Citrus Sinensis ID: 048799

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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-
Protein Sequence
FLKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKFPGRSLV
Secondary Structure (PSIPRED)
cHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHcccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccEEHHHHHHHHHHccccHHHHHHHHHcccccccccccHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHcHHHccccccccHHHHHHHHHcccccHHHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHcccccHHHHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccc
Coil and Loop (DISEMBL)
FLKDGSklfdelpernlVTWNVMITGLVKWGELEYARSLfeempcrnvvswTGIIdgytrmnrsnGALALFRRMVaceytepseiTILAVFPaiwqngdvrncqlihgygekrgfNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKvvlkpnrvTFLSVLNacshgglveEGLKFFDKMVEECevlpdikhyGCLIDMLGRAGRLEQAEKVasgipseiTNVVVWRTLLGAcsfhgnvemgERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDernalkfpgrslv
Flexible Loop (DISEMBL)
flkdgsklfdelpernlvtwNVMITGLVKWGELEYARSLfeempcrnvVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVAsgipseitNVVVWRTLLGAcsfhgnvemgerVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVvdernalkfpgrslv
Low Complexity Region (SEG)
FLKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKFPGRSLV
Disordered region (IsUnstruct)
***********LPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVD*************
Disordered Region (DISOPRED)
FLKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKFPGRSLV
Disordered Region (DISEMBL)
FLKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKFPGRSLV
Disordered Region (DISPRO)
FLKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKFPGR*L*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
FLKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKFPGRSLV
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	331	2.2.26 [Sep-21-2011]
Q680Z7	504	Pentatricopeptide repeat-	yes	no	0.987	0.648	0.592	1e-112
Q9SIL5	534	Pentatricopeptide repeat-	no	no	0.981	0.608	0.393	4e-68
Q9FMA1	530	Pentatricopeptide repeat-	no	no	0.981	0.613	0.394	2e-66
Q9CA54	643	Pentatricopeptide repeat-	no	no	0.969	0.499	0.387	1e-64
Q9LXF2	548	Pentatricopeptide repeat-	no	no	0.978	0.591	0.397	4e-64
Q9C501	538	Pentatricopeptide repeat-	no	no	0.969	0.596	0.375	9e-64
Q9SZT8	632	Pentatricopeptide repeat-	no	no	0.975	0.511	0.368	2e-62
Q9FLS9	499	Pentatricopeptide repeat-	no	no	0.942	0.625	0.386	2e-62
Q9FJY7	620	Pentatricopeptide repeat-	no	no	0.963	0.514	0.388	3e-62
Q9FNN7	511	Pentatricopeptide repeat-	no	no	0.966	0.626	0.383	6e-62

>sp|Q680Z7|PPR24_ARATH Pentatricopeptide repeat-containing protein At1g09220, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E25 PE=2 SV=1

 Score =  403 bits (1036), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 195/329 (59%), Positives = 240/329 (72%), Gaps = 2/329 (0%)

Query: 4   DGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNR 63
           D  K+FDE+PERN VTWNVMITGL   G+ E A    E+MP R VVSWT IIDGY R+++
Sbjct: 176 DAHKVFDEMPERNPVTWNVMITGLTNLGDFEKALCFLEKMPNRTVVSWTTIIDGYARVDK 235

Query: 64  SNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVS 123
              A+ LF RMVAC+  +P+EITILA+ PA+W  GD++ C  +H Y  KRGF    I V+
Sbjct: 236 PKEAILLFSRMVACDAIKPNEITILAILPAVWNLGDLKMCGSVHAYVGKRGFVPCDIRVT 295

Query: 124 NCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVV 183
           N LID YAKCGCI SA K F +I   RKNLVSWT++IS FA+HGMGKEAV  F+ M+++ 
Sbjct: 296 NSLIDAYAKCGCIQSAFKFFIEIPNGRKNLVSWTTMISAFAIHGMGKEAVSMFKDMERLG 355

Query: 184 LKPNRVTFLSVLNACSHGGLVEEG-LKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQ 242
           LKPNRVT +SVLNACSHGGL EE  L+FF+ MV E ++ PD+KHYGCL+DML R GRLE+
Sbjct: 356 LKPNRVTMISVLNACSHGGLAEEEFLEFFNTMVNEYKITPDVKHYGCLVDMLRRKGRLEE 415

Query: 243 AEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILA 302
           AEK+A  IP E    VVWR LLGACS + + E+ ERVTRK++E+ER +GGDYVLM NI  
Sbjct: 416 AEKIALEIPIE-EKAVVWRMLLGACSVYDDAELAERVTRKLMELERSHGGDYVLMSNIFC 474

Query: 303 GVWRYGDAERLRRVVDERNALKFPGRSLV 331
           G  R+ DA+R R+ +D R   K PG S V
Sbjct: 475 GTGRFLDAQRFRKQMDVRGVAKLPGHSQV 503

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIL5|PP165_ARATH Pentatricopeptide repeat-containing protein At2g20540 OS=Arabidopsis thaliana GN=PCMP-E78 PE=2 SV=1

 Score =  258 bits (660), Expect = 4e-68,   Method: Compositional matrix adjust.
 Identities = 130/330 (39%), Positives = 210/330 (63%), Gaps = 5/330 (1%)

Query: 2   LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRM 61
           L D  K+FDE+ ER++++WN +++G  + G+++ A+ LF  M  + +VSWT +I GYT +
Sbjct: 160 LVDAHKVFDEMYERDVISWNSLLSGYARLGQMKKAKGLFHLMLDKTIVSWTAMISGYTGI 219

Query: 62  NRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIH 121
                A+  FR M      EP EI++++V P+  Q G +   + IH Y E+RGF      
Sbjct: 220 GCYVEAMDFFREMQLAG-IEPDEISLISVLPSCAQLGSLELGKWIHLYAERRGFLK-QTG 277

Query: 122 VSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQK 181
           V N LI+ Y+KCG I  A++LF  +  E K+++SW+++ISG+A HG    A+E F  MQ+
Sbjct: 278 VCNALIEMYSKCGVISQAIQLFGQM--EGKDVISWSTMISGYAYHGNAHGAIETFNEMQR 335

Query: 182 VVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLE 241
             +KPN +TFL +L+ACSH G+ +EGL++FD M ++ ++ P I+HYGCLID+L RAG+LE
Sbjct: 336 AKVKPNGITFLGLLSACSHVGMWQEGLRYFDMMRQDYQIEPKIEHYGCLIDVLARAGKLE 395

Query: 242 QAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL 301
           +A ++   +P +  +  +W +LL +C   GN+++       ++E+E    G+YVL+ NI 
Sbjct: 396 RAVEITKTMPMK-PDSKIWGSLLSSCRTPGNLDVALVAMDHLVELEPEDMGNYVLLANIY 454

Query: 302 AGVWRYGDAERLRRVVDERNALKFPGRSLV 331
           A + ++ D  RLR+++   N  K PG SL+
Sbjct: 455 ADLGKWEDVSRLRKMIRNENMKKTPGGSLI 484

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMA1|PP433_ARATH Pentatricopeptide repeat-containing protein At5g56310 OS=Arabidopsis thaliana GN=PCMP-E13 PE=2 SV=1

 Score =  252 bits (644), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 131/332 (39%), Positives = 209/332 (62%), Gaps = 7/332 (2%)

Query: 2   LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPC--RNVVSWTGIIDGYT 59
           L D  K+FDE+  +++  WN ++ G  K GE++ ARSL E MPC  RN VSWT +I GY 
Sbjct: 167 LGDARKMFDEMLVKDVNVWNALLAGYGKVGEMDEARSLLEMMPCWVRNEVSWTCVISGYA 226

Query: 60  RMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFH 119
           +  R++ A+ +F+RM+  E  EP E+T+LAV  A    G +   + I  Y + RG N   
Sbjct: 227 KSGRASEAIEVFQRMLM-ENVEPDEVTLLAVLSACADLGSLELGERICSYVDHRGMNRA- 284

