--HHHHHHHhchhhcCCC--c---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCC---HHhHHHHHHH
Q 042154          140 SKKFD--EVDGLFKDLPHKLGIE--P---DLVSYNTIIKAFVDKGSLDSANTLLYEMEKK--GIRLD---LITFNTLLLG  207 (377)
Q Consensus       140 ~~~~~--~a~~~~~~~~~~~~~~--p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~  207 (377)
                      ....+  .-..+.+.......-+  .   .......+...+...|++.+|.+++..+...  |....   ...+...+..
T Consensus       107 ~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl  186 (445)
T 4b4t_P          107 SKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMEL  186 (445)
T ss_dssp             HCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            22222  2222332222110001  1   1112345566677777777777777776532  11111   2345555666


Q ss_pred             HHcCCCHHHHHHHHHHHHh----CCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 042154          208 FYSNGRFADAEKIWETMVN----MNVRPN--VRSYNARLDGLAIEKQTKKALELVGEMR  260 (377)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  260 (377)
                      |...+++.+|..++.++..    ....|+  ...+...+..+...+++.+|...|.++.
T Consensus       187 ~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          187 SILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            6677777777777766532    111122  1234455555666667777666666554

>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=95.86  E-value=0.34  Score=39.11  Aligned_cols=94  Identities=13%  Similarity=0.059  Sum_probs=63.3

Q ss_pred             HHHHHHHHHHHHHCCCC-CCHHhHHHHHHHHHcC-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCHHH
Q 042154          179 LDSANTLLYEMEKKGIR-LDLITFNTLLLGFYSN-----GRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIE-KQTKK  251 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~  251 (377)
                      ...|...+++..+.... .+...|..+...|.+.     |+.++|.+.|++.++.+..-+..++......++.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            45677777777765321 1245777788888874     88888888888888765211356666677777774 88888


Q ss_pred             HHHHHHHHHhCCCC--CCHHHHH
Q 042154          252 ALELVGEMRSKEIN--PDVFTFY  272 (377)
Q Consensus       252 a~~~~~~~~~~g~~--p~~~~~~  272 (377)
                      +.+.+++.++....  |+....+
T Consensus       259 a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          259 FDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             HHHHHHHHHcCCCCCCCChhHHH
Confidence            88888888886544  5543333

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.36  E-value=0.21  Score=35.62  Aligned_cols=102  Identities=6%  Similarity=-0.095  Sum_probs=56.5

Q ss_pred             CHHHHHHHHHHHHHcCCH------HHHHHHHHHHHHCCCCCCH-HhHHHHHHH------HHcCCCHHHHHHHHHHHHhCC
Q 042154          162 DLVSYNTIIKAFVDKGSL------DSANTLLYEMEKKGIRLDL-ITFNTLLLG------FYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       162 ~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~-~~~~~l~~~------~~~~~~~~~a~~~~~~~~~~~  228 (377)
                      |..+|-..+...-+.|++      +...++|+++... ++|+. ..|...+..      +...++.++|.++|+.++..+
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            455666666666666777      7777777777764 34432 111111111      122356666777776665432


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 042154          229 VRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEIN  265 (377)
Q Consensus       229 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~  265 (377)
                      -.- ...|.....--.+.|+..+|..++......+..
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            122 455555555556666777777777666665433

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.32  E-value=0.27  Score=45.77  Aligned_cols=55  Identities=13%  Similarity=0.076  Sum_probs=44.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhc
Q 042154          307 VPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGK  362 (377)
Q Consensus       307 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  362 (377)
                      .+.|...|+++.|+++-++.+..-+. +..+|..|..+|...|+++.|+-.++.+.
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            44566788899999998888875332 57788899999999999999998888885

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.13  E-value=0.17  Score=35.11  Aligned_cols=81  Identities=14%  Similarity=-0.029  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHH---HHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHH
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFAD---AEKIWETMVNMNVRP--NVRSYNARLDGLAIEKQTKKAL  253 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~  253 (377)
                      ...+.+-|......|. ++..+-..+..++.+..+...   ++.+++.+...+ .|  .....-.+.-++.+.|++++|.
T Consensus        17 l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            3344444444444333 455555555556665554443   555666555543 12  1122223444555666666666


Q ss_pred             HHHHHHHh
Q 042154          254 ELVGEMRS  261 (377)
Q Consensus       254 ~~~~~~~~  261 (377)
                      +.++.+++
T Consensus        95 ~~~~~lL~  102 (126)
T 1nzn_A           95 KYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66666665

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.99  E-value=2.6  Score=41.87  Aligned_cols=128  Identities=6%  Similarity=0.075  Sum_probs=70.9

Q ss_pred             HhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 042154          199 ITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPN----VRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYAL  274 (377)
Q Consensus       199 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l  274 (377)
                      .-|..++..+-+.+.++.+.++-....+...+.+    ...|..+..++...|++++|...+-.+.....  -...+..|
T Consensus       900 ~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~~cLr~L  977 (1139)
T 4fhn_B          900 CYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KKSCLLDF  977 (1139)
T ss_dssp             HHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HHHHHHHH
Confidence            3466677777777777777776665554221111    12466777777777777777777766655432  23445555


Q ss_pred             HHHHHhcCC------------HHHHHHHHH---h-c-CCCCCHHHHHHHHHHHHhcCChHHHHHH-HHHHHh
Q 042154          275 IKGFVNEGN------------LEEAKRWYN---K-S-GCGMNKAIFKLLVPFVCEKGDLDFAFNL-CKRTFS  328 (377)
Q Consensus       275 ~~~~~~~~~------------~~~a~~~~~---~-~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~  328 (377)
                      +...+..|.            .++..+++.   . . .....+.-|..|-.-+...|++..|-.+ |+.+.+
T Consensus       978 V~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~R 1049 (1139)
T 4fhn_B          978 VNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSR 1049 (1139)
T ss_dssp             HHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHH
Confidence            555554443            344444444   1 1 1111223455555566777887766544 555543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.84  E-value=0.49  Score=32.78  Aligned_cols=85  Identities=9%  Similarity=0.052  Sum_probs=48.3

Q ss_pred             CChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHH---HHHHHHhcCCCCCC-ccHHHHHHHHHHHHhCCChhHH
Q 042154           71 KRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFEN---ARKVFDEMPGRNCE-QTVLSFNALLGACVNSKKFDEV  146 (377)
Q Consensus        71 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a  146 (377)
                      .....+.+-|......+.+.....| .+..++.+..+...   ++.+++.+.+.+-+ -.......+.-++.+.|++++|
T Consensus        15 ~~l~~~~~~y~~e~~~~~~s~~~~F-~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAGSVSKSTQF-EYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHH-HHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhccCCCcHHHHH-HHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            3344445555544444444444445 36667776665544   67777776665411 1333444555667777777777


Q ss_pred             HHHHHhchhh
Q 042154          147 DGLFKDLPHK  156 (377)
Q Consensus       147 ~~~~~~~~~~  156 (377)
                      .+.++.+.+.
T Consensus        94 ~~~~~~lL~~  103 (126)
T 1nzn_A           94 LKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            7777777654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.76  E-value=3  Score=39.86  Aligned_cols=19  Identities=11%  Similarity=0.326  Sum_probs=8.8

Q ss_pred             HHcCCCHHHHHHHHHHHHh
Q 042154          208 FYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~  226 (377)
                      |+..|+.....+++..+..
T Consensus       570 yaGTGn~~aIq~LL~~~~~  588 (963)
T 4ady_A          570 YAGTGNNSAVKRLLHVAVS  588 (963)
T ss_dssp             TTTSCCHHHHHHHHHHHHH
T ss_pred             hcCCCCHHHHHHHHHHhcc
Confidence            4444454444445544443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.73  E-value=0.34  Score=45.12  Aligned_cols=128  Identities=11%  Similarity=0.035  Sum_probs=80.9

Q ss_pred             HHHHHHHhhhccc-HHHHHHHHHhcccCCCCccchhhHH-HHHHHHHhcCC-hHHHHHHHHHhhhh------cCCCc---
Q 042154           24 IGSVIRGIYKENN-LKRLVDKFKKSSDLGRFRTNTGIYT-GTVQRLANAKR-FRWIEEILEHQKQY------KDISK---   91 (377)
Q Consensus        24 ~~~li~~~~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~-~~~a~~~~~~~~~~------~~~~~---   91 (377)
                      ...++..+...++ .+.|+.+|+++.+..  +.....+. .++..+...++ --+|.+++.+..+.      ...+.   
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~  328 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDAD  328 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccc
Confidence            3444555555666 688999999998764  32332222 23333333332 23455555444321      11111   


Q ss_pred             --------cchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhch
Q 042154           92 --------EGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLP  154 (377)
Q Consensus        92 --------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  154 (377)
                              ..+...-+..+...|+++-|+++-++....- |-+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       329 ~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          329 SARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                    1123334556777899999999999987754 4468899999999999999999999999884

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=94.63  E-value=0.51  Score=30.95  Aligned_cols=73  Identities=19%  Similarity=0.249  Sum_probs=48.7

Q ss_pred             HHHHHHHccC-CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHH
Q 042154           97 RLIALYGKAA-MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIK  171 (377)
Q Consensus        97 ~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  171 (377)
                      .....+-+.. |.-+..+-++.+....+.|++....+.+++|.+.+++..|.++++-++.+.|..  ..+|..+++
T Consensus        14 Ry~~~F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~--~~iY~~~lq   87 (109)
T 1v54_E           14 RWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH--KEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC--TTHHHHHHH
T ss_pred             HHHHHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc--hhhHHHHHH
Confidence            3444444555 566677777777777777888888888888888888888888887776553322  345655553

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=94.17  E-value=2.1  Score=35.46  Aligned_cols=191  Identities=12%  Similarity=0.079  Sum_probs=99.5

Q ss_pred             cccHHHHHHHHHhcccCCCC---ccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHH
Q 042154           34 ENNLKRLVDKFKKSSDLGRF---RTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFEN  110 (377)
Q Consensus        34 ~~~~~~A~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  110 (377)
                      .+++++.+.-++.-.+.|.+   ---..+|.++..-|.+.+++++|++++-.-.               ..+.+.|+...
T Consensus         9 ~~~~~~~i~rl~~~I~~G~y~~~YEAHQ~~RTi~~Ry~~~k~y~eAidLL~~GA---------------~~ll~~~Q~~s   73 (336)
T 3lpz_A            9 SNKIERIIARLQRRIAEGQPEEQYEAAQETRLVAARYSKQGNWAAAVDILASVS---------------QTLLRSGQGGS   73 (336)
T ss_dssp             -CHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH---------------HHHHHTTCHHH
T ss_pred             hhHHHHHHHHHHHHHhCCCCccccHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH---------------HHHHHCCCcch
Confidence            34555666666666555533   2234567788888899999999999875422               22223333333


Q ss_pred             HHHH----HHhcCCCCCCccHHHHHHHHHHHHhCCC--------hhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154          111 ARKV----FDEMPGRNCEQTVLSFNALLGACVNSKK--------FDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus       111 A~~~----~~~~~~~~~~~~~~~~~~l~~~~~~~~~--------~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      |-++    .+-+.+.++++|......++..+..-..        +++|+.+-.+. .. ...-|+.....+...|.+.++
T Consensus        74 g~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~-g~-~~~Gdp~LH~~ig~~~~~e~~  151 (336)
T 3lpz_A           74 GGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKF-GD-YPAGDPELHHVVGTLYVEEGE  151 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHH-SS-CTTCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhc-CC-CCCCCHHHHHHHHHHHHccCC
Confidence            2222    2333334445555555555554443332        11223222221 00 123466777788889999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGE  258 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (377)
                      +.+|+..|-  .  |..+....|..++.-+...+...+              ++...-.+ +--|.-.++...|..+++.
T Consensus       152 ~~~Ae~H~i--l--g~~~s~~~~a~mL~ew~~~~~~~e--------------~dlfiaRa-VL~yL~l~n~~~A~~~~~~  212 (336)
T 3lpz_A          152 FEAAEKHLV--L--GTKESPEVLARMEYEWYKQDESHT--------------APLYCARA-VLPYLLVANVRAANTAYRI  212 (336)
T ss_dssp             HHHHHHHHT--T--SCTTHHHHHHHHHHHHHHTSCGGG--------------HHHHHHHH-HHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHH--h--cCCchHHHHHHHHHHHHHhcCCcc--------------HHHHHHHH-HHHHHHhCCHHHHHHHHHH
Confidence            998888772  2  333333556555544443332111              12222222 2334566777777776655


Q ss_pred             HH
Q 042154          259 MR  260 (377)
Q Consensus       259 ~~  260 (377)
                      ..
T Consensus       213 f~  214 (336)
T 3lpz_A          213 FT  214 (336)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.14  E-value=3.4  Score=39.57  Aligned_cols=161  Identities=16%  Similarity=0.114  Sum_probs=97.5

Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHH--HHHHHHHH
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSY--NTIIKAFV  174 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~--~~l~~~~~  174 (377)
                      .+...+...|+-+....++..+.+.. .-+..-...+.-++...|+.+.+..+.+.+...  ..|....-  .++.-+|+
T Consensus       495 ALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~--~dp~vRygaa~alglAya  571 (963)
T 4ady_A          495 GMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELADDLITKMLAS--DESLLRYGGAFTIALAYA  571 (963)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHC--SCHHHHHHHHHHHHHHTT
T ss_pred             HHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhC--CCHHHHHHHHHHHHHHhc
Confidence            34455667788777777777665432 122333333444455788888888888877542  22322222  23345677


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHH
Q 042154          175 DKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQT-KKAL  253 (377)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~  253 (377)
                      -.|+.....+++..+.... ..+......+.-++...|+.+.+.++++.+.+.+ .|....-..+.-+....|.. .+++
T Consensus       572 GTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~ai  649 (963)
T 4ady_A          572 GTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAI  649 (963)
T ss_dssp             TSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHH
T ss_pred             CCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHH
Confidence            8889888888999888752 2234433334445555677777788887776654 45555445555555555554 5688


Q ss_pred             HHHHHHHhC
Q 042154          254 ELVGEMRSK  262 (377)
Q Consensus       254 ~~~~~~~~~  262 (377)
                      +++..+...
T Consensus       650 d~L~~L~~D  658 (963)
T 4ady_A          650 DVLDPLTKD  658 (963)
T ss_dssp             HHHHHHHTC
T ss_pred             HHHHHHccC
Confidence            888888753

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.81  E-value=3.1  Score=36.28  Aligned_cols=258  Identities=12%  Similarity=0.118  Sum_probs=150.7

Q ss_pred             cccHHHHHHHHHhccc----CCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHH----HHHcc
Q 042154           34 ENNLKRLVDKFKKSSD----LGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIA----LYGKA  105 (377)
Q Consensus        34 ~~~~~~A~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----~~~~~  105 (377)
                      .|+++.|++.+..+.+    .+...........++..|...++++...+.+.-+.+.........- .++.    .....
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~-~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQ-YMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHH-HHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHH-HHHHHHHHHHhcC
Confidence            4788999888765542    2224555677888999999999999998888766654333322222 2333    33233


Q ss_pred             CC--HHHHHHHHHhcCC--CC-CCc---cHHHHHHHHHHHHhCCChhHHHHHHHhchhhc-CCCcC---HHHHHHHHHHH
Q 042154          106 AM--FENARKVFDEMPG--RN-CEQ---TVLSFNALLGACVNSKKFDEVDGLFKDLPHKL-GIEPD---LVSYNTIIKAF  173 (377)
Q Consensus       106 ~~--~~~A~~~~~~~~~--~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~p~---~~~~~~l~~~~  173 (377)
                      ..  .+.-..+.+.+..  .| +-.   .......|...+...|++.+|.+++..+.... +....   ...+...++.|
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            32  2333344444322  11 111   22334567888999999999999999986442 22222   34677778999


Q ss_pred             HHcCCHHHHHHHHHHHHH----CCCCCC--HHhHHHHHHHHHcCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHH----HH
Q 042154          174 VDKGSLDSANTLLYEMEK----KGIRLD--LITFNTLLLGFYSNGRFADAEKIWETMVNM-NVRPNVRSYNARL----DG  242 (377)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~----~~  242 (377)
                      ...+++..|..++.++..    ....|+  ...+...+..+...+++.+|.+.|.+.... ....|...+...+    .+
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            999999999999988742    222232  245666777778889999998888777532 1111222222111    11


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc--CCHHHHHHHHH
Q 042154          243 LAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNE--GNLEEAKRWYN  292 (377)
Q Consensus       243 ~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~--~~~~~a~~~~~  292 (377)
                      ..-.+....--.++........-++...|..++.+|...  .+++...+.+.
T Consensus       268 ~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~  319 (445)
T 4b4t_P          268 LVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYE  319 (445)
T ss_dssp             HHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTC
T ss_pred             HHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHH
Confidence            111111111122222222211224566788888888764  46677776666

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=93.59  E-value=0.86  Score=31.69  Aligned_cols=76  Identities=22%  Similarity=0.325  Sum_probs=53.2

Q ss_pred             hhHHHHHHHHccC-CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHH
Q 042154           94 FTARLIALYGKAA-MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIK  171 (377)
Q Consensus        94 ~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  171 (377)
                      +-......+-+.+ |.-+..+-++.+...++.|++....+.+++|-+.+|+..|..+|+-++.+-|  +....|..+++
T Consensus        54 FdaRy~~~F~~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~--~~~~iY~y~lq  130 (152)
T 2y69_E           54 FDARWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             HHHHHHHHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcC--CchhhHHHHHH
Confidence            3333444455555 5666777778888888888888888888888888888888888888766533  33445666654

>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=93.45  E-value=0.42  Score=40.92  Aligned_cols=66  Identities=11%  Similarity=0.053  Sum_probs=34.4

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHH
Q 042154          204 LLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRS-----KEINPDVFT  270 (377)
Q Consensus       204 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~g~~p~~~~  270 (377)
                      ++..+...|++.++...+..+.... +.+...|..+|.++.+.|+..+|++.|+++.+     .|+.|...+
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            4444555555555555555555433 23455555555555555555555555555432     255555443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.36  E-value=7  Score=38.88  Aligned_cols=146  Identities=10%  Similarity=0.050  Sum_probs=81.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCc--------------
Q 042154           60 YTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQ--------------  125 (377)
Q Consensus        60 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--------------  125 (377)
                      ...++..+...+..+.+.++.......    ....| .+..++...|++++|.+.|.+... |+..              
T Consensus       815 ~~~l~~~l~~~~~~~~~~~l~~~~~~~----~~~~y-l~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~  888 (1139)
T 4fhn_B          815 VTELVEKLFLFKQYNACMQLIGWLNSD----PIAVY-LKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEI  888 (1139)
T ss_dssp             HHHHHHHHHHHSCTTHHHHHHHHSCCC----HHHHH-HHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhccCC----cHHHH-HHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccc
Confidence            345666777788888777765543321    12234 577888888999999999887532 1100              


Q ss_pred             ---------cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 042154          126 ---------TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD---LVSYNTIIKAFVDKGSLDSANTLLYEMEKKG  193 (377)
Q Consensus       126 ---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  193 (377)
                               -..-|..++..+-+.+.++.+.++-....+..+..++   ...|..+.+.+...|++++|...+-.+....
T Consensus       889 ~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~  968 (1139)
T 4fhn_B          889 AEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTP  968 (1139)
T ss_dssp             HHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSS
T ss_pred             cccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHH
Confidence                     1123455566666666666666555544433211111   1145566666666667666666665555432


Q ss_pred             CCCCHHhHHHHHHHHHcCCC
Q 042154          194 IRLDLITFNTLLLGFYSNGR  213 (377)
Q Consensus       194 ~~~~~~~~~~l~~~~~~~~~  213 (377)
                      .  -......++..+|..|.
T Consensus       969 ~--r~~cLr~LV~~lce~~~  986 (1139)
T 4fhn_B          969 L--KKSCLLDFVNQLTKQGK  986 (1139)
T ss_dssp             S--CHHHHHHHHHHHHHHCC
T ss_pred             H--HHHHHHHHHHHHHhCCC
Confidence            2  23344455555554443

>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=93.04  E-value=3.8  Score=34.95  Aligned_cols=243  Identities=12%  Similarity=0.091  Sum_probs=134.1

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCcc---chhhHHHHHHHHHhc-CChHHHHHHHHHhhhhcCCCccchh--
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRT---NTGIYTGTVQRLANA-KRFRWIEEILEHQKQYKDISKEGFT--   95 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~--   95 (377)
                      .....|...|.+.|+.++..+++......-..-+   .......+++.+... +..+.-.++..+..+........+.  
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~   99 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567788889999999999999987753221112   234566778877764 3344444444443332211222222  


Q ss_pred             ---HHHHHHHHccCCHHHHHHHHHhcCCC----CC-CccHHHHHHHHHHHHhCCChhHHHHHHHhchhhc-CCCcCHHHH
Q 042154           96 ---ARLIALYGKAAMFENARKVFDEMPGR----NC-EQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKL-GIEPDLVSY  166 (377)
Q Consensus        96 ---~~l~~~~~~~~~~~~A~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~p~~~~~  166 (377)
                         ..++..|...|++.+|.+++.++.+.    +- .--...+..-+..|...+++.++...+....... .+.+++...
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~  179 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ  179 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH
Confidence               35888999999999998888776541    10 1123456666778888999999888887764331 122333322


Q ss_pred             HHH----HHHHH-HcCCHHHHHHHHHHHHHC-C-C-CC---CHHhHHHHHHHHHcCCCHHHHHHHHH-HH-HhCCCCCCH
Q 042154          167 NTI----IKAFV-DKGSLDSANTLLYEMEKK-G-I-RL---DLITFNTLLLGFYSNGRFADAEKIWE-TM-VNMNVRPNV  233 (377)
Q Consensus       167 ~~l----~~~~~-~~~~~~~a~~~~~~~~~~-~-~-~~---~~~~~~~l~~~~~~~~~~~~a~~~~~-~~-~~~~~~~~~  233 (377)
                      ..+    ...+. ..+++..|...|-+..+. . . .|   +...|..+.....  ++..+...++. .. ... ..|..
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL~aLl~--~~r~el~~~l~~~~~~~~-~~pei  256 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLCKIML--GQSDDVNQLVSGKLAITY-SGRDI  256 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT--TCGGGHHHHHHSHHHHTT-CSHHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHHc--CCHHHHHHHhcccccccc-CCccH
Confidence            221    23345 678899888877665421 1 0 01   1223333322222  22222222221 11 111 23555


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 042154          234 RSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVF  269 (377)
Q Consensus       234 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~  269 (377)
                      ..+..++.+| ..+++.+...+++..... +..|..
T Consensus       257 ~~l~~L~~a~-~~~dl~~f~~iL~~~~~~-l~~D~~  290 (394)
T 3txn_A          257 DAMKSVAEAS-HKRSLADFQAALKEYKKE-LAEDVI  290 (394)
T ss_dssp             HHHHHHHHHH-HTTCHHHHHHHHHHSTTT-TTTSHH
T ss_pred             HHHHHHHHHH-HhCCHHHHHHHHHHHHHH-HhcChH
Confidence            6666666665 667777777777665432 444554

>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=92.42  E-value=1.4  Score=28.86  Aligned_cols=42  Identities=10%  Similarity=0.105  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          251 KALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       251 ~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      +..+-++.+....+-|++....+.+.+|.+.+++..|.++++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE   69 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILE   69 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            344445555555555566555555666666666666666655

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=92.34  E-value=1.8  Score=30.59  Aligned_cols=69  Identities=7%  Similarity=0.080  Sum_probs=44.9

Q ss_pred             CCCHHHHHHHHHHHHhcCCH---HHHHHHHH-hcCCCC-CH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCh
Q 042154          265 NPDVFTFYALIKGFVNEGNL---EEAKRWYN-KSGCGM-NK-AIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQ  335 (377)
Q Consensus       265 ~p~~~~~~~l~~~~~~~~~~---~~a~~~~~-~~~~~~-~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  335 (377)
                      .|+..+--.+..++.++.+.   .+++.+++ .....| +. ...-.|.-++.+.|++++|.+..+.+++.  .|+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~--eP~n  110 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNN  110 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT--CCCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCc
Confidence            56777666677777777654   46667777 111123 22 33344556888999999999999998884  4443

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.18  E-value=4.2  Score=33.36  Aligned_cols=136  Identities=11%  Similarity=0.128  Sum_probs=76.4

Q ss_pred             HHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHH---
Q 042154           37 LKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARK---  113 (377)
Q Consensus        37 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~---  113 (377)
                      .++.+.-++.-.+.|.+---..+|.++..-|.+.+++++|++++..-               ...+.+.|+...|-+   
T Consensus        13 ~~r~l~rl~~~I~~G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~g---------------a~~ll~~~Q~~sa~DLa~   77 (312)
T 2wpv_A           13 LAKTLQRFENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQG---------------ALSFLKAKQGGSGTDLIF   77 (312)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcCHHHHHHHHHHH---------------HHHHHHCCCcchHHHHHH
Confidence            44555555554444433333456777788888899999999987542               222333454444333   


Q ss_pred             -HHHhcCCCCCCccHHHHHHHHHHHHhCCChh-HHHHHHHhchhh---cC--CCcCHHHHHHHHHHHHHcCCHHHHHHHH
Q 042154          114 -VFDEMPGRNCEQTVLSFNALLGACVNSKKFD-EVDGLFKDLPHK---LG--IEPDLVSYNTIIKAFVDKGSLDSANTLL  186 (377)
Q Consensus       114 -~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~---~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~  186 (377)
                       +.+-+.+.+.+++......++..+..-..-+ .=.++++++.+.   .|  ..-++.....+...|.+.+++.+|+..|
T Consensus        78 llvev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~  157 (312)
T 2wpv_A           78 YLLEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYF  157 (312)
T ss_dssp             HHHHHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHH
Confidence             2344444556667666666666554422111 112222222211   11  2236677888888888989888888776


Q ss_pred             H
Q 042154          187 Y  187 (377)
Q Consensus       187 ~  187 (377)
                      -
T Consensus       158 i  158 (312)
T 2wpv_A          158 M  158 (312)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=91.97  E-value=1.2  Score=31.08  Aligned_cols=64  Identities=9%  Similarity=0.142  Sum_probs=38.1

Q ss_pred             CCCCHHHHHHHHHHHHhcCCH---HHHHHHHH---hcCCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          264 INPDVFTFYALIKGFVNEGNL---EEAKRWYN---KSGCGM--NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       264 ~~p~~~~~~~l~~~~~~~~~~---~~a~~~~~---~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      -.|+..+--.+..++.+..+.   .+++.+++   ..+  |  ....+-.|.-++.+.|++++|.+..+.+++.
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~--~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--cchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            345666555566666666543   35666666   222  3  2233444555777778888888887777764

>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=91.86  E-value=2.1  Score=29.81  Aligned_cols=67  Identities=9%  Similarity=-0.090  Sum_probs=33.9

Q ss_pred             CCCHHhHHHHHHHHHcCCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          195 RLDLITFNTLLLGFYSNGR---FADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       195 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                      .|+..+--.+..++.++.+   ..+++.+++.+.+.+..-....+-.+.-++.+.|++++|.+..+.+++
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            3444554445555555543   334555555555443111223333444555566666666666666665

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.64  E-value=0.94  Score=32.99  Aligned_cols=122  Identities=11%  Similarity=0.003  Sum_probs=73.1

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccc-------hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcC-CCc-c
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTN-------TGIYTGTVQRLANAKRFRWIEEILEHQKQYKD-ISK-E   92 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~-~   92 (377)
                      ..+-.-+..+...+.++.|+-+...+.......|+       ..++..+.+++...+++..|...|++..+... .+. .
T Consensus        21 ~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~  100 (167)
T 3ffl_A           21 MNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTS  100 (167)
T ss_dssp             CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC----
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCC
Confidence            34555677888899999999888876533212222       23567788899999999999999998765421 111 1


Q ss_pred             chhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhh
Q 042154           93 GFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK  156 (377)
Q Consensus        93 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (377)
                      .....+.    .......         ......+...-.-+..+|.+.+++++|+.+++.+..+
T Consensus       101 s~~~~~~----~~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          101 KVRPSTG----NSASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             -----------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             Ccccccc----ccCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            1110010    0000000         0011235555556788888888888888888887654

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=91.27  E-value=2.1  Score=36.53  Aligned_cols=68  Identities=9%  Similarity=0.028  Sum_probs=50.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--------hcCCCCCHHHHH
Q 042154          236 YNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--------KSGCGMNKAIFK  304 (377)
Q Consensus       236 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~  304 (377)
                      ...++..+...|+++++...+..+... .+.+...+..+|.++...|+..+|++.|+        +.|+.|...+-.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            344566777888888888888877765 24567788888888888888888888877        568888776543

>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=90.13  E-value=3.4  Score=31.18  Aligned_cols=53  Identities=13%  Similarity=0.138  Sum_probs=34.1

Q ss_pred             cCCHHHHHHHHH---hcCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 042154          281 EGNLEEAKRWYN---KSGCG-MNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLV  333 (377)
Q Consensus       281 ~~~~~~a~~~~~---~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  333 (377)
                      .++...+..+|.   ..++- --...|......+...|++.+|.++|+..++.+-.|
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            343455555555   33332 344567777777777888888888888877776665

>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=89.99  E-value=2.8  Score=29.18  Aligned_cols=42  Identities=10%  Similarity=0.105  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          251 KALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       251 ~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      +..+-++.+....+-|++......+.+|.+.+++..|.++++
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE  112 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILE  112 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            344444555555555666666666666666666666666666

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=88.69  E-value=5.5  Score=29.01  Aligned_cols=122  Identities=8%  Similarity=-0.036  Sum_probs=70.3

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcC-CCcc-------chhHHHHHHHHccCCHHHHHHHHHhcCCCC--CCcc
Q 042154           57 TGIYTGTVQRLANAKRFRWIEEILEHQKQYKD-ISKE-------GFTARLIALYGKAAMFENARKVFDEMPGRN--CEQT  126 (377)
Q Consensus        57 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~-------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~  126 (377)
                      ..++-.-++.+...+.++.|+-+.+.+..... .++.       .+...+.+++...+++..|...|++..+..  +.-+
T Consensus        20 ~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~   99 (167)
T 3ffl_A           20 HMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKT   99 (167)
T ss_dssp             -CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC---
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcC
Confidence            34555667778888889888888877655421 1221       133457888889999999999988853211  1101


Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 042154          127 VLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKK  192 (377)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  192 (377)
                      ..+...+-    ......          .......+...-..+..+|.+.+++++|+.+++.+...
T Consensus       100 ~s~~~~~~----~~ss~p----------~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          100 SKVRPSTG----NSASTP----------QSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             -------------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             CCcccccc----ccCCCc----------ccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            11111110    000000          00122345555566889999999999999999987544

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=88.57  E-value=14  Score=33.67  Aligned_cols=310  Identities=10%  Similarity=0.006  Sum_probs=156.4