Query: 120 IHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERM 179
           + ++N +ID YAK G I  AL +FE   V  +N+V+WT+II+G A HG G EA+  F RM
Sbjct: 285 VSLNNAVIDMYAKSGNITKALDVFE--CVNERNVVTWTTIIAGLATHGHGAEALAMFNRM 342

Query: 180 QKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR 239
            K  ++PN VTF+++L+ACSH G V+ G + F+ M  +  + P+I+HYGC+ID+LGRAG+
Sbjct: 343 VKAGVRPNDVTFIAILSACSHVGWVDLGKRLFNSMRSKYGIHPNIEHYGCMIDLLGRAGK 402

Query: 240 LEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYN 299
           L +A++V   +P +  N  +W +LL A + H ++E+GER   +++++E    G+Y+L+ N
Sbjct: 403 LREADEVIKSMPFK-ANAAIWGSLLAASNVHHDLELGERALSELIKLEPNNSGNYMLLAN 461

Query: 300 ILAGVWRYGDAERLRRVVDERNALKFPGRSLV 331
           + + + R+ ++  +R ++      K  G S +
Sbjct: 462 LYSNLGRWDESRMMRNMMKGIGVKKMAGESSI 493

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CA54|PP122_ARATH Pentatricopeptide repeat-containing protein At1g74630 OS=Arabidopsis thaliana GN=PCMP-H71 PE=2 SV=1

 Score =  246 bits (629), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 126/325 (38%), Positives = 203/325 (62%), Gaps = 4/325 (1%)

Query: 7   KLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNG 66
           ++FD++  RN  +WNVM+ G +K GELE A+ +F EMP R+ VSW+ +I G       N 
Sbjct: 193 EIFDKMLVRNHTSWNVMLAGYIKAGELESAKRIFSEMPHRDDVSWSTMIVGIAHNGSFNE 252

Query: 67  ALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL 126
           +   FR +     + P+E+++  V  A  Q+G     +++HG+ EK G+ ++ + V+N L
Sbjct: 253 SFLYFRELQRAGMS-PNEVSLTGVLSACSQSGSFEFGKILHGFVEKAGY-SWIVSVNNAL 310

Query: 127 IDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP 186
           ID Y++CG +  A  +FE +  E++ +VSWTS+I+G AMHG G+EAV  F  M    + P
Sbjct: 311 IDMYSRCGNVPMARLVFEGMQ-EKRCIVSWTSMIAGLAMHGQGEEAVRLFNEMTAYGVTP 369

Query: 187 NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKV 246
           + ++F+S+L+ACSH GL+EEG  +F +M     + P+I+HYGC++D+ GR+G+L++A   
Sbjct: 370 DGISFISLLHACSHAGLIEEGEDYFSEMKRVYHIEPEIEHYGCMVDLYGRSGKLQKAYDF 429

Query: 247 ASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWR 306
              +P   T  +VWRTLLGACS HGN+E+ E+V +++ E++    GD VL+ N  A   +
Sbjct: 430 ICQMPIPPT-AIVWRTLLGACSSHGNIELAEQVKQRLNELDPNNSGDLVLLSNAYATAGK 488

Query: 307 YGDAERLRRVVDERNALKFPGRSLV 331
           + D   +R+ +  +   K    SLV
Sbjct: 489 WKDVASIRKSMIVQRIKKTTAWSLV 513

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LXF2|PP385_ARATH Pentatricopeptide repeat-containing protein At5g15300 OS=Arabidopsis thaliana GN=PCMP-E40 PE=2 SV=2

 Score =  245 bits (625), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 133/335 (39%), Positives = 203/335 (60%), Gaps = 11/335 (3%)

Query: 2   LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRM 61
           + +  +LFDE+P ++ V WNVMITG +K  E++ AR LF+    ++VV+W  +I GY   
Sbjct: 194 IDEAMRLFDEMPYKDQVAWNVMITGCLKCKEMDSARELFDRFTEKDVVTWNAMISGYVNC 253

Query: 62  NRSNGALALFRRMV-ACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHI 120
                AL +F+ M  A E+  P  +TIL++  A    GD+   + +H Y  +    +  I
Sbjct: 254 GYPKEALGIFKEMRDAGEH--PDVVTILSLLSACAVLGDLETGKRLHIYILETASVSSSI 311

Query: 121 HVS----NCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENF 176
           +V     N LID YAKCG I  A+++F    V+ ++L +W ++I G A+H   + ++E F
Sbjct: 312 YVGTPIWNALIDMYAKCGSIDRAIEVFR--GVKDRDLSTWNTLIVGLALH-HAEGSIEMF 368

Query: 177 ERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGR 236
           E MQ++ + PN VTF+ V+ ACSH G V+EG K+F  M +   + P+IKHYGC++DMLGR
Sbjct: 369 EEMQRLKVWPNEVTFIGVILACSHSGRVDEGRKYFSLMRDMYNIEPNIKHYGCMVDMLGR 428

Query: 237 AGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVL 296
           AG+LE+A      +  E  N +VWRTLLGAC  +GNVE+G+    K+L M +   GDYVL
Sbjct: 429 AGQLEEAFMFVESMKIE-PNAIVWRTLLGACKIYGNVELGKYANEKLLSMRKDESGDYVL 487

Query: 297 MYNILAGVWRYGDAERLRRVVDERNALKFPGRSLV 331
           + NI A   ++   +++R++ D+    K  G SL+
Sbjct: 488 LSNIYASTGQWDGVQKVRKMFDDTRVKKPTGVSLI 522

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C501|PPR70_ARATH Pentatricopeptide repeat-containing protein At1g33350 OS=Arabidopsis thaliana GN=PCMP-E57 PE=2 SV=1

 Score =  244 bits (622), Expect = 9e-64,   Method: Compositional matrix adjust.
 Identities = 123/328 (37%), Positives = 202/328 (61%), Gaps = 7/328 (2%)

Query: 7   KLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNG 66
           +LFDE+ ERN+V+W  M++G  + G++  A +LFE+MP R+V SW  I+   T+      
Sbjct: 183 QLFDEMSERNVVSWTAMLSGYARSGDISNAVALFEDMPERDVPSWNAILAACTQNGLFLE 242

Query: 67  ALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL 126
           A++LFRRM+      P+E+T++ V  A  Q G ++  + IH +  +R  ++  + VSN L
Sbjct: 243 AVSLFRRMINEPSIRPNEVTVVCVLSACAQTGTLQLAKGIHAFAYRRDLSS-DVFVSNSL 301

Query: 127 IDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVV--- 183
           +D Y KCG +  A  +F+  S  +K+L +W S+I+ FA+HG  +EA+  FE M K+    
Sbjct: 302 VDLYGKCGNLEEASSVFKMAS--KKSLTAWNSMINCFALHGRSEEAIAVFEEMMKLNIND 359

Query: 184 LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQA 243
           +KP+ +TF+ +LNAC+HGGLV +G  +FD M     + P I+HYGCLID+LGRAGR ++A
Sbjct: 360 IKPDHITFIGLLNACTHGGLVSKGRGYFDLMTNRFGIEPRIEHYGCLIDLLGRAGRFDEA 419

Query: 244 EKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG 303
            +V S +  +  +  +W +LL AC  HG++++ E   + ++ +    GG   +M N+   
Sbjct: 420 LEVMSTMKMK-ADEAIWGSLLNACKIHGHLDLAEVAVKNLVALNPNNGGYVAMMANLYGE 478

Query: 304 VWRYGDAERLRRVVDERNALKFPGRSLV 331
           +  + +A R R+++  +NA K PG S +
Sbjct: 479 MGNWEEARRARKMIKHQNAYKPPGWSRI 506

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZT8|PP354_ARATH Pentatricopeptide repeat-containing protein At4g37380, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H48 PE=3 SV=1

 Score =  239 bits (610), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 121/328 (36%), Positives = 198/328 (60%), Gaps = 5/328 (1%)