Q ss_pred             hhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHH
Q 042154           31 IYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFEN  110 (377)
Q Consensus        31 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  110 (377)
                      ..+.|++..+..+...+.... +.|-. .|..+...+ ......++...+.+...  .+....+-+..+..+.+.+++..
T Consensus        16 a~~~~~~~~~~~l~~~l~~~p-L~~yl-~y~~l~~~l-~~~~~~ev~~Fl~~~~~--~p~~~~Lr~~~l~~l~~~~~w~~   90 (618)
T 1qsa_A           16 AWDNRQMDVVEQMMPGLKDYP-LYPYL-EYRQITDDL-MNQPAVTVTNFVRANPT--LPPARTLQSRFVNELARREDWRG   90 (618)
T ss_dssp             HHHTTCHHHHHHHSGGGTTST-THHHH-HHHHHHHTG-GGCCHHHHHHHHHHCTT--CHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHCCCHHHHHHHHHhhcCCC-cHHHH-HHHHHHhCc-ccCCHHHHHHHHHHCCC--ChhHHHHHHHHHHHHHhCCCHHH
Confidence            345688888888777664322 32222 343333322 12245555555544222  12223333456677777888887


Q ss_pred             HHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHH--HHHHHHHH
Q 042154          111 ARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLD--SANTLLYE  188 (377)
Q Consensus       111 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~--~a~~~~~~  188 (377)
                      ....+.. .    +.+...-.....+....|+..+|......+-.....  .+..+..++..+.+.|...  ....-++.
T Consensus        91 ~l~~~~~-~----p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~~--~p~~c~~l~~~~~~~g~lt~~~~~~R~~~  163 (618)
T 1qsa_A           91 LLAFSPE-K----PGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS--QPNACDKLFSVWRASGKQDPLAYLERIRL  163 (618)
T ss_dssp             HHHHCCS-C----CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC--CCTHHHHHHHHHHHTTCSCHHHHHHHHHH
T ss_pred             HHHhccC-C----CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCCC--CcHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence            7775554 1    345555556677788888877777766666543222  3334666777776655432  23333333


Q ss_pred             HHHCCC-----------CCCHH-hHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHHhcCCHHHHH
Q 042154          189 MEKKGI-----------RLDLI-TFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRS---YNARLDGLAIEKQTKKAL  253 (377)
Q Consensus       189 ~~~~~~-----------~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~  253 (377)
                      +...|-           .++.. ....++..+.+   ...+.....   .  +.++...   +...+.-+.+ .+.+.|.
T Consensus       164 al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~---p~~~~~~~~---~--~~~~~~~~~~~~~~~~rlar-~d~~~A~  234 (618)
T 1qsa_A          164 AMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFAR---T--TGATDFTRQMAAVAFASVAR-QDAENAR  234 (618)
T ss_dssp             HHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHH---H--SCCCHHHHHHHHHHHHHHHH-HCHHHHH
T ss_pred             HHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhC---hHhHHHHHh---c--cCCChhhHHHHHHHHHHHHh-cCHHHHH
Confidence            333321           11111 11111111111   111111111   1  1122221   1112222333 3778888


Q ss_pred             HHHHHHHhCCCCCCHHHH----HHHHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 042154          254 ELVGEMRSKEINPDVFTF----YALIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFS  328 (377)
Q Consensus       254 ~~~~~~~~~g~~p~~~~~----~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  328 (377)
                      ..+....... ..+....    ..+.......+...++...+. ......+.....-.+....+.|+++.|...|+.|..
T Consensus       235 ~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~r~Alr~~d~~~a~~~~~~l~~  313 (618)
T 1qsa_A          235 LMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDRRGLNTWLARLPM  313 (618)
T ss_dssp             HHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCT
T ss_pred             HHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccCCChHHHHHHHHHHHHCCCHHHHHHHHHHccc
Confidence            8888876542 2233322    223323334452444555554 222234444444444555577999999999988765


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          329 ERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       329 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      .... ...-..-+..++...|+.++|..+|+.+.+
T Consensus       314 ~~~~-~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          314 EAKE-KDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             TGGG-SHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cccc-cHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            3222 233334467788888999999998888765

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=88.23  E-value=5.3  Score=28.25  Aligned_cols=21  Identities=14%  Similarity=-0.069  Sum_probs=9.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 042154          241 DGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       241 ~~~~~~~~~~~a~~~~~~~~~  261 (377)
                      -++.+.|++++|.++.+.+++
T Consensus        85 vg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           85 IGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHh
Confidence            344444444444444444444

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=87.93  E-value=10  Score=31.33  Aligned_cols=167  Identities=13%  Similarity=0.072  Sum_probs=76.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHH----HHHHhCCCCCCHHHHHHHH
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIW----ETMVNMNVRPNVRSYNARL  240 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~----~~~~~~~~~~~~~~~~~l~  240 (377)
                      +|.++..-|.+.+++++|++++..-               ...+.+.|+...|-++-    +-..+.++++|......++
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~G---------------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~  101 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASV---------------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLL  101 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHH---------------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            4444444455555555555544221               22344455554444433    4444556666666666666


Q ss_pred             HHHHhcCCHH-HHHHHHHHHHh----CC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc
Q 042154          241 DGLAIEKQTK-KALELVGEMRS----KE--INPDVFTFYALIKGFVNEGNLEEAKRWYNKSGCGMNKAIFKLLVPFVCEK  313 (377)
Q Consensus       241 ~~~~~~~~~~-~a~~~~~~~~~----~g--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~  313 (377)
                      ..+.....-+ .=..+.+++.+    .|  ..-|+..-..+...|.+.+++.+|...|- .+..+.+..+..++.-+...
T Consensus       102 ~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i-lg~~~s~~~~a~mL~ew~~~  180 (336)
T 3lpz_A          102 GCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV-LGTKESPEVLARMEYEWYKQ  180 (336)
T ss_dssp             HHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT-TSCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH-hcCCchHHHHHHHHHHHHHh
Confidence            6555443211 11222222221    11  11244444555666666666666666553 22223334443333322222


Q ss_pred             CChHHHHHHHHHHHhcCCCCChhhH-HHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          314 GDLDFAFNLCKRTFSERCLVDQAPL-QLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       314 g~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      +...                +...| ...+--|.-.|+...|..+++...+
T Consensus       181 ~~~~----------------e~dlfiaRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          181 DESH----------------TAPLYCARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             SCGG----------------GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCc----------------cHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            2111                11111 2233345667888888887666554

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.67  E-value=7.1  Score=33.83  Aligned_cols=98  Identities=11%  Similarity=-0.004  Sum_probs=56.9

Q ss_pred             hhHHHHHHHHccCCHHHHHHHHHhcCCC--CCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHH--
Q 042154           94 FTARLIALYGKAAMFENARKVFDEMPGR--NCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTI--  169 (377)
Q Consensus        94 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l--  169 (377)
                      ....+...|.+.|++++|.+.|.++...  +...-...+-.+++.+...+++..+...+.+......-.++....+.+  
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            3446777788888888888887776542  212335566667777777788877777777764332222232221111  


Q ss_pred             --HHHHHHcCCHHHHHHHHHHHHH
Q 042154          170 --IKAFVDKGSLDSANTLLYEMEK  191 (377)
Q Consensus       170 --~~~~~~~~~~~~a~~~~~~~~~  191 (377)
                        +..+...+++..|-+.|-+...
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhc
Confidence              1223345677777666665543

>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=87.28  E-value=6.5  Score=28.21  Aligned_cols=32  Identities=13%  Similarity=0.219  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTFSERCLV  333 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  333 (377)
                      .|......+...|++.+|.++|+..++.+-.|
T Consensus       103 fYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P  134 (152)
T 4a1g_A          103 LYIAWAGHLEAQGELQHASAVLQRGIQNQAEP  134 (152)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            34444444444555555555555544444333

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=86.65  E-value=2.5  Score=33.59  Aligned_cols=57  Identities=11%  Similarity=0.177  Sum_probs=40.8

Q ss_pred             HHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhc
Q 042154           29 RGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYK   87 (377)
Q Consensus        29 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   87 (377)
                      ..+.+.|++++|+.....-.+..  |.|...-..++..+|-.|+++.|.+-++...+..
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~--P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~   61 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS--PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF   61 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            44566777777777777766665  6677777777777777888887777777666654

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.38  E-value=8.8  Score=33.24  Aligned_cols=94  Identities=11%  Similarity=-0.089  Sum_probs=63.9

Q ss_pred             HhHHHHHHHHHcCCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHH--
Q 042154          199 ITFNTLLLGFYSNGRFADAEKIWETMVNM--NVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK---EINPDVFTF--  271 (377)
Q Consensus       199 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---g~~p~~~~~--  271 (377)
                      .+...+...|.+.|+++.|.+.|.++...  +...-...+-.+++.+...+++..+...+.+....   +..|+...-  
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            36677899999999999999999998853  22233456777888888999999999888887543   222332211  


Q ss_pred             HHHHHHHHhcCCHHHHHHHHH
Q 042154          272 YALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       272 ~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ..-...+...+++..|.+.|-
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~  232 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLV  232 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHH
Confidence            111122345678888877766

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=85.16  E-value=4.4  Score=32.26  Aligned_cols=120  Identities=10%  Similarity=0.066  Sum_probs=66.9

Q ss_pred             HHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCC--CCccHHHHHHHHHHHHhCCC
Q 042154           65 QRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRN--CEQTVLSFNALLGACVNSKK  142 (377)
Q Consensus        65 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~  142 (377)
                      ..+.+.|+++++++.+..-.+.. +.+...-..++..+|-.|+++.|.+-++...+..  ..|....|..+|++=.... 
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~aE~~R~-   82 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARK-   82 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHHHHHH-
Confidence            34567788888888887766654 3344444468888899999999988877776543  1122334554544321110 


Q ss_pred             hhHHHHHHHhchhhcCC-CcCHHHHHHHHHHH--HHcCCHHHHHHHHHHHHHC
Q 042154          143 FDEVDGLFKDLPHKLGI-EPDLVSYNTIIKAF--VDKGSLDSANTLLYEMEKK  192 (377)
Q Consensus       143 ~~~a~~~~~~~~~~~~~-~p~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~  192 (377)
                           ++|.- ....++ .....-...++.+.  ...|+.++|..+-..+.+.
T Consensus        83 -----~vfaG-~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           83 -----DFAQG-AATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             -----HHTTS-CCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -----HHHcC-CCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence                 11110 011111 11222334444444  3458888888887777643

>2wvi_A Mitotic checkpoint serine/threonine-protein kinase BUB1 beta; tumor suppressor, TPR, apoptosis, cell division, cell cycle, kinetochore, transferase; 1.80A {Homo sapiens} PDB: 3si5_A

Probab=84.58  E-value=9.7  Score=27.73  Aligned_cols=56  Identities=5%  Similarity=0.006  Sum_probs=35.6

Q ss_pred             cCCHHHHHHHHHhcCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChh
Q 042154          281 EGNLEEAKRWYNKSGCG-MNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQA  336 (377)
Q Consensus       281 ~~~~~~a~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  336 (377)
                      .+++.+....+...++- --...|......+...|++.+|.++|+..++.+-.|-..
T Consensus        76 ~~~p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~A~P~~~  132 (164)
T 2wvi_A           76 CNEPLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQKAEPLER  132 (164)
T ss_dssp             CSCHHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHHH
T ss_pred             cCCHHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHH
Confidence            35555555555533333 344556677777777888888888888877776666433

>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=83.09  E-value=21  Score=30.44  Aligned_cols=234  Identities=12%  Similarity=0.013  Sum_probs=131.3

Q ss_pred             HHHHHHHHccCCHHHHHHHHHhcCCC-CCCc---cHHHHHHHHHHHHhCC-ChhHHHHHHHhchhhcCCCcCHHHH----
Q 042154           96 ARLIALYGKAAMFENARKVFDEMPGR-NCEQ---TVLSFNALLGACVNSK-KFDEVDGLFKDLPHKLGIEPDLVSY----  166 (377)
Q Consensus        96 ~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~p~~~~~----  166 (377)
                      ..|...|.+.|+.++..+++...... +..|   .......++..+.... ..+.-.++..+..+...  -+..+|    
T Consensus        23 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~--~~~r~flr~~  100 (394)
T 3txn_A           23 LQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK--QEKRTFLRQS  100 (394)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH--HTTCHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH--HHHHHHHHHH
Confidence            36899999999999999999887652 1112   2334566777777643 34444444444443211  111233    


Q ss_pred             --HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-----HHhHHHHHHHHHcCCCHHHHHHHHHHHHhC--CCCCCHHHHH
Q 042154          167 --NTIIKAFVDKGSLDSANTLLYEMEKKGIRLD-----LITFNTLLLGFYSNGRFADAEKIWETMVNM--NVRPNVRSYN  237 (377)
Q Consensus       167 --~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~  237 (377)
                        ..++..|...|++.+|.+++..+.+.--..|     ..++..-+..|...+++.++...+......  .+.+++....
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              2567888999999999988888875311111     234555667788889999999888877532  2324443333


Q ss_pred             HH----HHHHH-hcCCHHHHHHHHHHHHhC----CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHH-h--cC-CCCCHH
Q 042154          238 AR----LDGLA-IEKQTKKALELVGEMRSK----EINP---DVFTFYALIKGFVNEGNLEEAKRWYN-K--SG-CGMNKA  301 (377)
Q Consensus       238 ~l----~~~~~-~~~~~~~a~~~~~~~~~~----g~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~-~--~~-~~~~~~  301 (377)
                      .+    ...+. ..+++.+|...|-+....    |. |   +...|..|... . .++..+-..++. .  .. ..|...
T Consensus       181 ~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~-~~~~~~lkYlvL~aL-l-~~~r~el~~~l~~~~~~~~~~pei~  257 (394)
T 3txn_A          181 ALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDS-VKALTSLKYMLLCKI-M-LGQSDDVNQLVSGKLAITYSGRDID  257 (394)
T ss_dssp             HHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCH-HHHHHHHHHHHHHHH-H-TTCGGGHHHHHHSHHHHTTCSHHHH
T ss_pred             HHHHHhhHHHHHhccCHHHHHHHHHHHHhccccccc-HHHHHHHHHHHHHHH-H-cCCHHHHHHHhccccccccCCccHH
Confidence            22    23345 678899988777665421    11 1   12233322222 2 233222233333 1  11 234555


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChh
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQA  336 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  336 (377)
                      .+..++.++ ..+++.+..++++.... .+..|+.
T Consensus       258 ~l~~L~~a~-~~~dl~~f~~iL~~~~~-~l~~D~~  290 (394)
T 3txn_A          258 AMKSVAEAS-HKRSLADFQAALKEYKK-ELAEDVI  290 (394)
T ss_dssp             HHHHHHHHH-HTTCHHHHHHHHHHSTT-TTTTSHH
T ss_pred             HHHHHHHHH-HhCCHHHHHHHHHHHHH-HHhcChH
Confidence            555566554 55677776666665433 2444554

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=82.42  E-value=8  Score=25.29  Aligned_cols=50  Identities=10%  Similarity=0.046  Sum_probs=22.6

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          207 GFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       207 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      .+.+.|++++|..+.+.+.    .||...|.++...  +.|..+++..-+.++...
T Consensus        48 SLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce~--rlGl~s~le~rL~~la~s   97 (115)
T 2uwj_G           48 SLANQGRYQEALAFAHGNP----WPALEPWFALCEW--HLGLGAALDRRLAGLGGS   97 (115)
T ss_dssp             HHHHTTCHHHHHGGGTTCC----CGGGHHHHHHHHH--HTTCHHHHHHHHHHHHTC
T ss_pred             HHHcchhHHHHHHhcCCCC----CchHHHHHHHHHH--hcccHHHHHHHHHHHHhC
Confidence            3444555555544433222    3454444443322  445555555544444444

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=81.95  E-value=8.6  Score=25.19  Aligned_cols=78  Identities=13%  Similarity=0.076  Sum_probs=36.4

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      ..++|..+-+-+...+.  ...+--+-+..+.+.|++++|..+.+.+.    .||...|.++...  +.|..+++..-+.
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce~--rlGl~s~le~rL~   93 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLALCEY--RLGLGSALESRLN   93 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHHHHH--HHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHHH--hcccHHHHHHHHH
Confidence            34455555544444432  11122222334445566666655544332    4555555544332  4555555555555


Q ss_pred             HHHhCC
Q 042154          258 EMRSKE  263 (377)
Q Consensus       258 ~~~~~g  263 (377)
                      ++...|
T Consensus        94 ~la~sg   99 (116)
T 2p58_C           94 RLARSQ   99 (116)
T ss_dssp             HHTTCC
T ss_pred             HHHhCC
Confidence            555443

>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=81.13  E-value=13  Score=30.36  Aligned_cols=65  Identities=14%  Similarity=0.306  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC--HHHHHHHHHHHHhCCCC
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR--FADAEKIWETMVNMNVR  230 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~  230 (377)
                      ....++.-|...|+.++|.+.++++...... ...+...+..++-+.++  .+...+++..+.+.|+-
T Consensus       168 ki~~lL~EY~~~~D~~EA~~ci~EL~~p~f~-~e~V~~ai~~alE~~~~~~re~~~~LL~~L~~~~~l  234 (307)
T 2zu6_B          168 EIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIIMVLESTGESTFKMILDLLKSLWKSSTI  234 (307)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHCCGGGH-HHHHHHHHHHHHTCCSSHHHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHcCCCcch-HHHHHHHHHHHHccCChHHHHHHHHHHHHHHHCCCC
Confidence            3566778888889999999999888632111 23344444445554433  45566777777766643

---

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	377
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.93
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.73
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.69
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.41
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.39
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.36
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.32
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.31
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.3
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.28
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.26
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.16
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.11
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.9
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.81
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.78
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.73
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.7
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.67
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.62
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.61
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.6
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.58
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.54
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.51
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.46
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.41
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.35
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.33
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.31
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.29
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.24
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.24
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.19
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.13
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.08
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.08
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.08
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.06
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.01
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.01
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.99
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.97
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.95
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.92
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.91
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.79
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.71
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.53
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.51
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.44
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.27
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.12
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	97.05
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.84
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.52
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.5
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.33
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.39
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.35
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	94.33
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.08
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.45

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=2.6e-22  Score=172.50  Aligned_cols=330  Identities=11%  Similarity=0.037  Sum_probs=253.1

Q ss_pred             HHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccC
Q 042154           27 VIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAA  106 (377)
Q Consensus        27 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  106 (377)
                      +...+.+.|++++|++.|+++.+..  |.+...+..+..++...|++++|+..++++.+..+.. ...+..+..+|.+.|
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~-~~a~~~l~~~~~~~g   81 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE--PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLL-AEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC-HHHHHHHHHHhhhhc
Confidence            4456778899999999999887764  5567788888888999999999999999888775433 344556888899999


Q ss_pred             CHHHHHHHHHhcCCCCCCccHHHHHHHHHH----------------------------------HHhCCChhHHHHHHHh
Q 042154          107 MFENARKVFDEMPGRNCEQTVLSFNALLGA----------------------------------CVNSKKFDEVDGLFKD  152 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~----------------------------------~~~~~~~~~a~~~~~~  152 (377)
                      ++++|...+....+.. +.+..........                                  ....+....+...+.+
T Consensus        82 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (388)
T d1w3ba_          82 QLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             cccccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHH
Confidence            9999998888876543 1222222222222                                  2223333344444443


Q ss_pred             chhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC
Q 042154          153 LPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPN  232 (377)
Q Consensus       153 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  232 (377)
                      ....  .+-+...+..+...+...|++++|...+++..+... .+...+..+...+...|++++|...+++....+ +.+
T Consensus       161 ~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~  236 (388)
T d1w3ba_         161 AIET--QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNH  236 (388)
T ss_dssp             HHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTC
T ss_pred             hhcc--CcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCc-ccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhH
Confidence            3322  122445677778888899999999999999887643 367788889999999999999999999988765 356


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHH
Q 042154          233 VRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFV  310 (377)
Q Consensus       233 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~  310 (377)
                      ...+..+...+.+.|++++|+..|++..+.. +-+..++..+...+...|++++|.+.++  ....+.+...+..+...+
T Consensus       237 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  315 (388)
T d1w3ba_         237 AVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHH
Confidence            6778888899999999999999999988853 3356788889999999999999999999  333455777888899999


Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          311 CEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       311 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                      ...|++++|++.|++.++..+. +..++..+..+|.+.|++++|.+.++++.+..+
T Consensus       316 ~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P  370 (388)
T d1w3ba_         316 REQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISP  370 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCT
T ss_pred             HHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999886433 567888899999999999999999999987654

>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=99.91  E-value=7.3e-21  Score=163.34  Aligned_cols=323  Identities=12%  Similarity=0.050  Sum_probs=262.2

Q ss_pred             CCCchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchh--
Q 042154           18 ATGPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFT--   95 (377)
Q Consensus        18 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--   95 (377)
                      |-++..+..+...+.+.|++++|+..|+++.+..  |.+..+|..+..++...|++++|++.+...............  
T Consensus        30 p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  107 (388)
T d1w3ba_          30 PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINL  107 (388)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHhhhhccccccccccccccccccccccccccc
Confidence            4567889999999999999999999999998765  567789999999999999999999999888775433222221  


Q ss_pred             -------------------------------HHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChh
Q 042154           96 -------------------------------ARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFD  144 (377)
Q Consensus        96 -------------------------------~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  144 (377)
                                                     ..........+....+...+....... +.+...+..+...+...|+++
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  186 (388)
T d1w3ba_         108 AAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIW  186 (388)
T ss_dssp             HHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHH
Confidence                                           122233334444555555555544432 335677888888999999999


Q ss_pred             HHHHHHHhchhhcCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHH
Q 042154          145 EVDGLFKDLPHKLGIEP-DLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWET  223 (377)
Q Consensus       145 ~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  223 (377)
                      +|...+++....   .| +..++..+...+...|++++|...+......+. .+...+..+...+.+.|++++|...|++
T Consensus       187 ~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~  262 (388)
T d1w3ba_         187 LAIHHFEKAVTL---DPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRR  262 (388)
T ss_dssp             HHHHHHHHHHHH---CTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh---CcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999988764   34 456888899999999999999999999987644 3677888899999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHH
Q 042154          224 MVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKA  301 (377)
Q Consensus       224 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~  301 (377)
                      ..+.. +-+..++..+...+...|++++|...++..... .+.+...+..+...+...|++++|.+.++ .....| +..
T Consensus       263 al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~  340 (388)
T d1w3ba_         263 AIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAA  340 (388)
T ss_dssp             HHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH
Confidence            99875 345778899999999999999999999998876 35577888999999999999999999999 455556 566


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 042154          302 IFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELR  350 (377)
Q Consensus       302 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  350 (377)
                      ++..+..+|.+.|++++|.+.|+++++..+. +...|..++.+|.+.||
T Consensus       341 ~~~~la~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         341 AHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCC
Confidence            7889999999999999999999999986433 57789999999988875

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=1.5e-15  Score=126.74  Aligned_cols=274  Identities=12%  Similarity=0.047  Sum_probs=153.0

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLI   99 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   99 (377)
                      +....-.....+.+.|++++|+..|+++.+..  |.+..+|..+..++...|++++|+..++++.+..+.. ...+..++
T Consensus        18 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~-~~~~~~la   94 (323)
T d1fcha_          18 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDN-QTALMALA   94 (323)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-HHHHHHHH
T ss_pred             chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccccc-cccccccc
Confidence            33333456677889999999999999998876  6678889999999999999999999999988875443 34455688


Q ss_pred             HHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCH
Q 042154          100 ALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSL  179 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  179 (377)
                      ..|...|++++|.+.+++.....  |+.............                    ..+.......+..+...+.+
T Consensus        95 ~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~  152 (323)
T d1fcha_          95 VSFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAG--------------------GAGLGPSKRILGSLLSDSLF  152 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC-----------------------------------CTTHHHHHHHHH
T ss_pred             ccccccccccccccchhhHHHhc--cchHHHHHhhhhhhh--------------------hcccccchhhHHHHHHhhHH
Confidence            89999999999999998876543  221110000000000                    00000000111122233344


Q ss_pred             HHHHHHHHHHHHCCC-CCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042154          180 DSANTLLYEMEKKGI-RLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGE  258 (377)
Q Consensus       180 ~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (377)
                      .++...+.++.+... ..+..++..+...+...|++++|...|++..... +-+...|..+...|...|++++|.+.|++
T Consensus       153 ~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~  231 (323)
T d1fcha_         153 LEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRR  231 (323)
T ss_dssp             HHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHH
Confidence            445555544443221 2234445555555555555555555555555432 12344555555555555555555555555


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-----h--------cCCCCCHHHHHHHHHHHHhcCChHHHH
Q 042154          259 MRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-----K--------SGCGMNKAIFKLLVPFVCEKGDLDFAF  320 (377)
Q Consensus       259 ~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-----~--------~~~~~~~~~~~~l~~~~~~~g~~~~a~  320 (377)
                      ..+.. +-+...+..+..+|.+.|++++|++.|+     .        .........|..+-.++...|+.+.+.
T Consensus       232 al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         232 ALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            55431 1234455555555555555555555555     0        011122234555555666566655443

>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=99.69  E-value=1e-14  Score=121.71  Aligned_cols=228  Identities=11%  Similarity=-0.011  Sum_probs=140.1

Q ss_pred             HHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHc
Q 042154           97 RLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDK  176 (377)
Q Consensus        97 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  176 (377)
                      .....+.+.|++++|...|+++.+.. |-+..+|..+..++...|++++|...|.+..+.  .+-+...+..+...+...
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLEL--KPDNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcc--cccccccccccccccccc
Confidence            36777888888888888888887765 345778888888888888888888888887653  122455777788888888


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHh---------------HHHHHHHHHcCCCHHHHHHHHHHHHhCC-CCCCHHHHHHHH
Q 042154          177 GSLDSANTLLYEMEKKGIRLDLIT---------------FNTLLLGFYSNGRFADAEKIWETMVNMN-VRPNVRSYNARL  240 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~~~~~---------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~  240 (377)
                      |++++|.+.++.+...... ....               ....+..+...+.+.+|...|.+..+.. -..+...+..+.
T Consensus       101 ~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~  179 (323)
T d1fcha_         101 SLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLG  179 (323)
T ss_dssp             TCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHH
T ss_pred             ccccccccchhhHHHhccc-hHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            8888888888888765321 1100               0111112223344555555655554432 112344555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHH
Q 042154          241 DGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDF  318 (377)
Q Consensus       241 ~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~  318 (377)
                      ..+...|++++|+..|++..... +-+...|..+..++...|++++|.+.++ .....| +..+|..+..+|.+.|++++
T Consensus       180 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~  258 (323)
T d1fcha_         180 VLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHRE  258 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHH
Confidence            66666666666666666655532 2234555566666666666666666666 222223 34455566666666666666


Q ss_pred             HHHHHHHHHhc
Q 042154          319 AFNLCKRTFSE  329 (377)
Q Consensus       319 a~~~~~~~~~~  329 (377)
                      |++.|++.++.
T Consensus       259 A~~~~~~al~l  269 (323)
T d1fcha_         259 AVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            66666666553

>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=99.41  E-value=1.4e-10  Score=97.23  Aligned_cols=271  Identities=10%  Similarity=-0.039  Sum_probs=150.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCcc----chhHHHHHHHHccCCHHHHHHHHHhcCCCC----C-CccHHH
Q 042154           59 IYTGTVQRLANAKRFRWIEEILEHQKQYKDISKE----GFTARLIALYGKAAMFENARKVFDEMPGRN----C-EQTVLS  129 (377)
Q Consensus        59 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~-~~~~~~  129 (377)
                      ........+...|++++|++++++.....+..+.    ..+..+...|...|++++|...|++..+..    . +.....
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   93 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   93 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            3444455666777777777777777665332221    123446667777777777777777665421    0 011234


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHhchhh---cCCC--cC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC----CCCCHH
Q 042154          130 FNALLGACVNSKKFDEVDGLFKDLPHK---LGIE--PD-LVSYNTIIKAFVDKGSLDSANTLLYEMEKKG----IRLDLI  199 (377)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~--p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~  199 (377)
                      +..+...+...|++..+...+.+....   ....  +. ...+..+...+...|+++.+...+.......    ......
T Consensus        94 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  173 (366)
T d1hz4a_          94 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  173 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHH
Confidence            445556667777777777777665321   0111  11 1244455566667777777777776665431    122233


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhC--CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHH
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNM--NVRPN----VRSYNARLDGLAIEKQTKKALELVGEMRSKEINP---DVFT  270 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p---~~~~  270 (377)
                      .+......+...++...+...+.+....  .....    ...+..+...+...|++++|...++.........   ....
T Consensus       174 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  253 (366)
T d1hz4a_         174 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  253 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHH
Confidence            4445555566667777777666655431  11111    1234444555666677777777776665442211   1234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHH-------hcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          271 FYALIKGFVNEGNLEEAKRWYN-------KSGCGMN-KAIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       271 ~~~l~~~~~~~~~~~~a~~~~~-------~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      +..+..++...|++++|...++       ..+..|+ ...+..+..+|...|++++|.+.+++.++.
T Consensus       254 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         254 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            4456666677777777777666       2233332 234556666777777777777777776653

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.39  E-value=1.8e-10  Score=96.45  Aligned_cols=268  Identities=10%  Similarity=0.009  Sum_probs=192.6

Q ss_pred             HHHHHHHHhhhcccHHHHHHHHHhcccCCCCccc-----hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCc-----c
Q 042154           23 FIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTN-----TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISK-----E   92 (377)
Q Consensus        23 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~   92 (377)
                      ........+...|++++|++++++..+..  +.+     ..++..+...+...|++++|++.+++.........     .
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~--~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   91 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEEL--PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYAL   91 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC--CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHH
Confidence            34444566788999999999999987654  222     34677788899999999999999998876432221     1


Q ss_pred             chhHHHHHHHHccCCHHHHHHHHHhcCC----CCC--Cc-cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcC---CCcC
Q 042154           93 GFTARLIALYGKAAMFENARKVFDEMPG----RNC--EQ-TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLG---IEPD  162 (377)
Q Consensus        93 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~p~  162 (377)
                      ..+..+...+...|++..+...+.....    .+.  .+ ....+..+...+...|+++.+...+........   ....
T Consensus        92 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  171 (366)
T d1hz4a_          92 WSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQ  171 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhH
Confidence            2234567788899999999999987542    111  11 234566677889999999999999988765421   1223


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCC----HHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC---CCH
Q 042154          163 LVSYNTIIKAFVDKGSLDSANTLLYEMEKK--GIRLD----LITFNTLLLGFYSNGRFADAEKIWETMVNMNVR---PNV  233 (377)
Q Consensus       163 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~  233 (377)
                      ..++......+...++...+...+......  .....    ...+..+...+...|+++.|...++........   ...
T Consensus       172 ~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  251 (366)
T d1hz4a_         172 LQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQ  251 (366)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGH
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHH
Confidence            345666677888899999999988877642  11111    234566677788999999999999887654322   223


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          234 RSYNARLDGLAIEKQTKKALELVGEMRS----KEINPD-VFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       234 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ..+..+..++...|++++|...+++...    .+..|+ ...+..+..+|...|++++|.+.++
T Consensus       252 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~  315 (366)
T d1hz4a_         252 GQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLL  315 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            4566678899999999999999998763    233443 3567888889999999999999988

>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=3.2e-10  Score=93.19  Aligned_cols=186  Identities=6%  Similarity=-0.010  Sum_probs=133.5

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVG  257 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (377)
                      ..++|..+|++..+...+.+...+...+..+.+.|+++.|..+|+++.+.........|...+..+.+.|+.+.|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            45778888888876544556667777888888888888888888888875433334567888888888888888888888