Query: 5   GSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRS 64
             K+FD +PER+LV+   MIT   K G +E AR+LF+ M  R++VSW  +IDGY +    
Sbjct: 180 AQKVFDRMPERSLVSSTAMITCYAKQGNVEAARALFDSMCERDIVSWNVMIDGYAQHGFP 239

Query: 65  NGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSN 124
           N AL LF++++A    +P EIT++A   A  Q G +   + IH + +       ++ V  
Sbjct: 240 NDALMLFQKLLAEGKPKPDEITVVAALSACSQIGALETGRWIHVFVKSSRIR-LNVKVCT 298

Query: 125 CLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVV- 183
            LID Y+KCG +  A+ +F D    RK++V+W ++I+G+AMHG  ++A+  F  MQ +  
Sbjct: 299 GLIDMYSKCGSLEEAVLVFND--TPRKDIVAWNAMIAGYAMHGYSQDALRLFNEMQGITG 356

Query: 184 LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQA 243
           L+P  +TF+  L AC+H GLV EG++ F+ M +E  + P I+HYGCL+ +LGRAG+L++A
Sbjct: 357 LQPTDITFIGTLQACAHAGLVNEGIRIFESMGQEYGIKPKIEHYGCLVSLLGRAGQLKRA 416

Query: 244 EKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG 303
            +    +  +  + V+W ++LG+C  HG+  +G+ +   ++ +     G YVL+ NI A 
Sbjct: 417 YETIKNMNMD-ADSVLWSSVLGSCKLHGDFVLGKEIAEYLIGLNIKNSGIYVLLSNIYAS 475

Query: 304 VWRYGDAERLRRVVDERNALKFPGRSLV 331
           V  Y    ++R ++ E+  +K PG S +
Sbjct: 476 VGDYEGVAKVRNLMKEKGIVKEPGISTI 503

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLS9|PP441_ARATH Pentatricopeptide repeat-containing protein At5g61800 OS=Arabidopsis thaliana GN=PCMP-E8 PE=2 SV=1

 Score =  239 bits (609), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 125/323 (38%), Positives = 197/323 (60%), Gaps = 11/323 (3%)

Query: 7   KLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNG 66
           +LFDE P+R++VT+NV+I GLVK  E+  AR LF+ MP R++VSW  +I GY +MN    
Sbjct: 173 QLFDENPQRDVVTYNVLIDGLVKAREIVRARELFDSMPLRDLVSWNSLISGYAQMNHCRE 232

Query: 67  ALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGF--NAFHIHVSN 124
           A+ LF  MVA    +P  + I++   A  Q+GD +  + IH Y +++    ++F   ++ 
Sbjct: 233 AIKLFDEMVALGL-KPDNVAIVSTLSACAQSGDWQKGKAIHDYTKRKRLFIDSF---LAT 288

Query: 125 CLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVL 184
            L+D YAKCG I +A+++FE  S   K L +W ++I+G AMHG G+  V+ F +M    +
Sbjct: 289 GLVDFYAKCGFIDTAMEIFELCS--DKTLFTWNAMITGLAMHGNGELTVDYFRKMVSSGI 346

Query: 185 KPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAE 244
           KP+ VTF+SVL  CSH GLV+E    FD+M    +V  ++KHYGC+ D+LGRAG +E+A 
Sbjct: 347 KPDGVTFISVLVGCSHSGLVDEARNLFDQMRSLYDVNREMKHYGCMADLLGRAGLIEEAA 406

Query: 245 KVASGIPSEITN---VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL 301
           ++   +P +  N   ++ W  LLG C  HGN+E+ E+   ++  +    GG Y +M  + 
Sbjct: 407 EMIEQMPKDGGNREKLLAWSGLLGGCRIHGNIEIAEKAANRVKALSPEDGGVYKVMVEMY 466

Query: 302 AGVWRYGDAERLRRVVDERNALK 324
           A   R+ +  ++R ++D    +K
Sbjct: 467 ANAERWEEVVKVREIIDRDKKVK 489

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJY7|PP449_ARATH Pentatricopeptide repeat-containing protein At5g66520 OS=Arabidopsis thaliana GN=PCMP-H61 PE=2 SV=1

 Score =  239 bits (609), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 126/324 (38%), Positives = 196/324 (60%), Gaps = 5/324 (1%)

Query: 8   LFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGA 67
           LFD +PE + V+WN +I G VK G+++ A +LF +M  +N +SWT +I GY + + +  A
Sbjct: 172 LFDRIPEPDDVSWNSVIKGYVKAGKMDIALTLFRKMAEKNAISWTTMISGYVQADMNKEA 231

Query: 68  LALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLI 127
           L LF  M   +  EP  +++     A  Q G +   + IH Y  K       + +   LI
Sbjct: 232 LQLFHEMQNSD-VEPDNVSLANALSACAQLGALEQGKWIHSYLNKTRIRMDSV-LGCVLI 289

Query: 128 DTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN 187
           D YAKCG +  AL++F++I  ++K++ +WT++ISG+A HG G+EA+  F  MQK+ +KPN
Sbjct: 290 DMYAKCGEMEEALEVFKNI--KKKSVQAWTALISGYAYHGHGREAISKFMEMQKMGIKPN 347

Query: 188 RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVA 247
            +TF +VL ACS+ GLVEEG   F  M  +  + P I+HYGC++D+LGRAG L++A++  
Sbjct: 348 VITFTAVLTACSYTGLVEEGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFI 407

Query: 248 SGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRY 307
             +P +  N V+W  LL AC  H N+E+GE +   ++ ++  +GG YV   NI A   ++
Sbjct: 408 QEMPLK-PNAVIWGALLKACRIHKNIELGEEIGEILIAIDPYHGGRYVHKANIHAMDKKW 466

Query: 308 GDAERLRRVVDERNALKFPGRSLV 331
             A   RR++ E+   K PG S +
Sbjct: 467 DKAAETRRLMKEQGVAKVPGCSTI 490

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FNN7|PP371_ARATH Pentatricopeptide repeat-containing protein At5g08510 OS=Arabidopsis thaliana GN=PCMP-E20 PE=2 SV=1

 Score =  238 bits (606), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 124/323 (38%), Positives = 198/323 (61%), Gaps = 3/323 (0%)

Query: 7   KLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNG 66
           ++FDE+ +R++  WN MITG  + G+++ A  LF+ MP +NV SWT +I G+++    + 
Sbjct: 138 RVFDEMSKRDVPVWNAMITGYQRRGDMKAAMELFDSMPRKNVTSWTTVISGFSQNGNYSE 197

Query: 67  ALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL 126
           AL +F  M   +  +P+ IT+++V PA    G++   + + GY  + GF   +I+V N  
Sbjct: 198 ALKMFLCMEKDKSVKPNHITVVSVLPACANLGELEIGRRLEGYARENGFFD-NIYVCNAT 256

Query: 127 IDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP 186
           I+ Y+KCG I  A +LFE++  +R NL SW S+I   A HG   EA+  F +M +   KP
Sbjct: 257 IEMYSKCGMIDVAKRLFEELGNQR-NLCSWNSMIGSLATHGKHDEALTLFAQMLREGEKP 315

Query: 187 NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKV 246
           + VTF+ +L AC HGG+V +G + F  M E  ++ P ++HYGC+ID+LGR G+L++A  +
Sbjct: 316 DAVTFVGLLLACVHGGMVVKGQELFKSMEEVHKISPKLEHYGCMIDLLGRVGKLQEAYDL 375

Query: 247 ASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWR 306
              +P +  + VVW TLLGACSFHGNVE+ E  +  + ++E    G+ V+M NI A   +
Sbjct: 376 IKTMPMK-PDAVVWGTLLGACSFHGNVEIAEIASEALFKLEPTNPGNCVIMSNIYAANEK 434