Q ss_pred             HHHhCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHH--hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC-CC
Q 042154          258 EMRSKEINPDVFTFYALIKG-FVNEGNLEEAKRWYN--KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERC-LV  333 (377)
Q Consensus       258 ~~~~~g~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~  333 (377)
                      ++.+.+. .+...|...... +...|+.+.|..+++  ....+.+...|...+..+.+.|+++.|..+|++.++... .|
T Consensus       159 ~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~  237 (308)
T d2onda1         159 KAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCh
Confidence            8887642 233344333332 344678888888888  222344567788888888888999999999988877642 22


Q ss_pred             C--hhhHHHHHHHHHhcCCHHHHHHHHHhhccC
Q 042154          334 D--QAPLQLVVDRLAKELRVEEAKELVELGKTN  364 (377)
Q Consensus       334 ~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  364 (377)
                      +  ...|...+.--...|+.+.+.++.+++.+.
T Consensus       238 ~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         238 EKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            2  236777777777788888888888877553

>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=99.32  E-value=3e-10  Score=93.37  Aligned_cols=179  Identities=14%  Similarity=0.124  Sum_probs=80.7

Q ss_pred             HHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcC--HHHHHHHHHHHHHcCCHHHHHHHH
Q 042154          109 ENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPD--LVSYNTIIKAFVDKGSLDSANTLL  186 (377)
Q Consensus       109 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~  186 (377)
                      ++|..+|++..+...+.+...|...+....+.|+++.|..+|+++.+.   .|.  ...|...+..+.+.|+.+.|.++|
T Consensus        81 ~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~---~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI---EDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---SSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHH---hcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            444455555444322333444444444555555555555555554421   221  223445555555555555555555


Q ss_pred             HHHHHCCCCCCHHhHHHHHHH-HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-C
Q 042154          187 YEMEKKGIRLDLITFNTLLLG-FYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKE-I  264 (377)
Q Consensus       187 ~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g-~  264 (377)
                      +.+.+.+.. +...|...... +...|+.+.|..+|+.+.+.. +.+...|...+..+...|+++.|..+|++..... .
T Consensus       158 ~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            555544322 22222222221 223345555555555555432 2334445555555555555555555555554431 1


Q ss_pred             CCC--HHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          265 NPD--VFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       265 ~p~--~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      .|+  ...|...+..-...|+.+.+.++.+
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~  265 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEK  265 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            221  2344444444444555555555554

>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=99.31  E-value=2e-11  Score=97.78  Aligned_cols=218  Identities=10%  Similarity=-0.032  Sum_probs=140.7

Q ss_pred             CCHHHHHHHHHhcCCCCC-Cc--cHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHH
Q 042154          106 AMFENARKVFDEMPGRNC-EQ--TVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSA  182 (377)
Q Consensus       106 ~~~~~A~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  182 (377)
                      .+.+.++.-++++..... .+  ...+|..+..+|.+.|++++|+..|++..+.  -+-++.+|..+..++.+.|++++|
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~A   90 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAA   90 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHHh
Confidence            345666666777665321 11  2346777788889999999999999988754  123456888888999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          183 NTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      +..|+++.+.... +..++..+..+|...|++++|...|+...+.. +.+......+..++.+.+..+.+..+.......
T Consensus        91 ~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (259)
T d1xnfa_          91 YEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  168 (259)
T ss_dssp             HHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             hhhhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc
Confidence            9999998886433 56678888888889999999999999888764 234444444445555666666666665555553


Q ss_pred             CCCCCHHHHHHHHHHHHhcCC----HHHHHHHHH-hcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          263 EINPDVFTFYALIKGFVNEGN----LEEAKRWYN-KSGCGMN-KAIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       263 g~~p~~~~~~~l~~~~~~~~~----~~~a~~~~~-~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      .  ++...+. ++..+.....    .+.+...+. .....|+ ..+|..+...|...|++++|.+.|++.+...
T Consensus       169 ~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         169 D--KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             C--CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             c--hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            2  2222222 2222222222    222222222 1111222 2456677888888999999999999888753

>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=99.30  E-value=3.8e-10  Score=92.86  Aligned_cols=198  Identities=8%  Similarity=0.006  Sum_probs=112.9

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccC-CHHHHHHHHHhcCCCCCCccHHHHHHHHH
Q 042154           57 TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAA-MFENARKVFDEMPGRNCEQTVLSFNALLG  135 (377)
Q Consensus        57 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  135 (377)
                      ...|+.+...+.+.+.+++|+++++++.+..+... ..++....++...| ++++|+..++...+.. |-+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~-~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANY-TVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCH-HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCCh-HHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            44555666666666777777777777766643332 33334555555544 4677777777665544 335666666666


Q ss_pred             HHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC--
Q 042154          136 ACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR--  213 (377)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--  213 (377)
                      .+.+.|++++|+..++++.+.  -+-+..+|..+...+.+.|++++|++.++++.+.++. +...|+.+..++.+.+.  
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~  197 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYN  197 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSC
T ss_pred             HHHhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccc
Confidence            677777777777777766543  1223556666666666777777777777776665433 55556555555544443  


Q ss_pred             ----HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          214 ----FADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       214 ----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                          +++|+..+.+..+.. +.+...|+.+...+. ....+++...++...+
T Consensus       198 ~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~  247 (315)
T d2h6fa1         198 DRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQ-DRGLSKYPNLLNQLLD  247 (315)
T ss_dssp             SHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHH
T ss_pred             hhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHH-hcChHHHHHHHHHHHH
Confidence                455666665555543 234445554444432 2234445555554443

>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=99.28  E-value=5.9e-10  Score=91.65  Aligned_cols=217  Identities=7%  Similarity=-0.026  Sum_probs=168.2

Q ss_pred             chHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCC-hHHHHHHHHHhhhhcCCCccchhHHHH
Q 042154           21 PKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKR-FRWIEEILEHQKQYKDISKEGFTARLI   99 (377)
Q Consensus        21 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~   99 (377)
                      ...++.+...+.+.+.+++|+..++++.+.+  |-+...|+....++...|+ +++|++.++.+.+..+... ..+..+.
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln--P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~-~a~~~~~  119 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNY-QVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCH-HHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhh-hHHHHHh
Confidence            4467777778888999999999999999876  6678889999998888764 8999999999988765444 4444688


Q ss_pred             HHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC-
Q 042154          100 ALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS-  178 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~-  178 (377)
                      ..+.+.|++++|+..++++.+.. +.+..+|..+...+.+.|++++|+..++++.+.  -+-+...|+.+...+.+.+. 
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCS
T ss_pred             HHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHcccc
Confidence            99999999999999999998865 457889999999999999999999999999864  13356678877777666665 


Q ss_pred             -----HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh
Q 042154          179 -----LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVR-PNVRSYNARLDGLAI  245 (377)
Q Consensus       179 -----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~  245 (377)
                           +++|++.+..+.+..+ .+...|..+...+... ..+++.+.++...+.... .+...+..++..|..
T Consensus       197 ~~~~~~~~ai~~~~~al~~~P-~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             chhhhhHHhHHHHHHHHHhCC-CchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence                 6789999988887743 3777777776665544 467788888877654322 234555566666543

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.26  E-value=1.7e-10  Score=92.19  Aligned_cols=95  Identities=13%  Similarity=-0.022  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLA  244 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  244 (377)
                      +|..+..+|.+.|++++|+..|++..+.... +..+|..+..+|.+.|++++|+..|++..+.. +-+..++..+..+|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHH
Confidence            3444444555555555555555555443221 44445555555555555555555555554432 112334444444455


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 042154          245 IEKQTKKALELVGEMRS  261 (377)
Q Consensus       245 ~~~~~~~a~~~~~~~~~  261 (377)
                      ..|++++|...|+...+
T Consensus       117 ~~g~~~~A~~~~~~al~  133 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQ  133 (259)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHh
Confidence            55555555555555444

>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=99.16  E-value=2.7e-11  Score=100.98  Aligned_cols=274  Identities=5%  Similarity=-0.122  Sum_probs=186.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH---HHHHHHcc-------CCHHHHHHHHHhcCCCCCCccHHHH
Q 042154           61 TGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR---LIALYGKA-------AMFENARKVFDEMPGRNCEQTVLSF  130 (377)
Q Consensus        61 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~-------~~~~~A~~~~~~~~~~~~~~~~~~~  130 (377)
                      ..++......+..++|+++++++.+..+.. ...++.   ++..+...       |++++|+..++...+.. |.+...|
T Consensus        33 ~~~~~~~~~~~~~~~al~~~~~~l~~~P~~-~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~  110 (334)
T d1dcea1          33 QAVFQKRQAGELDESVLELTSQILGANPDF-ATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTW  110 (334)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHCCCc-HHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHH
Confidence            334443334444589999999988765433 233322   33333333       23678888888887755 4467777


Q ss_pred             HHHHHHHHhCC--ChhHHHHHHHhchhhcCCCcCHHHHH-HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 042154          131 NALLGACVNSK--KFDEVDGLFKDLPHKLGIEPDLVSYN-TIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLG  207 (377)
Q Consensus       131 ~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  207 (377)
                      ..+..++...+  ++++|+..++++.+.  .+++...+. .....+...+.++.|+..++.+.+.... +...|..+..+
T Consensus       111 ~~~~~~~~~~~~~~~~~a~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~  187 (334)
T d1dcea1         111 HHRCWLLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCL  187 (334)
T ss_dssp             HHHHHHHHTCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHH
T ss_pred             HHhhHHHHHhccccHHHHHHHHHHHHhh--CchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHH
Confidence            77777776665  478899999888764  133455544 4446667788999999999988887554 78888888999


Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 042154          208 FYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEA  287 (377)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a  287 (377)
                      +.+.|++++|...+....+..  |+   .......+...+..+++...+....... +++...+..+...+...|+.++|
T Consensus       188 ~~~~~~~~~A~~~~~~~~~~~--~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a  261 (334)
T d1dcea1         188 LPQLHPQPDSGPQGRLPENVL--LK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELES  261 (334)
T ss_dssp             HHHHSCCCCSSSCCSSCHHHH--HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHhHHhH--HH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHH
Confidence            999999988877666544421  21   1223344556677778888888777653 33455566677777888899999


Q ss_pred             HHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHh
Q 042154          288 KRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVD-QAPLQLVVDRLAK  347 (377)
Q Consensus       288 ~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~  347 (377)
                      ...+. .....| +...+..+..++...|++++|++.++++.+.  .|+ ..-|..|...+.-
T Consensus       262 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         262 CKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKFLL  322 (334)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHHhH
Confidence            99888 444445 4457788888999999999999999999885  443 3455656555553

>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=99.11  E-value=3.8e-10  Score=93.86  Aligned_cols=234  Identities=9%  Similarity=-0.057  Sum_probs=161.9

Q ss_pred             hcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCC--hHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHH
Q 042154           33 KENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKR--FRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFEN  110 (377)
Q Consensus        33 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  110 (377)
                      ..|.+++|+.+++.+.+..  |.+...|..+..++...++  +++++..+.++....+.....++......+...+..++
T Consensus        85 ~~~~~~~al~~~~~~l~~~--pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVN--PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC--CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHH
Confidence            3455788999998887765  5667777777777776654  78888888888877554444444455677778889999


Q ss_pred             HHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 042154          111 ARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEME  190 (377)
Q Consensus       111 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  190 (377)
                      |+..++.+.+.+ +-+..+|+.+...+.+.|++++|...+......   .|+.   ......+...+..+++...+....
T Consensus       163 Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~---~~~~~~~~~l~~~~~a~~~~~~~l  235 (334)
T d1dcea1         163 ELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV---LLKE---LELVQNAFFTDPNDQSAWFYHRWL  235 (334)
T ss_dssp             HHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH---HHHH---HHHHHHHHHHCSSCSHHHHHHHHH
T ss_pred             HHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh---HHHH---HHHHHHHHHhcchhHHHHHHHHHH
Confidence            999999988876 456788888888888999888887776665432   2221   122334455667777777777776


Q ss_pred             HCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HH
Q 042154          191 KKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD-VF  269 (377)
Q Consensus       191 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~  269 (377)
                      .... ++...+..+...+...++.++|...+.+..... +.+...+..+...+...|+.++|.+.++...+.  .|+ ..
T Consensus       236 ~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~  311 (334)
T d1dcea1         236 LGRA-EPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAA  311 (334)
T ss_dssp             HSCC-CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHH
T ss_pred             HhCc-chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHH
Confidence            6533 344455566666777778888888888777654 234566777777888888888888888888774  454 33


Q ss_pred             HHHHHHHHHH
Q 042154          270 TFYALIKGFV  279 (377)
Q Consensus       270 ~~~~l~~~~~  279 (377)
                      -|..+...+.
T Consensus       312 y~~~L~~~~~  321 (334)
T d1dcea1         312 YLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            4454544444

>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=98.90  E-value=9.9e-08  Score=77.17  Aligned_cols=55  Identities=7%  Similarity=0.009  Sum_probs=25.9

Q ss_pred             HHHHHccCCHHHHHHHHHhcCCC----CCC-ccHHHHHHHHHHHHhCCChhHHHHHHHhc
Q 042154           99 IALYGKAAMFENARKVFDEMPGR----NCE-QTVLSFNALLGACVNSKKFDEVDGLFKDL  153 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  153 (377)
                      ...|...+++++|.+.|.+..+.    +-+ .-..+|..+..+|.+.|++++|+..+++.
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a  103 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENA  103 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHh
Confidence            34455555555555555544321    101 11234555555555555555555555543

>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=98.81  E-value=4.3e-07  Score=68.23  Aligned_cols=120  Identities=12%  Similarity=0.026  Sum_probs=60.3

Q ss_pred             HHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHH
Q 042154          137 CVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFAD  216 (377)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  216 (377)
                      +...|+++.|++.|.++.     +|++.+|..+..++...|++++|++.|++..+.+.. +...|..+..+|.+.|++++
T Consensus        15 ~~~~~d~~~Al~~~~~i~-----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHCCCHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHHH
Confidence            444555555555554431     234444555555555555555555555555544322 44455555555555555555


Q ss_pred             HHHHHHHHHhCCC--------------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          217 AEKIWETMVNMNV--------------RP-NVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       217 a~~~~~~~~~~~~--------------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      |.+.|++......              .+ ...++..+..++.+.|++++|.+.+......
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            5555555443210              00 0123344555666666666666666666554

>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=98.78  E-value=1.3e-07  Score=76.54  Aligned_cols=200  Identities=15%  Similarity=0.008  Sum_probs=111.9

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHhchhh---cCCCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC-CCC
Q 042154          127 VLSFNALLGACVNSKKFDEVDGLFKDLPHK---LGIEPD-LVSYNTIIKAFVDKGSLDSANTLLYEMEKK----GI-RLD  197 (377)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~  197 (377)
                      ...|......|...+++++|.+.|.+...-   .+..++ ..+|..+..+|.+.|++++|.+.++...+.    |. ...
T Consensus        37 a~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  116 (290)
T d1qqea_          37 ADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRG  116 (290)
T ss_dssp             HHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhH
Confidence            345777777777788888888888776432   111222 246777777777788888887777766532    11 111


Q ss_pred             HHhHHHHHHHHH-cCCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-----
Q 042154          198 LITFNTLLLGFY-SNGRFADAEKIWETMVN----MNVRP-NVRSYNARLDGLAIEKQTKKALELVGEMRSKEINP-----  266 (377)
Q Consensus       198 ~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-----  266 (377)
                      ..++..+...|. ..|++++|...+++..+    .+.++ -..++..+...+...|++++|...|+++.......     
T Consensus       117 ~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~  196 (290)
T d1qqea_         117 ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQW  196 (290)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGG
T ss_pred             HHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhh
Confidence            334555555553 35777777777776643    11111 12345666777777777777777777766542111     


Q ss_pred             CH-HHHHHHHHHHHhcCCHHHHHHHHH-hcCCCCC------HHHHHHHHHHHHh--cCChHHHHHHHHHH
Q 042154          267 DV-FTFYALIKGFVNEGNLEEAKRWYN-KSGCGMN------KAIFKLLVPFVCE--KGDLDFAFNLCKRT  326 (377)
Q Consensus       267 ~~-~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~------~~~~~~l~~~~~~--~g~~~~a~~~~~~~  326 (377)
                      .. ..+...+..+...|+++.|...++ ...+.|.      ......++.++..  .+.+++|+..|+++
T Consensus       197 ~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         197 SLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             hHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            11 122334445556777777777777 3333321      1233444544443  23456666666543

>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=98.73  E-value=7.6e-07  Score=66.82  Aligned_cols=127  Identities=13%  Similarity=0.024  Sum_probs=95.2

Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      -...+...|+++.|++.|.++.    +|++.+|..+..+|...|++++|++.|++..+..  +-+...|..+..++.+.|
T Consensus        11 ~g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld--p~~~~a~~~~g~~~~~~g   84 (192)
T d1hh8a_          11 EGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQTE   84 (192)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh--hhhhhhHHHHHHHHHhhc
Confidence            3556677888888988888764    3566778888888888999999999988887541  234567888888888899


Q ss_pred             CHHHHHHHHHHHHHCCCC--------------C-CHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC
Q 042154          178 SLDSANTLLYEMEKKGIR--------------L-DLITFNTLLLGFYSNGRFADAEKIWETMVNMNVR  230 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  230 (377)
                      ++++|.+.|++.......              . ...++..+..++.+.|++++|.+.+.........
T Consensus        85 ~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          85 KYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             CHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             cHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            999998888887653110              1 1245566778889999999999999988876533

>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=98.70  E-value=3.2e-05  Score=60.97  Aligned_cols=53  Identities=17%  Similarity=0.093  Sum_probs=27.9

Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHhc
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN----SKKFDEVDGLFKDL  153 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~  153 (377)
                      |...+.+.+++++|++.|++..+.|   +..++..|...|..    ..+...|...+...
T Consensus         8 lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a   64 (265)
T d1ouva_           8 LGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKA   64 (265)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccc
Confidence            4455555566666666666655554   34444444444443    33455555555544

>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=98.67  E-value=1.9e-07  Score=63.88  Aligned_cols=93  Identities=15%  Similarity=0.142  Sum_probs=63.1

Q ss_pred             HHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccC
Q 042154           27 VIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAA  106 (377)
Q Consensus        27 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  106 (377)
                      -...+.+.|++++|+..|+++.+..  |.+...|..+..++...|++++|++.++...+..+.....++ .+..++...|
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~-~~g~~~~~~~   85 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYS-RKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHH-HHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC--CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHH-HHHHHHHHcc
Confidence            3455667777777777777776654  556667777777777777777777777777766544443333 5777777777


Q ss_pred             CHHHHHHHHHhcCCCC
Q 042154          107 MFENARKVFDEMPGRN  122 (377)
Q Consensus       107 ~~~~A~~~~~~~~~~~  122 (377)
                      ++++|+..|++..+..
T Consensus        86 ~~~~A~~~~~~a~~~~  101 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHE  101 (117)
T ss_dssp             CHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            7777777777776654

>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=98.62  E-value=1.4e-06  Score=59.40  Aligned_cols=89  Identities=13%  Similarity=0.113  Sum_probs=46.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 042154          171 KAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTK  250 (377)
Q Consensus       171 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  250 (377)
                      ..+.+.|++++|+..|.++.+... .+...|..+..+|...|++++|+..+....+.+ +.+...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCC-cchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            444455555555555555554422 244455555555555555555555555555443 234445555555555555555


Q ss_pred             HHHHHHHHHHh
Q 042154          251 KALELVGEMRS  261 (377)
Q Consensus       251 ~a~~~~~~~~~  261 (377)
                      +|+..|++..+
T Consensus        89 ~A~~~~~~a~~   99 (117)
T d1elwa_          89 EAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            55555555554

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.61  E-value=2.6e-07  Score=70.11  Aligned_cols=94  Identities=12%  Similarity=0.048  Sum_probs=77.2

Q ss_pred             CCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHH
Q 042154          196 LDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINP-DVFTFYAL  274 (377)
Q Consensus       196 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l  274 (377)
                      |+...+......|.+.|++++|+..|++.++.. +.+...|..+..+|.+.|++++|+..|++.++.  .| +...|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            567777778888888899999999998888765 456778888888888899999999999888874  34 46778888


Q ss_pred             HHHHHhcCCHHHHHHHHH
Q 042154          275 IKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       275 ~~~~~~~~~~~~a~~~~~  292 (377)
                      ..+|...|++++|...++
T Consensus        79 g~~~~~l~~~~~A~~~~~   96 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQ   96 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHH
Confidence            888888899988888888

>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=98.60  E-value=4.3e-06  Score=66.23  Aligned_cols=225  Identities=13%  Similarity=0.029  Sum_probs=145.8

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHh----cCChHHHHHHHHHhhhhcCCCccchh
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLAN----AKRFRWIEEILEHQKQYKDISKEGFT   95 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~   95 (377)
                      ||..+..|...+.+.+++++|++.|++..+.+    +...+..|...+..    ..+...+...+......+...  ...
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g----~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~~--a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK----ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSN--GCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHH--HHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccccc--hhh
Confidence            56778888888888999999999999998766    44556666666665    567888888888876654221  122


Q ss_pred             HHHHHHHH----ccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHhchhhcCCCcCHHHHH
Q 042154           96 ARLIALYG----KAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVN----SKKFDEVDGLFKDLPHKLGIEPDLVSYN  167 (377)
Q Consensus        96 ~~l~~~~~----~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~~~~~  167 (377)
                       .+...+.    ...+.+.|...++...+.|.   ......+...+..    ......+...+.....    ..+...+.
T Consensus        75 -~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~  146 (265)
T d1ouva_          75 -LLGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCT  146 (265)
T ss_dssp             -HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHH
T ss_pred             -ccccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhc----ccccchhh
Confidence             2333333    24577888888888877762   2223333333332    3345566666665433    24556666


Q ss_pred             HHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 042154          168 TIIKAFVD----KGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYS----NGRFADAEKIWETMVNMNVRPNVRSYNAR  239 (377)
Q Consensus       168 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  239 (377)
                      .+...+..    ..+...+...++...+.|   +......+...|..    ..++++|...|.+..+.|   +...+..|
T Consensus       147 ~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~L  220 (265)
T d1ouva_         147 ILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNL  220 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             hhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHH
Confidence            77777665    446677777777777664   45555556555554    457888888888888776   34555566


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHhCCC
Q 042154          240 LDGLAI----EKQTKKALELVGEMRSKEI  264 (377)
Q Consensus       240 ~~~~~~----~~~~~~a~~~~~~~~~~g~  264 (377)
                      ...|.+    ..+.++|.++|++....|.
T Consensus       221 G~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         221 GAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            666654    3367778888888777664

>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=98.58  E-value=7.1e-07  Score=67.56  Aligned_cols=98  Identities=7%  Similarity=-0.046  Sum_probs=48.8

Q ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 042154          161 PDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARL  240 (377)
Q Consensus       161 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  240 (377)
                      |+...+......+.+.|++++|+..|.++.+..+ .+...|..+..+|.+.|++++|+..|++.++.. +-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p-~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            3444444444555555555555555555544422 244455555555555555555555555555432 12344455555


Q ss_pred             HHHHhcCCHHHHHHHHHHHH
Q 042154          241 DGLAIEKQTKKALELVGEMR  260 (377)
Q Consensus       241 ~~~~~~~~~~~a~~~~~~~~  260 (377)
                      .+|...|++++|+..|++..
T Consensus        80 ~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHH
Confidence            55555555555555555544

>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=2.6e-06  Score=61.72  Aligned_cols=90  Identities=9%  Similarity=0.093  Sum_probs=47.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 042154          170 IKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQT  249 (377)
Q Consensus       170 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  249 (377)
                      ...|.+.|++++|+..|+++.+... .+...|..+..+|...|++++|...|++.++.. +-+...|..+..++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccch-hhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            3444555555555555555555432 244555555555555555555555555555443 22334555555555555555


Q ss_pred             HHHHHHHHHHHh
Q 042154          250 KKALELVGEMRS  261 (377)
Q Consensus       250 ~~a~~~~~~~~~  261 (377)
                      ++|...+++...
T Consensus        95 ~eA~~~~~~a~~  106 (159)
T d1a17a_          95 RAALRDYETVVK  106 (159)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555554

>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=98.51  E-value=8.1e-07  Score=64.49  Aligned_cols=55  Identities=7%  Similarity=0.011  Sum_probs=22.2

Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhc
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDL  153 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  153 (377)
                      +..+|...|++++|...|++.++.. +-+..+|..+..++...|++++|...+++.
T Consensus        50 lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~eA~~~~~~a  104 (159)
T d1a17a_          50 RSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAALRDYETV  104 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4444444444444444444433322 222334444444444444444444444443

>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=98.46  E-value=2.7e-07  Score=62.54  Aligned_cols=91  Identities=10%  Similarity=-0.054  Sum_probs=66.7

Q ss_pred             HHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHc
Q 042154           25 GSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGK  104 (377)
Q Consensus        25 ~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  104 (377)
                      -.....+.+.|++++|+..|++..+..  |.+..+|..+..++.+.|++++|+..+++..+..+.....++ .+..+|..
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~-~la~~y~~   96 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHA-ALAVSHTN   96 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH-HHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchH-HHHHHHHH
Confidence            345566777888888888888887665  556777888888888888888888888887777544444444 57788888


Q ss_pred             cCCHHHHHHHHHhc
Q 042154          105 AAMFENARKVFDEM  118 (377)
Q Consensus       105 ~~~~~~A~~~~~~~  118 (377)
                      .|++++|.+.+++.
T Consensus        97 ~g~~~~A~~~l~~~  110 (112)
T d1hxia_          97 EHNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            88888888877764

>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=98.41  E-value=2.1e-06  Score=57.95  Aligned_cols=89  Identities=12%  Similarity=-0.024  Sum_probs=53.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 042154          169 IIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQ  248 (377)
Q Consensus       169 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  248 (377)
                      +...+.+.|++++|...|++..+.... +...|..+..++.+.|++++|+..|++..+.. +.+...|..+...|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            344555666666666666666655322 45566666666666666666666666666543 2345566666666666666


Q ss_pred             HHHHHHHHHHH
Q 042154          249 TKKALELVGEM  259 (377)
Q Consensus       249 ~~~a~~~~~~~  259 (377)
                      +++|++.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666666654

>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=98.35  E-value=3.2e-06  Score=57.83  Aligned_cols=93  Identities=10%  Similarity=0.069  Sum_probs=43.5

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccC---CHHHHHHHHHhcCCCCCCcc-HHHHHHHHHHH
Q 042154           62 GTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAA---MFENARKVFDEMPGRNCEQT-VLSFNALLGAC  137 (377)
Q Consensus        62 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~  137 (377)
                      .++..+...+++++|++.|++....++......+ .+..++.+.+   ++++|+.+|+++...+..|+ ..++..+..+|
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 AVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQF-EYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHH-HHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHH-HHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            3444444555555555555555554433333333 2444444432   23345555555554432222 12444455555


Q ss_pred             HhCCChhHHHHHHHhchh
Q 042154          138 VNSKKFDEVDGLFKDLPH  155 (377)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~  155 (377)
                      .+.|++++|++.|+++.+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            555555555555555543

>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=98.33  E-value=3.2e-06  Score=57.84  Aligned_cols=93  Identities=12%  Similarity=0.008  Sum_probs=50.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC---HHHHHHHHHHHHhCCCCCC-HHHHHHHHHHH
Q 042154          168 TIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR---FADAEKIWETMVNMNVRPN-VRSYNARLDGL  243 (377)
Q Consensus       168 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  243 (377)
                      .+++.+...+++++|.+.|++..+.+.. +..++..+..++.+.++   +++|+.+|+++...+..|+ ..++..+..+|
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            3445555566666666666666655332 55555556666655433   3346666666555432222 12445555666


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 042154          244 AIEKQTKKALELVGEMRS  261 (377)
Q Consensus       244 ~~~~~~~~a~~~~~~~~~  261 (377)
                      .+.|++++|++.|+++++
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            666666666666666665

>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=98.31  E-value=0.00046  Score=55.65  Aligned_cols=239  Identities=9%  Similarity=0.039  Sum_probs=117.5

Q ss_pred             CchHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHH
Q 042154           20 GPKFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLI   99 (377)
Q Consensus        20 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   99 (377)
                      +..-...+.+-|.+.|.++.|..+|..+.          -|..++..+.+.++++.|.++..+..      +..++..+.
T Consensus        13 n~~d~~~i~~~c~~~~lye~A~~lY~~~~----------d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~   76 (336)
T d1b89a_          13 NNAHIQQVGDRCYDEKMYDAAKLLYNNVS----------NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVC   76 (336)
T ss_dssp             ----------------CTTTHHHHHHHTT----------CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHCCCHHHHHHHHHhCC----------CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHH
Confidence            33444556666778888888888887653          36677777788888888877765432      223444566


Q ss_pred             HHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCH
Q 042154          100 ALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSL  179 (377)
Q Consensus       100 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  179 (377)
                      ..+.+.....-|.     +.......++.....++..|-..|.+++...+++.....  -.++...++.++..|++.+ .
T Consensus        77 ~~l~~~~e~~la~-----i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~--~~~~~~~~~~L~~lyak~~-~  148 (336)
T d1b89a_          77 FACVDGKEFRLAQ-----MCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSKFK-P  148 (336)
T ss_dssp             HHHHHTTCHHHHH-----HTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--TTCCHHHHHHHHHHHHTTC-H
T ss_pred             HHHHhCcHHHHHH-----HHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC--CccchHHHHHHHHHHHHhC-h
Confidence            6666666554432     222222345555567778888888888888888765431  2445566777777776653 3


Q ss_pred             HHHHHHHHHHHHCCCCCC--------HHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 042154          180 DSANTLLYEMEKKGIRLD--------LITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKK  251 (377)
Q Consensus       180 ~~a~~~~~~~~~~~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  251 (377)
                      ++..+.+...... ..+.        ...|.-++-.|.+.|+++.|..+.   .+.  .++......++..+.+..+.+.
T Consensus       149 ~kl~e~l~~~s~~-y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~N~e~  222 (336)
T d1b89a_         149 QKMREHLELFWSR-VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVANVEL  222 (336)
T ss_dssp             HHHHHHHHHHSTT-SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCSSTHH
T ss_pred             HHHHHHHHhcccc-CCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HHc--chhhhhHHHHHHHHHccCChHH
Confidence            4433333332110 1100        111233333444444444443322   121  1233334445555666666665


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          252 ALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       252 a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ..++.....+.  .|  ...+.++......-+..+..+.++
T Consensus       223 ~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~~  259 (336)
T d1b89a_         223 YYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYFS  259 (336)
T ss_dssp             HHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHHH
T ss_pred             HHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHHHH
Confidence            55555554442  22  233444444444445555444444

>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=98.29  E-value=2.7e-05  Score=56.75  Aligned_cols=63  Identities=6%  Similarity=-0.031  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  228 (377)
                      +|+.+..+|.+.|++++|+..++..++..+. +...+..+..+|...|++++|...|++..+..
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            4555666667777777777777777665322 56666667777777777777777777776643

>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=98.24  E-value=1.6e-05  Score=58.02  Aligned_cols=82  Identities=10%  Similarity=-0.076  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 042154          269 FTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLA  346 (377)
Q Consensus       269 ~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  346 (377)
                      .+|+.+..+|.+.|++++|+..++ .....| ++..+..+..+|...|++++|+..|+++++..+. ++.....+..+..
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~  141 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQ  141 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            356667788888889998888888 333344 6778888888888999999999999888886543 5555555555544