Query: 307 YGDAERLRRVVDERNALKFPGRS 329
           +    R+R+++ +    K  G S
Sbjct: 435 WDGVLRMRKLMKKETMTKAAGYS 457

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	331
224123708	337	predicted protein [Populus trichocarpa]	0.996	0.979	0.751	1e-143
255568986	337	pentatricopeptide repeat-containing prot	1.0	0.982	0.734	1e-140
225444407	470	PREDICTED: pentatricopeptide repeat-cont	0.873	0.614	0.688	1e-128
147772248	538	hypothetical protein VITISV_033453 [Viti	0.854	0.526	0.688	1e-127
449459636	495	PREDICTED: pentatricopeptide repeat-cont	0.894	0.597	0.646	1e-124
356506146	503	PREDICTED: pentatricopeptide repeat-cont	1.0	0.658	0.628	1e-122
359475755	509	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.984	0.640	0.658	1e-122
356554965	517	PREDICTED: pentatricopeptide repeat-cont	1.0	0.640	0.616	1e-121
147860607	610	hypothetical protein VITISV_027522 [Viti	0.809	0.439	0.692	1e-120
302144057	627	unnamed protein product [Vitis vinifera]	0.927	0.489	0.687	1e-119

>gi|224123708|ref|XP_002319146.1| predicted protein [Populus trichocarpa] gi|222857522|gb|EEE95069.1| predicted protein [Populus trichocarpa]

 Score =  514 bits (1325), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 248/330 (75%), Positives = 282/330 (85%)

Query: 2   LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRM 61
           L D   LFDE+P+RN+VTWNVMITGLVKWG+LE+A SLF+EMP +NVVSWTGIIDGY R 
Sbjct: 8   LGDAMILFDEMPKRNVVTWNVMITGLVKWGKLEFASSLFDEMPEKNVVSWTGIIDGYIRN 67

Query: 62  NRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIH 121
           N+ +  L+LFRRMV CE  +P+EITILA+ PAI   G++++C LIHGY EKRGFNAF I 
Sbjct: 68  NKYSEGLSLFRRMVVCEGIKPTEITILAILPAISNMGELKSCSLIHGYAEKRGFNAFDIR 127

Query: 122 VSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQK 181
           V+N +ID Y+KCGCI SA K FEDISVERKNLVSWTSIISGFAMHGM KEAVE FERM+K
Sbjct: 128 VANSIIDCYSKCGCIASAFKFFEDISVERKNLVSWTSIISGFAMHGMWKEAVEYFERMEK 187

Query: 182 VVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLE 241
             LKPNRVTFLSVLNACSHGGLV+EGL+ F KMV E  VLPDIKHYGC++DMLGR GRLE
Sbjct: 188 AGLKPNRVTFLSVLNACSHGGLVDEGLRCFYKMVNEHGVLPDIKHYGCVVDMLGRTGRLE 247

Query: 242 QAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL 301
           +AE +A  IPSEI NVV+WRTLLGACSFHGNVEMGERVTRKI+EMERGYGGDYVLMYNI 
Sbjct: 248 EAENMALEIPSEIVNVVIWRTLLGACSFHGNVEMGERVTRKIMEMERGYGGDYVLMYNIF 307

Query: 302 AGVWRYGDAERLRRVVDERNALKFPGRSLV 331
           AG  RY DAERLR+++++RNA K PG SLV
Sbjct: 308 AGAGRYEDAERLRKLMNKRNAFKLPGNSLV 337

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255568986|ref|XP_002525463.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223535276|gb|EEF36953.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  504 bits (1298), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 243/331 (73%), Positives = 278/331 (83%)

Query: 1   FLKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTR 60
           FL +    FDE+PE+N VTWNVMITGLVKWG+LE+ARS F++MP +NVVSWTGIIDGY R
Sbjct: 7   FLGNALLAFDEMPEKNSVTWNVMITGLVKWGKLEFARSFFDDMPEKNVVSWTGIIDGYVR 66

Query: 61  MNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHI 120
           MNR    LALFRRMV+ E   PSEITILA+ PAI   G+++NC LIH   EKRGFN+  I
Sbjct: 67  MNRITEGLALFRRMVSFEGIAPSEITILAILPAISGIGELQNCGLIHCLVEKRGFNSSDI 126

Query: 121 HVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQ 180
            V+N +IDTYAKCGCI SA + FE+ISVERKNLVSWTSIISGFAMHGMG+EAV+ FE M+
Sbjct: 127 RVTNSIIDTYAKCGCIVSASRFFEEISVERKNLVSWTSIISGFAMHGMGQEAVKRFENME 186

Query: 181 KVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL 240
           +  LKPNRVTFLSVLNACSHGGLV EG +FF+KMV +  +LPDIKHYGCL+DMLGR GRL
Sbjct: 187 RTGLKPNRVTFLSVLNACSHGGLVAEGHEFFEKMVNQYSILPDIKHYGCLVDMLGRTGRL 246

Query: 241 EQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNI 300
           E+AEK+A GIPSEI N V+WRTLLGACSFHGN E+GERVTRKI+EMERGYGGDYVLMYNI
Sbjct: 247 EEAEKLALGIPSEIVNAVIWRTLLGACSFHGNSEIGERVTRKIMEMERGYGGDYVLMYNI 306

Query: 301 LAGVWRYGDAERLRRVVDERNALKFPGRSLV 331
            AGV R+ DAERLR ++DERNA K PG SLV
Sbjct: 307 FAGVGRFEDAERLRVLMDERNAFKVPGHSLV 337

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225444407|ref|XP_002265471.1| PREDICTED: pentatricopeptide repeat-containing protein At1g09220, mitochondrial-like [Vitis vinifera]

 Score =  464 bits (1195), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 225/327 (68%), Positives = 258/327 (78%)

Query: 4   DGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNR 63
           +  ++FDE+P RN VTWNV ITGL KWGEL  A SL +EMP   VVSWT IIDGYTRMN+
Sbjct: 143 EAKQVFDEMPVRNSVTWNVFITGLAKWGELHLACSLLDEMPRPTVVSWTTIIDGYTRMNQ 202

Query: 64  SNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVS 123
              ALALF  M   E  +P+EIT+LA+FPAI   G +  CQLIH YGEK G NA  I + 
Sbjct: 203 PKQALALFLTMFLDEGIKPTEITLLAIFPAISNLGALEICQLIHTYGEKSGLNASDIRIR 262

Query: 124 NCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVV 183
             L+DTYAKCGCI SA  +F +I+ + +NLVSWTSIIS FAMHGM KEA+ENFERMQK  
Sbjct: 263 TSLLDTYAKCGCIESASGVFGEIAAKGRNLVSWTSIISAFAMHGMAKEALENFERMQKEC 322

Query: 184 LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQA 243
           LKPNR+TFLSVLNACSHGGLVEEGLK F KMV EC++ PD+KHYGCLIDMLGRAGRL++A
Sbjct: 323 LKPNRITFLSVLNACSHGGLVEEGLKLFTKMVNECQISPDVKHYGCLIDMLGRAGRLDEA 382

Query: 244 EKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG 303
           EK+A  IP  + NVV+WRTLLGACSFHGNVEMG RVTRKILEMER YGGDYVL+ NI AG
Sbjct: 383 EKMALEIPDYVVNVVIWRTLLGACSFHGNVEMGARVTRKILEMERKYGGDYVLLSNIFAG 442

Query: 304 VWRYGDAERLRRVVDERNALKFPGRSL 330
           V R+ D ER+RR++DERNA K PG S 
Sbjct: 443 VGRFWDVERVRRLMDERNASKVPGLSF 469

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147772248|emb|CAN78346.1| hypothetical protein VITISV_033453 [Vitis vinifera]

 Score =  461 bits (1187), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 221/321 (68%), Positives = 257/321 (80%)

Query: 4   DGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNR 63
           +  ++FDE+P RN VTWNV ITGL KWGEL  ARSL +EMP   VVSWT IIDGYTRMN+
Sbjct: 143 EAKQVFDEMPVRNSVTWNVFITGLAKWGELHLARSLLDEMPMPTVVSWTTIIDGYTRMNQ 202

Query: 64  SNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVS 123
              ALALF  M   E  +P+EIT+LA+FPAI   G +  CQLIH YGEK G NA  I + 
Sbjct: 203 PKQALALFLTMFLDEGIKPTEITLLAIFPAISNLGALEICQLIHTYGEKSGLNASDIRIR 262

Query: 124 NCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVV 183
             L+DTYAKCGCI SA ++F +I  + +NLVSWTSIIS FAMHGM KEA+ENFERMQK  
Sbjct: 263 TSLLDTYAKCGCIESASRVFGEIDAKSRNLVSWTSIISAFAMHGMAKEALENFERMQKEC 322

Query: 184 LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQA 243
           LKPNR+TFLSVLNACSHGGLVEEGLKFF KMV + ++ PD+KHYGCLIDMLGRAGRL++A
Sbjct: 323 LKPNRITFLSVLNACSHGGLVEEGLKFFTKMVNKYQISPDVKHYGCLIDMLGRAGRLDEA 382

Query: 244 EKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG 303
           EK+A  IP+ + NVV+WRTLLGACSFHGNVEMG RVTRKILEME+ YGGDYVL+ NI AG
Sbjct: 383 EKMALEIPNYVVNVVIWRTLLGACSFHGNVEMGARVTRKILEMEKKYGGDYVLLSNIFAG 442

Query: 304 VWRYGDAERLRRVVDERNALK 324
           V R+ D ER+RR++DERNA K
Sbjct: 443 VGRFWDVERVRRLMDERNASK 463

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449459636|ref|XP_004147552.1| PREDICTED: pentatricopeptide repeat-containing protein At1g09220, mitochondrial-like [Cucumis sativus] gi|449484988|ref|XP_004157038.1| PREDICTED: pentatricopeptide repeat-containing protein At1g09220, mitochondrial-like [Cucumis sativus]

 Score =  451 bits (1160), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 214/331 (64%), Positives = 261/331 (78%)

Query: 1   FLKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTR 60
           FL D  K+FDE+P+R+ VTWNV+ITGLVK+GEL+ AR +F++MP R VVSWT IIDGYTR
Sbjct: 165 FLLDAMKVFDEMPDRSSVTWNVLITGLVKFGELKRARDVFDQMPMRTVVSWTAIIDGYTR 224

Query: 61  MNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHI 120
           +NR   A  LF RMVA    EP+E+T+L +FPAI   G ++ CQ +H Y EK+GF    +
Sbjct: 225 LNRHEEAAGLFWRMVAHFGMEPNEVTLLTIFPAISNLGALKLCQSVHAYAEKKGFKVSDV 284

Query: 121 HVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQ 180
            ++N LID YAKCGCI SA K+FE++S E KNLVSWTSIISGF MHGMGKEA+E+FE M+
Sbjct: 285 RIANSLIDCYAKCGCINSASKVFEEMSAEIKNLVSWTSIISGFTMHGMGKEAMESFEIME 344

Query: 181 KVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL 240
           K   +PNRVTFLS+++ACSHGGLVEEGL+FF+KMV E ++ PDI HYG LIDMLGRAGR+
Sbjct: 345 KEGHEPNRVTFLSIVSACSHGGLVEEGLEFFEKMVAEYQIKPDIMHYGSLIDMLGRAGRI 404

Query: 241 EQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNI 300
           E+AEK+A  IP EI +VV+WRTLLGACSFHGNV M ERVT++IL ME  YGGDYVLM NI
Sbjct: 405 EEAEKIALEIPKEIASVVIWRTLLGACSFHGNVSMAERVTQRILNMEGAYGGDYVLMSNI 464

Query: 301 LAGVWRYGDAERLRRVVDERNALKFPGRSLV 331
            A   +YGDAER RR++D     K PG+SLV
Sbjct: 465 FAAAGKYGDAERWRRLMDSSKFSKIPGQSLV 495

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356506146|ref|XP_003521848.1| PREDICTED: pentatricopeptide repeat-containing protein At1g09220, mitochondrial-like [Glycine max]

 Score =  445 bits (1144), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 208/331 (62%), Positives = 263/331 (79%)

Query: 1   FLKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTR 60
            L + +++F E+  RNLV+WNV ITGL+KWGE+E A S+F +MP R+VVSWT +IDGYTR
Sbjct: 173 LLVEAAQVFYEMQHRNLVSWNVFITGLIKWGEVELACSVFNQMPARSVVSWTLVIDGYTR 232

Query: 61  MNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHI 120
            N+   AL LFR+M+  +  EP+E+T+L +FPAI   G ++ CQ +H Y EKRGFNAF +
Sbjct: 233 RNQPIKALTLFRKMIEVDGIEPTEVTLLTIFPAIANIGCIKICQSVHVYVEKRGFNAFDV 292

Query: 121 HVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQ 180
            ++N L+D YAKCGCI S  + F++I  +R+NLVSWTS ISGFAM+GMG+EA+E+FE M+
Sbjct: 293 RITNALLDLYAKCGCIASMSRFFQEIPDQRRNLVSWTSTISGFAMNGMGREALESFESME 352

Query: 181 KVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL 240
           K  L+PN VTFL VL+ACSHGGLVEEG+ FF KMV++  ++PDIKHYGC+IDMLGRAGRL
Sbjct: 353 KTGLRPNHVTFLGVLSACSHGGLVEEGINFFVKMVKDWCLVPDIKHYGCVIDMLGRAGRL 412

Query: 241 EQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNI 300
           E+AEKVA  +P E+ N V+WRTLLGACS H NVE+G+RVT KILEMERG+GGDYVLM NI
Sbjct: 413 EEAEKVALQVPHEVANAVMWRTLLGACSVHNNVEIGQRVTNKILEMERGHGGDYVLMSNI 472

Query: 301 LAGVWRYGDAERLRRVVDERNALKFPGRSLV 331
           L GV R+ DAERLR V+D+R A K PG S V
Sbjct: 473 LVGVGRFKDAERLREVIDKRIAFKLPGYSFV 503

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359475755|ref|XP_003631749.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At1g09220, mitochondrial-like [Vitis vinifera]

 Score =  443 bits (1140), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 218/331 (65%), Positives = 258/331 (77%), Gaps = 5/331 (1%)

Query: 2   LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRM 61
           L +  ++ DE+P RN VTWNV+ITGL KWGEL  ARSLF+EMP   VVSWT IIDGYTRM
Sbjct: 183 LLEAKQVLDEMPVRNSVTWNVLITGLAKWGELHLARSLFDEMPMPTVVSWTTIIDGYTRM 242

Query: 62  NRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIH 121
           N+   ALALFR M   E  +P+EI +LA+FPAI   G +  CQL+H YGEK G NA  I 
Sbjct: 243 NQPKQALALFRTMFIDEGIKPTEIALLAIFPAISNLGALELCQLVHMYGEKSGLNASDIR 302

Query: 122 VSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQK 181
           + N L+DTYAKCGC+ S  ++F +I+ + +NLVSWTS+IS FAMHGM KEA+E    + K
Sbjct: 303 IRNSLLDTYAKCGCMESIXRVFGEIAAKSRNLVSWTSVISAFAMHGMAKEALE----ILK 358

Query: 182 VVLKPNRVTFLSVLNACSHGGLVEEG-LKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL 240
             LKPNR+TFLSVLNACSHGGLVEEG LKFF KMV E ++ PD+KHYG LIDMLGRAGRL
Sbjct: 359 ECLKPNRITFLSVLNACSHGGLVEEGRLKFFAKMVNEYQMSPDVKHYGGLIDMLGRAGRL 418

Query: 241 EQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNI 300
           ++AEK+A   P ++ NVV+WRTLLGACSFHGNVEMG RVTRKILEMER YGGDYVL+ NI
Sbjct: 419 DEAEKMALEFPDDVVNVVIWRTLLGACSFHGNVEMGARVTRKILEMERKYGGDYVLLSNI 478

Query: 301 LAGVWRYGDAERLRRVVDERNALKFPGRSLV 331
            AGV R+ D ER+RR++DERNA K PG SLV
Sbjct: 479 FAGVGRFWDVERVRRLMDERNASKLPGLSLV 509