Q ss_pred             hcCCH
Q 042154          347 KELRV  351 (377)
Q Consensus       347 ~~g~~  351 (377)
                      +.+..
T Consensus       142 ~~~~~  146 (170)
T d1p5qa1         142 RIRRQ  146 (170)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44433

>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=98.24  E-value=0.00069  Score=54.61  Aligned_cols=178  Identities=13%  Similarity=0.080  Sum_probs=110.6

Q ss_pred             ccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHH
Q 042154           54 RTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNAL  133 (377)
Q Consensus        54 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  133 (377)
                      .||..-...+++.|.+.|.++.|..++..+..         +..++..+.+.++++.|.+++.+..      +..+|..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHH
Confidence            34555666788888899999999999987655         3468888899999999988887652      46688888


Q ss_pred             HHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC
Q 042154          134 LGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGR  213 (377)
Q Consensus       134 ~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  213 (377)
                      ...+.+......+.-+     .. ....++.....++..|-..|.+++...+++..... -..+...++-++..|++.+ 
T Consensus        76 ~~~l~~~~e~~la~i~-----~~-~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-  147 (336)
T d1b89a_          76 CFACVDGKEFRLAQMC-----GL-HIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-  147 (336)
T ss_dssp             HHHHHHTTCHHHHHHT-----TT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHhCcHHHHHHHH-----HH-HhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-
Confidence            8888887766554221     11 23345555677888899999999999999987654 2457778888999888764 


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 042154          214 FADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMR  260 (377)
Q Consensus       214 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  260 (377)
                      .++   +.+.+...+   +.....-++..|.+.+-+.++.-++..+.
T Consensus       148 ~~k---l~e~l~~~s---~~y~~~k~~~~c~~~~l~~elv~Ly~~~~  188 (336)
T d1b89a_         148 PQK---MREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYE  188 (336)
T ss_dssp             HHH---HHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTT
T ss_pred             hHH---HHHHHHhcc---ccCCHHHHHHHHHHcCChHHHHHHHHhcC
Confidence            333   333333311   11223345677777777777777776653

>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=98.19  E-value=5.6e-06  Score=57.36  Aligned_cols=95  Identities=16%  Similarity=0.208  Sum_probs=63.0

Q ss_pred             HHHHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccc------hhHH
Q 042154           24 IGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEG------FTAR   97 (377)
Q Consensus        24 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~   97 (377)
                      +..+...+.+.|++++|+..|....+.+  |.+...|..+..++...|++++|++.++++....+.....      .+..
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            4456667777888888888888877765  5567777778888888888888888887776653322222      2233


Q ss_pred             HHHHHHccCCHHHHHHHHHhcCC
Q 042154           98 LIALYGKAAMFENARKVFDEMPG  120 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~  120 (377)
                      +...+...+++++|+..|++...
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHh
Confidence            45555566666666666665543

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.13  E-value=1e-06  Score=76.84  Aligned_cols=112  Identities=9%  Similarity=-0.131  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 042154          164 VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGL  243 (377)
Q Consensus       164 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  243 (377)
                      ..+..+...+.+.|+.+.|...+.......   ...++..+...+...|++++|...|++..+.. +-+...|+.+...+
T Consensus       121 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~  196 (497)
T d1ya0a1         121 VKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILA  196 (497)
T ss_dssp             ----------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHH
T ss_pred             HHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            345555555666666666665555544321   12345556666666666666666666666543 23445666666666


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 042154          244 AIEKQTKKALELVGEMRSKEINPDVFTFYALIKGFVN  280 (377)
Q Consensus       244 ~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~  280 (377)
                      ...|+..+|...|.+.+... +|-..++..|...+.+
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            66666666666666666542 3445556666555543

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.08  E-value=4.9e-05  Score=55.32  Aligned_cols=83  Identities=10%  Similarity=-0.154  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHH-hcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 042154          268 VFTFYALIKGFVNEGNLEEAKRWYN-KSGCGM-NKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRL  345 (377)
Q Consensus       268 ~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  345 (377)
                      ...+..+..++.+.|++++|+..++ ...+.| +...|..+..++...|++++|++.|+++++..+. +......+..+.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~-n~~~~~~l~~~~  155 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVK  155 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            4466777888889999999999888 444445 5668888889999999999999999999886443 555565555554


Q ss_pred             HhcCCH
Q 042154          346 AKELRV  351 (377)
Q Consensus       346 ~~~g~~  351 (377)
                      .+....
T Consensus       156 ~~l~~~  161 (169)
T d1ihga1         156 QKIKAQ  161 (169)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            443333

>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=98.08  E-value=3.9e-05  Score=52.87  Aligned_cols=56  Identities=9%  Similarity=0.172  Sum_probs=25.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 042154          169 IIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMV  225 (377)
Q Consensus       169 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  225 (377)
                      +...+.+.|++++|+..|.+.++.+. .+...+..+..+|.+.|++++|+..+++++
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al   65 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAI   65 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHH
Confidence            33444444444444444444444322 134444444444444444444444444443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.08  E-value=0.00018  Score=52.05  Aligned_cols=63  Identities=8%  Similarity=0.003  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 042154          165 SYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       165 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  228 (377)
                      .|+.+..+|.+.|++++|+..++...+... .+...|..+..++...|++++|...|++..+..
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhccc-chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            344555666777777777777777766532 366666677777777777777777777777654

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.06  E-value=0.00013  Score=51.86  Aligned_cols=62  Identities=13%  Similarity=-0.003  Sum_probs=36.2

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      +|..+..+|.+.|++++|++.++..++.+ +.+..+|..+..++...|++++|+..|+...+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44455555666666666666666655543 234555666666666666666666666665553

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.01  E-value=6e-06  Score=71.79  Aligned_cols=210  Identities=8%  Similarity=-0.084  Sum_probs=107.5

Q ss_pred             hHHHHHHHHhhhcccHHHHHHHHHhcccCCCCccc-hhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHH--H
Q 042154           22 KFIGSVIRGIYKENNLKRLVDKFKKSSDLGRFRTN-TGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTAR--L   98 (377)
Q Consensus        22 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l   98 (377)
                      ..+..+..++..+|++++|   |+++...+   |+ ...++. -..+. ...+..+++.++...+....++..-...  +
T Consensus        21 ~a~~~la~~~~~~~~l~ea---ye~~i~~d---p~~a~~~~~-e~~Lw-~~~y~~~ie~~r~~~k~~~~~~~~~~~~~~~   92 (497)
T d1ya0a1          21 DSKLGPAEVWTSRQALQDL---YQKMLVTD---LEYALDKKV-EQDLW-NHAFKNQITTLQGQAKNRANPNRSEVQANLS   92 (497)
T ss_dssp             CSSSCSSSSHHHHHHHHHH---HHHHHHHC---HHHHHHHTH-HHHHH-HHHTHHHHHHHHHHHSCSSCTTTTHHHHHHH
T ss_pred             HHHhhHHHHHHHHchHHHH---HHHHHHcC---hhhHHHHhH-HHHHH-HHHHHHHHHHHHHhcccccCccHHHHHHHHH
Confidence            3445555666777777766   55554322   21 111111 11111 1224556666666554432222221111  1


Q ss_pred             HHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCC
Q 042154           99 IALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGS  178 (377)
Q Consensus        99 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  178 (377)
                      .......+.++.|+..+....+.. +++...+..+...+.+.|+.+.|...+......   .| ..++..+...+...++
T Consensus        93 ~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~~-~~~~~~LG~l~~~~~~  167 (497)
T d1ya0a1          93 LFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY---IC-QHCLVHLGDIARYRNQ  167 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHH---HH-HHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC---CH-HHHHHHHHHHHHHccc
Confidence            122233456677777666655543 345666777777888888888888777655432   11 2467778888888999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIE  246 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  246 (377)
                      +++|...|.++.+..+ .+...|+.+...+...|+..+|...|.+..... +|-..++..|...+.+.
T Consensus       168 ~~~A~~~y~~A~~l~P-~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         168 TSQAESYYRHAAQLVP-SNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHHHHHHHHHHHCT-TBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCC-CchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            9999999999888743 366789999999999999999999998888765 46667777777666543

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.01  E-value=8.8e-05  Score=52.86  Aligned_cols=64  Identities=9%  Similarity=0.013  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 042154          164 VSYNTIIKAFVDKGSLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMN  228 (377)
Q Consensus       164 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  228 (377)
                      .+|..+..+|.+.|++++|++.++.+.+..+ .+..+|..+..++...|++++|...|++..+..
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p-~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDK-NNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccc-hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            4567778888889999999999998887743 377888889999999999999999999888764

>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=97.99  E-value=1.1e-05  Score=63.40  Aligned_cols=124  Identities=10%  Similarity=0.052  Sum_probs=80.7

Q ss_pred             HhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCChHHHHHHHHHhhhhcCCCccchhHHHHHHHHccCCHH
Q 042154           30 GIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRFRWIEEILEHQKQYKDISKEGFTARLIALYGKAAMFE  109 (377)
Q Consensus        30 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  109 (377)
                      -..+.|++++|+..++...+..  |.+...+..++..++..|++++|.+.++...+..+.... .+..+...+...+..+
T Consensus         5 ~aL~~G~l~eAl~~l~~al~~~--P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~-~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           5 NALSEGQLQQALELLIEAIKAS--PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLP-GASQLRHLVKAAQARK   81 (264)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHH-HHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHH-HHHHHHHHHHhccccH
Confidence            3456789999999999988876  778888999999999999999999999988876543322 2223444444444444


Q ss_pred             HHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhh
Q 042154          110 NARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHK  156 (377)
Q Consensus       110 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (377)
                      ++..-.......+-+++...+......+...|+.++|...++++.+.
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            43332222222222333444445556677778888888888776544

>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=97.97  E-value=0.00011  Score=53.33  Aligned_cols=62  Identities=11%  Similarity=0.049  Sum_probs=32.8

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      .+..+..++.+.|++++|+..+++.++.. +.+...|..+..++...|++++|+..|+...+.
T Consensus        79 ~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          79 CVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            34444555555555555555555555543 234445555555555555555555555555553

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.95  E-value=0.00015  Score=52.99  Aligned_cols=70  Identities=10%  Similarity=0.058  Sum_probs=41.2

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHH
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRS-----KEINPDVFT  270 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~g~~p~~~~  270 (377)
                      .+..+...+...|++++|+..++++.+.. +-+...|..++.+|...|+.++|++.|+++.+     .|+.|...+
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            34555666666666666666666666544 34556666666666666666666666666532     355555543

>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=97.92  E-value=0.00031  Score=50.79  Aligned_cols=92  Identities=9%  Similarity=-0.040  Sum_probs=63.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHH-hcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 042154          269 FTFYALIKGFVNEGNLEEAKRWYN-KSGC-GMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLA  346 (377)
Q Consensus       269 ~~~~~l~~~~~~~~~~~~a~~~~~-~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  346 (377)
                      ..|..+..+|.+.|++++|+..++ .... +.+...|..+..++...|++++|...|+++++..+. +......+..+..
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~  143 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQIFMCQK  143 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            356667788888999999999888 2222 446778888888999999999999999999886433 5555555555555


Q ss_pred             hcCCHH-HHHHHHHhh
Q 042154          347 KELRVE-EAKELVELG  361 (377)
Q Consensus       347 ~~g~~~-~A~~~~~~~  361 (377)
                      +.+... ...+++..|
T Consensus       144 ~~~~~~e~~kk~~~~~  159 (168)
T d1kt1a1         144 KAKEHNERDRRTYANM  159 (168)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHH
Confidence            544443 234444444

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.91  E-value=0.00017  Score=52.78  Aligned_cols=122  Identities=13%  Similarity=0.136  Sum_probs=83.4

Q ss_pred             HHHHHHccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcC
Q 042154           98 LIALYGKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKG  177 (377)
Q Consensus        98 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  177 (377)
                      ........|++++|.+.|.+.....  +...        +......+.+...-..+...     ....+..+...+.+.|
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~--------l~~~~~~~w~~~~r~~l~~~-----~~~a~~~la~~~~~~g   81 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREW--RGPV--------LDDLRDFQFVEPFATALVED-----KVLAHTAKAEAEIACG   81 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC--CSST--------TGGGTTSTTHHHHHHHHHHH-----HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC--cccc--------cccCcchHHHHHHHHHHHHH-----HHHHHHHHHHHHHHCC
Confidence            4456677788888888888776642  1110        00111111111111222111     2346778889999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHH-----hCCCCCCHHH
Q 042154          178 SLDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMV-----NMNVRPNVRS  235 (377)
Q Consensus       178 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~  235 (377)
                      ++++|+..++.+..... -+...|..++.+|.+.|+..+|++.|+++.     +.|+.|+..+
T Consensus        82 ~~~~Al~~~~~al~~~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          82 RASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             CHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CchHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            99999999999998754 488999999999999999999999999874     3688888654

>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=97.79  E-value=1.7e-05  Score=56.08  Aligned_cols=41  Identities=7%  Similarity=-0.014  Sum_probs=28.3

Q ss_pred             hhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHhcCCh
Q 042154           31 IYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLANAKRF   73 (377)
Q Consensus        31 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   73 (377)
                      |-+.+.+++|+..|+...+..  |.++.++..+..++...+++
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~--P~~~~~~~~~g~~l~~~~~~   47 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQF   47 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC--CcchHHHHHHHHHHHHhhhh
Confidence            445667888888888887765  66777777777777654443

>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=97.71  E-value=0.00011  Score=57.44  Aligned_cols=120  Identities=10%  Similarity=-0.025  Sum_probs=75.9

Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHH
Q 042154          208 FYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSKEINPD-VFTFYALIKGFVNEGNLEE  286 (377)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~  286 (377)
                      ..+.|++++|+..+++.++.. +.|...+..+...++..|++++|...++...+.  .|+ ...+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHH
Confidence            345688888888888888765 456777888888888888888888888888774  344 3444444444444444444


Q ss_pred             HHHHHHh--cCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 042154          287 AKRWYNK--SGCGMN-KAIFKLLVPFVCEKGDLDFAFNLCKRTFSER  330 (377)
Q Consensus       287 a~~~~~~--~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  330 (377)
                      +..-...  .-..|+ ...+......+...|+.++|.+.++++.+..
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            3332221  111222 2333444556777888888888888877753

>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=97.53  E-value=0.0012  Score=46.80  Aligned_cols=55  Identities=13%  Similarity=0.036  Sum_probs=27.8

Q ss_pred             HHHhCCChhHHHHHHHhchhhcCCCcC----------HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 042154          136 ACVNSKKFDEVDGLFKDLPHKLGIEPD----------LVSYNTIIKAFVDKGSLDSANTLLYEME  190 (377)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~p~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~  190 (377)
                      .+...|++++|+..|++.++-..-.|+          ...|+.+..+|.+.|++++|...+++..
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            344556666666666655432111111          2345555555556666655555555544

>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=97.51  E-value=0.0013  Score=46.71  Aligned_cols=58  Identities=14%  Similarity=0.098  Sum_probs=29.0

Q ss_pred             HHHHH--HHHHHhcCCHHHHHHHHHHHHhCCC-CCC----------HHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          235 SYNAR--LDGLAIEKQTKKALELVGEMRSKEI-NPD----------VFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       235 ~~~~l--~~~~~~~~~~~~a~~~~~~~~~~g~-~p~----------~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      +|..+  ...+...|++++|+..|++.++... .|+          ...|+.+..+|...|++++|...++
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~   79 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSAD   79 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhh
Confidence            44444  3344555667777777666654210 011          2344455555555555555555444

>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=97.44  E-value=0.00026  Score=49.73  Aligned_cols=76  Identities=18%  Similarity=0.122  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCC-----------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042154          179 LDSANTLLYEMEKKGIRLDLITFNTLLLGFYSNG-----------RFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEK  247 (377)
Q Consensus       179 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  247 (377)
                      +++|+..|+++.+..+. +..+|..+..+|...|           .+++|.+.|++..+..  |+...|..-+..+    
T Consensus        57 ~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~--P~~~~~~~~L~~~----  129 (145)
T d1zu2a1          57 IQEAITKFEEALLIDPK-KDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ--PDNTHYLKSLEMT----  129 (145)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHHHhcch-hhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccC--CCHHHHHHHHHHH----
Confidence            34555555555544322 4445555555554432           2456666666666543  5544444333322    


Q ss_pred             CHHHHHHHHHHHHhCC
Q 042154          248 QTKKALELVGEMRSKE  263 (377)
Q Consensus       248 ~~~~a~~~~~~~~~~g  263 (377)
                        .+|.+++.+..+.|
T Consensus       130 --~ka~~~~~e~~k~~  143 (145)
T d1zu2a1         130 --AKAPQLHAEAYKQG  143 (145)
T ss_dssp             --HTHHHHHHHHHHSS
T ss_pred             --HHHHHHHHHHHHHh
Confidence              34555555555544

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.27  E-value=0.0022  Score=40.97  Aligned_cols=70  Identities=20%  Similarity=0.198  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHH------h--cCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHH
Q 042154          270 TFYALIKGFVNEGNLEEAKRWYN------K--SGCGMN-KAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQL  340 (377)
Q Consensus       270 ~~~~l~~~~~~~~~~~~a~~~~~------~--~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  340 (377)
                      .+..+...+.+.|++++|...++      .  ....++ ..++..+..++.+.|++++|+..++++++..+. ++.+++.
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~-~~~a~~N   85 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE-HQRANGN   85 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcC-CHHHHHH
Confidence            33455666666777777766666      0  111122 346777777888888888888888887775433 3334433

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.12  E-value=0.0024  Score=40.79  Aligned_cols=27  Identities=15%  Similarity=0.318  Sum_probs=12.4

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 042154          200 TFNTLLLGFYSNGRFADAEKIWETMVN  226 (377)
Q Consensus       200 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  226 (377)
                      ++..+..++.+.|++++|+..++++++
T Consensus        48 ~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_          48 VLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            344444444444444444444444444

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=97.05  E-value=0.017  Score=37.95  Aligned_cols=139  Identities=12%  Similarity=0.099  Sum_probs=93.0

Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHH
Q 042154          208 FYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK-EINPDVFTFYALIKGFVNEGNLEE  286 (377)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-g~~p~~~~~~~l~~~~~~~~~~~~  286 (377)
                      +...|..++..++..+....   .+..-||-+|--....-+-+-....++.+-.. .+.|- .....++.++...+    
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C-~Nlk~vv~C~~~~n----   83 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKC-QNLKSVVECGVINN----   83 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGC-SCTHHHHHHHHHTT----
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhh-hcHHHHHHHHHHhc----
Confidence            44457777777777777664   34556666666666666666666666655432 11110 01122333333322    


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCc
Q 042154          287 AKRWYNKSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       287 a~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  366 (377)
                                 .+...+...++.+..+|+-+.-.++++.+.+ +-.|++...-.+..+|.+.|...++-+++.++.++|.
T Consensus        84 -----------~~se~vdlALd~lv~~~kkd~Ld~i~~~l~k-n~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          84 -----------TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             -----------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             -----------chHHHHHHHHHHHHHhccHHHHHHHHHHHHh-cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence                       2445566678888999999999999999777 4567888888999999999999999999999998886

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.84  E-value=0.011  Score=40.37  Aligned_cols=49  Identities=14%  Similarity=-0.012  Sum_probs=23.7

Q ss_pred             ChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHhhccCCc
Q 042154          315 DLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAK----ELRVEEAKELVELGKTNSY  366 (377)
Q Consensus       315 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  366 (377)
                      +.++|.++|++..+.+   ++.....|...|..    ..+.++|.++++++.+.|.
T Consensus        74 d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          74 DLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            4555555555555543   23333344444443    2345555555555555443

>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=96.52  E-value=0.048  Score=35.76  Aligned_cols=139  Identities=14%  Similarity=0.029  Sum_probs=70.3

Q ss_pred             HccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHHHH
Q 042154          103 GKAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLDSA  182 (377)
Q Consensus       103 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  182 (377)
                      .-.|.+++..+++.+....   .+..-||-++--....-+.+...++++.+-..+.+.|              .++....
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~--------------C~Nlk~v   75 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDK--------------CQNLKSV   75 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGG--------------CSCTHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchh--------------hhcHHHH
Confidence            3346666666666665543   2444555566656666666666666665533222211              1112211


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 042154          183 NTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKALELVGEMRSK  262 (377)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  262 (377)
                      ...+-.+     ..+...+...++.+...|+-++-.++++.+.+.+ .+++...-.+..+|.+.|...++-+++.+.-+.
T Consensus        76 v~C~~~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          76 VECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            1111111     1133344455555566666666666666654433 455555555666666666666666666666555


Q ss_pred             CC
Q 042154          263 EI  264 (377)
Q Consensus       263 g~  264 (377)
                      |+
T Consensus       150 G~  151 (161)
T d1wy6a1         150 GE  151 (161)
T ss_dssp             TC
T ss_pred             hH
Confidence            54

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.50  E-value=0.039  Score=37.38  Aligned_cols=78  Identities=10%  Similarity=0.016  Sum_probs=37.8

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHH---hcCCCCCHHHHHHHHHHHHh----cCC
Q 042154          247 KQTKKALELVGEMRSKEINPDVFTFYALIKGFVN----EGNLEEAKRWYN---KSGCGMNKAIFKLLVPFVCE----KGD  315 (377)
Q Consensus       247 ~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~---~~~~~~~~~~~~~l~~~~~~----~g~  315 (377)
                      .+.++|+.++++..+.|   ++.....|...|..    ..+.++|.++|+   ..+   ++.....|...|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            34555555555555543   23333333333332    335566666666   222   23333344444433    346


Q ss_pred             hHHHHHHHHHHHhcC
Q 042154          316 LDFAFNLCKRTFSER  330 (377)
Q Consensus       316 ~~~a~~~~~~~~~~~  330 (377)
                      .++|.++|++..+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            666777776666654

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.33  E-value=0.62  Score=38.70  Aligned_cols=189  Identities=8%  Similarity=-0.024  Sum_probs=108.3

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHH----HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 042154          177 GSLDSANTLLYEMEKKGIRLDLITFNT----LLLGFYSNGRFADAEKIWETMVNMNVRPNVRSYNARLDGLAIEKQTKKA  252 (377)
Q Consensus       177 ~~~~~a~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  252 (377)
                      .+.+.+...+......... +..-...    +...+...+..+.+...+......+  .+.....-.+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHH
Confidence            4666666666665543221 2111111    1222233455566666666555543  2333333344444556677777


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH---------------hcCCC-----------CC-HHH---
Q 042154          253 LELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN---------------KSGCG-----------MN-KAI---  302 (377)
Q Consensus       253 ~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~---------------~~~~~-----------~~-~~~---  302 (377)
                      ...+..|... ..-...-..-+..++...|+.+.|..++.               ..|.+           +. ...   
T Consensus       305 ~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~~~fYG~LAa~~Lg~~~~~~~~~~~~~~~~~~~~~~  383 (450)
T d1qsaa1         305 NTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQRGFYPMVAAQRIGEEYELKIDKAPQNVDSALTQGP  383 (450)
T ss_dssp             HHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSHHHHHHHHHTTCCCCCCCCCCCSCCCCHHHHSH
T ss_pred             HHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcCCChHHHHHHHHcCCCCCCCcCCCCccHHHhhhcCh
Confidence            7777666432 11223334456666677777777776666               11111           00 001   


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhccCCceeeeccCC
Q 042154          303 FKLLVPFVCEKGDLDFAFNLCKRTFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKTNSYCRYNLKFP  374 (377)
Q Consensus       303 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  374 (377)
                      -..-+..+...|....|...|..+...   .++.....+.....+.|.++.|+....++...+.  ..+.||
T Consensus       384 ~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~g~~~~aI~a~~~~~~~d~--~~lRFP  450 (450)
T d1qsaa1         384 EMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNNQWWDLSVQATIAGKLWDH--LEERFP  450 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTCTTC--HHHHSC
T ss_pred             HHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCChhHHHHHHHHHHccCc--hhhcCC
Confidence            112345677899999999999888763   2566777888889999999999999888865543  355555

>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=94.39  E-value=0.19  Score=33.03  Aligned_cols=65  Identities=9%  Similarity=-0.072  Sum_probs=34.2

Q ss_pred             CCHHhHHHHHHHHHcCC---CHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 042154          196 LDLITFNTLLLGFYSNG---RFADAEKIWETMVNMNVRPNV-RSYNARLDGLAIEKQTKKALELVGEMRS  261 (377)
Q Consensus       196 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  261 (377)
                      ++..+-.....++.++.   +.++++.+++++.+.+ +.+. ..+-.+..+|.+.|++++|...++.+++
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            34444444555555443   3445666666665433 1122 2334455556666666666666666665

>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=94.35  E-value=0.079  Score=34.93  Aligned_cols=64  Identities=8%  Similarity=0.095  Sum_probs=36.6

Q ss_pred             CCHHHHHHHHHHHHhcC---CHHHHHHHHH--hcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 042154          266 PDVFTFYALIKGFVNEG---NLEEAKRWYN--KSGCGMNK-AIFKLLVPFVCEKGDLDFAFNLCKRTFSE  329 (377)
Q Consensus       266 p~~~~~~~l~~~~~~~~---~~~~a~~~~~--~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  329 (377)
                      |+..+--....++.++.   +.++++.+++  -.+.+.+. ..+-.|.-+|.+.|++++|.+.++.+++.
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 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            44444444555555543   4456667776  11112232 34445566677777777777777777774

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=94.33  E-value=1.2  Score=36.98  Aligned_cols=317  Identities=11%  Similarity=0.023  Sum_probs=169.3

Q ss_pred             HHHHHhhhcccHHHHHHHHHhcccCCCCccchhhHHHHHHHHHh--cCChHHHHHHHHHhhhhcCCCccchhHHHHHHHH
Q 042154           26 SVIRGIYKENNLKRLVDKFKKSSDLGRFRTNTGIYTGTVQRLAN--AKRFRWIEEILEHQKQYKDISKEGFTARLIALYG  103 (377)
Q Consensus        26 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  103 (377)
                      ..+....+.|+...+..+...+.+.. +    ..|-..-..-..  .....++..++++-..  .+....+-...+..+.
T Consensus        11 ~~a~~a~~~~~~~~~~~~~~~L~dyp-L----~pYl~~~~l~~~~~~~~~~~i~~Fl~~~p~--~P~~~~lr~~~l~~L~   83 (450)
T d1qsaa1          11 AQIKQAWDNRQMDVVEQMMPGLKDYP-L----YPYLEYRQITDDLMNQPAVTVTNFVRANPT--LPPARTLQSRFVNELA   83 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHSGGGTTST-T----HHHHHHHHHHHTGGGCCHHHHHHHHHHCTT--CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHhhhcCCC-C----HHHHHHHHHHhccccCCHHHHHHHHHHCCC--ChhHHHHHHHHHHHHH
Confidence            34455677899999888888875322 2    223333332222  3344555555443211  1112222334566778


Q ss_pred             ccCCHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHHHHHHHcCCHH--H
Q 042154          104 KAAMFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTIIKAFVDKGSLD--S  181 (377)
Q Consensus       104 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~--~  181 (377)
                      +.++++.....+..     .+.+...-.....+....|+.+.|...+..+-......|+  .+..+...+.+.|.+.  .
T Consensus        84 ~~~~w~~~~~~~~~-----~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~--~c~~l~~~~~~~~~lt~~~  156 (450)
T d1qsaa1          84 RREDWRGLLAFSPE-----KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPN--ACDKLFSVWRASGKQDPLA  156 (450)
T ss_dssp             HTTCHHHHHHHCCS-----CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCT--HHHHHHHHHHHTTCSCHHH
T ss_pred             hccCHHHHHHhccC-----CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCch--HHHHHHHHHHhcCCCCHHH
Confidence            88888775554422     2345665567788888999999998888777654333443  4555666666655433  3


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHHHHHHHHHHHHhC---------CCCCCHHHHHHHHHHHHh--cCCHH
Q 042154          182 ANTLLYEMEKKGIRLDLITFNTLLLGFYSNGRFADAEKIWETMVNM---------NVRPNVRSYNARLDGLAI--EKQTK  250 (377)
Q Consensus       182 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~--~~~~~  250 (377)
                      ..+-+..+...|   +...-..++.. ...+.. ...+.+..+...         ...++......+..++.+  ..+.+
T Consensus       157 ~~~R~~~~l~~~---~~~~a~~l~~~-l~~~~~-~~~~a~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~l~rla~~d~~  231 (450)
T d1qsaa1         157 YLERIRLAMKAG---NTGLVTVLAGQ-MPADYQ-TIASAIISLANNPNTVLTFARTTGATDFTRQMAAVAFASVARQDAE  231 (450)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHT-CCGGGH-HHHHHHHHHHHCGGGHHHHHHHSCCCHHHHHHHHHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHcC---ChhhHHHHHhh-CChhHH-HHHHHHHHHHhChHhHHHHHhcCCCChhhhHHHHHHHHHHhccChh
Confidence            333444444432   11111111110 000110 011111111100         012233333333344333  35788


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHH----HHHHHHhcCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 042154          251 KALELVGEMRSKEINPDVFTFYA----LIKGFVNEGNLEEAKRWYN-KSGCGMNKAIFKLLVPFVCEKGDLDFAFNLCKR  325 (377)
Q Consensus       251 ~a~~~~~~~~~~g~~p~~~~~~~----l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  325 (377)
                      .+..++....... ..+......    +.......+..+.+...+. ......+.......+......+++..+...++.
T Consensus       232 ~a~~~l~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~~~~~~~~~~  310 (450)
T d1qsaa1         232 NARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDRRGLNTWLAR  310 (450)
T ss_dssp             HHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHhhhhcc-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHHHHHcCChHHHHHHHHh
Confidence            8888888876642 223222222    2222334566777877777 222234555555566666778999999999988


Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhhcc
Q 042154          326 TFSERCLVDQAPLQLVVDRLAKELRVEEAKELVELGKT  363 (377)
Q Consensus       326 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  363 (377)
                      |...... ...-..-+..++...|+.++|..+|..+..
T Consensus       311 l~~~~~~-~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         311 LPMEAKE-KDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             SCTTGGG-SHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCccccc-HHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            7543222 333444578899999999999999998765

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.08  E-value=0.28  Score=30.35  Aligned_cols=71  Identities=20%  Similarity=0.275  Sum_probs=45.3

Q ss_pred             HHHHHHccC-CHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhCCChhHHHHHHHhchhhcCCCcCHHHHHHHH
Q 042154           98 LIALYGKAA-MFENARKVFDEMPGRNCEQTVLSFNALLGACVNSKKFDEVDGLFKDLPHKLGIEPDLVSYNTII  170 (377)
Q Consensus        98 l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  170 (377)
                      ....+-+.+ |.-+..+-++.+....+.|++....+.+++|.+.+++..|.++++.++.+.|  ++...|..++
T Consensus        11 y~~~F~~~~iD~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yil   82 (105)
T d1v54e_          11 WVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVI   82 (105)
T ss_dssp             HHHHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHH
T ss_pred             HHHHhcCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHH
Confidence            334444444 5556667777777777777777777777777777777777777777665433  2334555444

>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=92.45  E-value=0.67  Score=28.60  Aligned_cols=42  Identities=10%  Similarity=0.105  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042154          251 KALELVGEMRSKEINPDVFTFYALIKGFVNEGNLEEAKRWYN  292 (377)
Q Consensus       251 ~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  292 (377)
                      ++.+-++.+......|++....+.+.+|.+.+++..|.++++
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE   65 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILE   65 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            344444455444555555555555555555555555555555