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356554965|ref|XP_003545811.1| PREDICTED: pentatricopeptide repeat-containing protein At1g09220, mitochondrial-like [Glycine max]

 Score =  439 bits (1130), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 204/331 (61%), Positives = 263/331 (79%)

Query: 1   FLKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTR 60
            L + +++F E+  RNLV+WNV ITGL+K GE+E A S+F +MP R+VVSWT +IDGYTR
Sbjct: 187 LLVEAAQVFYEMQHRNLVSWNVFITGLIKLGEVELACSVFNQMPARSVVSWTLVIDGYTR 246

Query: 61  MNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHI 120
            N+   AL LFR+M+  +  EP+E+T+L +FPAI   G ++ CQ +HGY EKRGFNAF +
Sbjct: 247 RNQPIKALTLFRKMIEVDGIEPTEVTLLTIFPAIANIGCIKICQSVHGYVEKRGFNAFDV 306

Query: 121 HVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQ 180
            ++N L+D YAKCGCI S  + F++I  +R+NLVSWTS ISGFAM+GMG+EA+E+FE M+
Sbjct: 307 RITNALLDLYAKCGCIASVSRFFQEIPDQRRNLVSWTSTISGFAMNGMGREALESFESME 366

Query: 181 KVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL 240
           K  L+PN VTFL VL+ACSHGGLVEEG+ FF KMV++  ++PDIKHYGC+IDMLGRAGRL
Sbjct: 367 KAGLRPNHVTFLGVLSACSHGGLVEEGINFFVKMVKDWCLVPDIKHYGCVIDMLGRAGRL 426

Query: 241 EQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNI 300
           E+AEK+A  +P E+ N V+WRTLLGAC+ H NVE+G+RVT KILEMERG+GGDYVLM NI
Sbjct: 427 EEAEKIALQVPHEVANAVMWRTLLGACNVHNNVEIGQRVTNKILEMERGHGGDYVLMSNI 486

Query: 301 LAGVWRYGDAERLRRVVDERNALKFPGRSLV 331
           L GV R+ DAE+LR ++D+R A K PG S V
Sbjct: 487 LVGVGRFKDAEKLREMIDKRIAFKLPGYSFV 517

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147860607|emb|CAN79717.1| hypothetical protein VITISV_027522 [Vitis vinifera]

 Score =  438 bits (1126), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 212/306 (69%), Positives = 241/306 (78%)

Query: 4   DGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNR 63
           +  ++FDE+P RN VTWNV ITGL KWGEL  A SL +EMP   VVSWT IIDGYTRMN+
Sbjct: 143 EAKQVFDEMPVRNSVTWNVFITGLAKWGELHLACSLLDEMPRPTVVSWTTIIDGYTRMNQ 202

Query: 64  SNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVS 123
              ALALF  M   E  +P+EIT+LA+FPAI   G +  CQLIH YGEK G NA  I + 
Sbjct: 203 PKQALALFLTMFLDEGIKPTEITLLAIFPAISNLGALEICQLIHTYGEKSGLNASDIRIR 262

Query: 124 NCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVV 183
             L+DTYAKCGCI SA  +F +I+ + +NLVSWTSIIS FAMHGM KEA+ENFERMQK  
Sbjct: 263 TSLLDTYAKCGCIESASGVFGEIAAKGRNLVSWTSIISAFAMHGMAKEALENFERMQKEC 322

Query: 184 LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQA 243
           LKPNR+TFLSVLNACSHGGLVEEGLK F KMV EC++ PD+KHYGCLIDMLGRAGRL++A
Sbjct: 323 LKPNRITFLSVLNACSHGGLVEEGLKLFTKMVNECQISPDVKHYGCLIDMLGRAGRLDEA 382

Query: 244 EKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG 303
           EK+A  IP  + NVV+WRTLLGACSFHGNVEMG RVTRKILEMER YGGDYVL+ NI AG
Sbjct: 383 EKMALEIPDYVVNVVIWRTLLGACSFHGNVEMGARVTRKILEMERKYGGDYVLLSNIFAG 442

Query: 304 VWRYGD 309
           V R  D
Sbjct: 443 VGRIKD 448

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302144057|emb|CBI23162.3| unnamed protein product [Vitis vinifera]

 Score =  436 bits (1120), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 213/310 (68%), Positives = 242/310 (78%), Gaps = 3/310 (0%)

Query: 4   DGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNR 63
           +  ++FDE+P RN VTWNV ITGL KWGEL  A SL +EMP   VVSWT IIDGYTRMN+
Sbjct: 143 EAKQVFDEMPVRNSVTWNVFITGLAKWGELHLACSLLDEMPRPTVVSWTTIIDGYTRMNQ 202

Query: 64  SNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVS 123
              ALALF  M   E  +P+EIT+LA+FPAI   G +  CQLIH YGEK G NA  I + 
Sbjct: 203 PKQALALFLTMFLDEGIKPTEITLLAIFPAISNLGALEICQLIHTYGEKSGLNASDIRIR 262

Query: 124 NCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVV 183
             L+DTYAKCGCI SA  +F +I+ + +NLVSWTSIIS FAMHGM KEA+ENFERMQK  
Sbjct: 263 TSLLDTYAKCGCIESASGVFGEIAAKGRNLVSWTSIISAFAMHGMAKEALENFERMQKEC 322

Query: 184 LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQA 243
           LKPNR+TFLSVLNACSHGGLVEEGLK F KMV EC++ PD+KHYGCLIDMLGRAGRL++A
Sbjct: 323 LKPNRITFLSVLNACSHGGLVEEGLKLFTKMVNECQISPDVKHYGCLIDMLGRAGRLDEA 382

Query: 244 EKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG 303
           EK+A  IP  + NVV+WRTLLGACSFHGNVEMG RVTRKILEMER YGGDYVL+ NI AG
Sbjct: 383 EKMALEIPDYVVNVVIWRTLLGACSFHGNVEMGARVTRKILEMERKYGGDYVLLSNIFAG 442

Query: 304 VWRYGDAERL 313
           V   G  ER 
Sbjct: 443 V---GSLERF 449

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	331
TAIR|locus:2161018	530	AT5G56310 "AT5G56310" [Arabido	0.981	0.613	0.394	3.7e-64
TAIR|locus:2054789	534	MEF21 "mitochondrial editing f	0.981	0.608	0.393	3.7e-64
TAIR|locus:2150996	548	AT5G15300 "AT5G15300" [Arabido	0.978	0.591	0.397	4.8e-62
TAIR|locus:2019160	643	AT1G74630 [Arabidopsis thalian	0.969	0.499	0.387	6.2e-62
TAIR|locus:2006927	538	AT1G33350 [Arabidopsis thalian	0.969	0.596	0.375	1.2e-60
TAIR|locus:2085874	472	MEF20 "AT3G18970" [Arabidopsis	0.906	0.635	0.384	1.4e-60
TAIR|locus:2159602	511	AT5G08510 "AT5G08510" [Arabido	0.966	0.626	0.383	1.7e-59
TAIR|locus:2154855	620	AT5G66520 "AT5G66520" [Arabido	0.963	0.514	0.388	2.2e-59
TAIR|locus:2159238	499	AT5G61800 "AT5G61800" [Arabido	0.942	0.625	0.396	2.7e-59
TAIR|locus:2060640	738	OTP81 "ORGANELLE TRANSCRIPT PR	0.984	0.441	0.351	3.3e-59

TAIR|locus:2161018 AT5G56310 "AT5G56310" [Arabidopsis thaliana (taxid:3702)]

 Score = 654 (235.3 bits), Expect = 3.7e-64, P = 3.7e-64
 Identities = 131/332 (39%), Positives = 209/332 (62%)

Query:     2 LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPC--RNVVSWTGIIDGYT 59
             L D  K+FDE+  +++  WN ++ G  K GE++ ARSL E MPC  RN VSWT +I GY 
Sbjct:   167 LGDARKMFDEMLVKDVNVWNALLAGYGKVGEMDEARSLLEMMPCWVRNEVSWTCVISGYA 226

Query:    60 RMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFH 119
             +  R++ A+ +F+RM+  E  EP E+T+LAV  A    G +   + I  Y + RG N   
Sbjct:   227 KSGRASEAIEVFQRMLM-ENVEPDEVTLLAVLSACADLGSLELGERICSYVDHRGMNRA- 284

Query:   120 IHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERM 179
             + ++N +ID YAK G I  AL +FE   V  +N+V+WT+II+G A HG G EA+  F RM
Sbjct:   285 VSLNNAVIDMYAKSGNITKALDVFE--CVNERNVVTWTTIIAGLATHGHGAEALAMFNRM 342

Query:   180 QKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR 239
              K  ++PN VTF+++L+ACSH G V+ G + F+ M  +  + P+I+HYGC+ID+LGRAG+
Sbjct:   343 VKAGVRPNDVTFIAILSACSHVGWVDLGKRLFNSMRSKYGIHPNIEHYGCMIDLLGRAGK 402

Query:   240 LEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYN 299
             L +A++V   +P +  N  +W +LL A + H ++E+GER   +++++E    G+Y+L+ N
Sbjct:   403 LREADEVIKSMPFK-ANAAIWGSLLAASNVHHDLELGERALSELIKLEPNNSGNYMLLAN 461

Query:   300 ILAGVWRYGDAERLRRVVDERNALKFPGRSLV 331
             + + + R+ ++  +R ++      K  G S +
Sbjct:   462 LYSNLGRWDESRMMRNMMKGIGVKKMAGESSI 493

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2054789 MEF21 "mitochondrial editing factor 21" [Arabidopsis thaliana (taxid:3702)]

 Score = 654 (235.3 bits), Expect = 3.7e-64, P = 3.7e-64
 Identities = 130/330 (39%), Positives = 210/330 (63%)

Query:     2 LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRM 61
             L D  K+FDE+ ER++++WN +++G  + G+++ A+ LF  M  + +VSWT +I GYT +
Sbjct:   160 LVDAHKVFDEMYERDVISWNSLLSGYARLGQMKKAKGLFHLMLDKTIVSWTAMISGYTGI 219

Query:    62 NRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIH 121
                  A+  FR M      EP EI++++V P+  Q G +   + IH Y E+RGF      
Sbjct:   220 GCYVEAMDFFREMQLAGI-EPDEISLISVLPSCAQLGSLELGKWIHLYAERRGFLK-QTG 277

Query:   122 VSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQK 181
             V N LI+ Y+KCG I  A++LF  +  E K+++SW+++ISG+A HG    A+E F  MQ+
Sbjct:   278 VCNALIEMYSKCGVISQAIQLFGQM--EGKDVISWSTMISGYAYHGNAHGAIETFNEMQR 335

Query:   182 VVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLE 241
               +KPN +TFL +L+ACSH G+ +EGL++FD M ++ ++ P I+HYGCLID+L RAG+LE
Sbjct:   336 AKVKPNGITFLGLLSACSHVGMWQEGLRYFDMMRQDYQIEPKIEHYGCLIDVLARAGKLE 395

Query:   242 QAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL 301
             +A ++   +P +  +  +W +LL +C   GN+++       ++E+E    G+YVL+ NI 
Sbjct:   396 RAVEITKTMPMK-PDSKIWGSLLSSCRTPGNLDVALVAMDHLVELEPEDMGNYVLLANIY 454

Query:   302 AGVWRYGDAERLRRVVDERNALKFPGRSLV 331
             A + ++ D  RLR+++   N  K PG SL+
Sbjct:   455 ADLGKWEDVSRLRKMIRNENMKKTPGGSLI 484

GO:0005739 "mitochondrion" evidence=ISM

GO:0080156 "mitochondrial mRNA modification" evidence=IMP

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

 Score = 634 (228.2 bits), Expect = 4.8e-62, P = 4.8e-62
 Identities = 133/335 (39%), Positives = 203/335 (60%)

Query:     2 LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRM 61
             + +  +LFDE+P ++ V WNVMITG +K  E++ AR LF+    ++VV+W  +I GY   
Sbjct:   194 IDEAMRLFDEMPYKDQVAWNVMITGCLKCKEMDSARELFDRFTEKDVVTWNAMISGYVNC 253

Query:    62 NRSNGALALFRRMV-ACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHI 120
                  AL +F+ M  A E+  P  +TIL++  A    GD+   + +H Y  +    +  I
Sbjct:   254 GYPKEALGIFKEMRDAGEH--PDVVTILSLLSACAVLGDLETGKRLHIYILETASVSSSI 311

Query:   121 HVS----NCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENF 176
             +V     N LID YAKCG I  A+++F    V+ ++L +W ++I G A+H   + ++E F
Sbjct:   312 YVGTPIWNALIDMYAKCGSIDRAIEVFR--GVKDRDLSTWNTLIVGLALHH-AEGSIEMF 368

Query:   177 ERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGR 236
             E MQ++ + PN VTF+ V+ ACSH G V+EG K+F  M +   + P+IKHYGC++DMLGR
Sbjct:   369 EEMQRLKVWPNEVTFIGVILACSHSGRVDEGRKYFSLMRDMYNIEPNIKHYGCMVDMLGR 428

Query:   237 AGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVL 296
             AG+LE+A      +  E  N +VWRTLLGAC  +GNVE+G+    K+L M +   GDYVL
Sbjct:   429 AGQLEEAFMFVESMKIE-PNAIVWRTLLGACKIYGNVELGKYANEKLLSMRKDESGDYVL 487

Query:   297 MYNILAGVWRYGDAERLRRVVDERNALKFPGRSLV 331
             + NI A   ++   +++R++ D+    K  G SL+
Sbjct:   488 LSNIYASTGQWDGVQKVRKMFDDTRVKKPTGVSLI 522

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 633 (227.9 bits), Expect = 6.2e-62, P = 6.2e-62
 Identities = 126/325 (38%), Positives = 203/325 (62%)

Query:     7 KLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNG 66
             ++FD++  RN  +WNVM+ G +K GELE A+ +F EMP R+ VSW+ +I G       N 
Sbjct:   193 EIFDKMLVRNHTSWNVMLAGYIKAGELESAKRIFSEMPHRDDVSWSTMIVGIAHNGSFNE 252

Query:    67 ALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL 126
             +   FR +     + P+E+++  V  A  Q+G     +++HG+ EK G++ + + V+N L
Sbjct:   253 SFLYFRELQRAGMS-PNEVSLTGVLSACSQSGSFEFGKILHGFVEKAGYS-WIVSVNNAL 310

Query:   127 IDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP 186
             ID Y++CG +  A  +FE +  E++ +VSWTS+I+G AMHG G+EAV  F  M    + P
Sbjct:   311 IDMYSRCGNVPMARLVFEGMQ-EKRCIVSWTSMIAGLAMHGQGEEAVRLFNEMTAYGVTP 369

Query:   187 NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKV 246
             + ++F+S+L+ACSH GL+EEG  +F +M     + P+I+HYGC++D+ GR+G+L++A   
Sbjct:   370 DGISFISLLHACSHAGLIEEGEDYFSEMKRVYHIEPEIEHYGCMVDLYGRSGKLQKAYDF 429

Query:   247 ASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWR 306
                +P   T  +VWRTLLGACS HGN+E+ E+V +++ E++    GD VL+ N  A   +
Sbjct:   430 ICQMPIPPT-AIVWRTLLGACSSHGNIELAEQVKQRLNELDPNNSGDLVLLSNAYATAGK 488

Query:   307 YGDAERLRRVVDERNALKFPGRSLV 331
             + D   +R+ +  +   K    SLV
Sbjct:   489 WKDVASIRKSMIVQRIKKTTAWSLV 513

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2006927 AT1G33350 [Arabidopsis thaliana (taxid:3702)]

 Score = 621 (223.7 bits), Expect = 1.2e-60, P = 1.2e-60
 Identities = 123/328 (37%), Positives = 202/328 (61%)

Query:     7 KLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNG 66
             +LFDE+ ERN+V+W  M++G  + G++  A +LFE+MP R+V SW  I+   T+      
Sbjct:   183 QLFDEMSERNVVSWTAMLSGYARSGDISNAVALFEDMPERDVPSWNAILAACTQNGLFLE 242

Query:    67 ALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL 126
             A++LFRRM+      P+E+T++ V  A  Q G ++  + IH +  +R  ++  + VSN L
Sbjct:   243 AVSLFRRMINEPSIRPNEVTVVCVLSACAQTGTLQLAKGIHAFAYRRDLSS-DVFVSNSL 301

Query:   127 IDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVL-- 184
             +D Y KCG +  A  +F+  S  +K+L +W S+I+ FA+HG  +EA+  FE M K+ +  
Sbjct:   302 VDLYGKCGNLEEASSVFKMAS--KKSLTAWNSMINCFALHGRSEEAIAVFEEMMKLNIND 359

Query:   185 -KPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQA 243
              KP+ +TF+ +LNAC+HGGLV +G  +FD M     + P I+HYGCLID+LGRAGR ++A
Sbjct:   360 IKPDHITFIGLLNACTHGGLVSKGRGYFDLMTNRFGIEPRIEHYGCLIDLLGRAGRFDEA 419

Query:   244 EKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG 303
              +V S +  +  +  +W +LL AC  HG++++ E   + ++ +    GG   +M N+   
Sbjct:   420 LEVMSTMKMK-ADEAIWGSLLNACKIHGHLDLAEVAVKNLVALNPNNGGYVAMMANLYGE 478

Query:   304 VWRYGDAERLRRVVDERNALKFPGRSLV 331
             +  + +A R R+++  +NA K PG S +
Sbjct:   479 MGNWEEARRARKMIKHQNAYKPPGWSRI 506

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2085874 MEF20 "AT3G18970" [Arabidopsis thaliana (taxid:3702)]

 Score = 557 (201.1 bits), Expect = 1.4e-60, Sum P(2) = 1.4e-60
 Identities = 122/317 (38%), Positives = 186/317 (58%)

Query:    29 KWGELEYARSLFEEMPCRNVVSWTGIIDGY-TRMNRSNG----ALALFRRMVAC-EYTEP 82
             K G+L YAR +F+EMP R  V+W  +I GY +  ++ N     A+ LFRR   C     P
Sbjct:   159 KNGDLRYARKVFDEMPERTSVTWNAMIGGYCSHKDKGNHNARKAMVLFRRFSCCGSGVRP 218

Query:    83 SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNA-FHIHVSNCLIDTYAKCGCIFSALK 141
             ++ T++ V  AI Q G +    L+HGY EK GF     + +   L+D Y+KCGC+ +A  
Sbjct:   219 TDTTMVCVLSAISQTGLLEIGSLVHGYIEKLGFTPEVDVFIGTALVDMYSKCGCLNNAFS 278

Query:   142 LFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHG 201
             +FE + V  KN+ +WTS+ +G A++G G E      RM +  +KPN +TF S+L+A  H 
Sbjct:   279 VFELMKV--KNVFTWTSMATGLALNGRGNETPNLLNRMAESGIKPNEITFTSLLSAYRHI 336

Query:   202 GLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWR 261
             GLVEEG++ F  M     V P I+HYGC++D+LG+AGR+++A +    +P +  + ++ R
Sbjct:   337 GLVEEGIELFKSMKTRFGVTPVIEHYGCIVDLLGKAGRIQEAYQFILAMPIK-PDAILLR 395

Query:   262 TLLGACSFHGNVEMGERVTRKILEMERG---YGG----DYVLMYNILAGVWRYGDAERLR 314
             +L  ACS +G   MGE + + +LE+ER      G    DYV + N+LA   ++ + E+LR
Sbjct:   396 SLCNACSIYGETVMGEEIGKALLEIEREDEKLSGSECEDYVALSNVLAHKGKWVEVEKLR 455

Query:   315 RVVDERNALKFPGRSLV 331
             + + ER     PG S V
Sbjct:   456 KEMKERRIKTRPGYSFV 472

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0080156 "mitochondrial mRNA modification" evidence=IMP

TAIR|locus:2159602 AT5G08510 "AT5G08510" [Arabidopsis thaliana (taxid:3702)]

 Score = 610 (219.8 bits), Expect = 1.7e-59, P = 1.7e-59
 Identities = 124/323 (38%), Positives = 198/323 (61%)

Query:     7 KLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNG 66
             ++FDE+ +R++  WN MITG  + G+++ A  LF+ MP +NV SWT +I G+++    + 
Sbjct:   138 RVFDEMSKRDVPVWNAMITGYQRRGDMKAAMELFDSMPRKNVTSWTTVISGFSQNGNYSE 197

Query:    67 ALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL 126
             AL +F  M   +  +P+ IT+++V PA    G++   + + GY  + GF   +I+V N  
Sbjct:   198 ALKMFLCMEKDKSVKPNHITVVSVLPACANLGELEIGRRLEGYARENGFFD-NIYVCNAT 256

Query:   127 IDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP 186
             I+ Y+KCG I  A +LFE++  +R NL SW S+I   A HG   EA+  F +M +   KP
Sbjct:   257 IEMYSKCGMIDVAKRLFEELGNQR-NLCSWNSMIGSLATHGKHDEALTLFAQMLREGEKP 315

Query:   187 NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKV 246
             + VTF+ +L AC HGG+V +G + F  M E  ++ P ++HYGC+ID+LGR G+L++A  +
Sbjct:   316 DAVTFVGLLLACVHGGMVVKGQELFKSMEEVHKISPKLEHYGCMIDLLGRVGKLQEAYDL 375

Query:   247 ASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWR 306
                +P +  + VVW TLLGACSFHGNVE+ E  +  + ++E    G+ V+M NI A   +
Sbjct:   376 IKTMPMK-PDAVVWGTLLGACSFHGNVEIAEIASEALFKLEPTNPGNCVIMSNIYAANEK 434

Query:   307 YGDAERLRRVVDERNALKFPGRS 329
             +    R+R+++ +    K  G S
Sbjct:   435 WDGVLRMRKLMKKETMTKAAGYS 457

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2154855 AT5G66520 "AT5G66520" [Arabidopsis thaliana (taxid:3702)]

 Score = 609 (219.4 bits), Expect = 2.2e-59, P = 2.2e-59
 Identities = 126/324 (38%), Positives = 196/324 (60%)

Query:     8 LFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGA 67
             LFD +PE + V+WN +I G VK G+++ A +LF +M  +N +SWT +I GY + + +  A
Sbjct:   172 LFDRIPEPDDVSWNSVIKGYVKAGKMDIALTLFRKMAEKNAISWTTMISGYVQADMNKEA 231

Query:    68 LALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLI 127
             L LF  M   +  EP  +++     A  Q G +   + IH Y  K       + +   LI
Sbjct:   232 LQLFHEMQNSD-VEPDNVSLANALSACAQLGALEQGKWIHSYLNKTRIRMDSV-LGCVLI 289

Query:   128 DTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN 187
             D YAKCG +  AL++F++I  ++K++ +WT++ISG+A HG G+EA+  F  MQK+ +KPN
Sbjct:   290 DMYAKCGEMEEALEVFKNI--KKKSVQAWTALISGYAYHGHGREAISKFMEMQKMGIKPN 347

Query:   188 RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVA 247
              +TF +VL ACS+ GLVEEG   F  M  +  + P I+HYGC++D+LGRAG L++A++  
Sbjct:   348 VITFTAVLTACSYTGLVEEGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFI 407

Query:   248 SGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRY 307
               +P +  N V+W  LL AC  H N+E+GE +   ++ ++  +GG YV   NI A   ++
Sbjct:   408 QEMPLK-PNAVIWGALLKACRIHKNIELGEEIGEILIAIDPYHGGRYVHKANIHAMDKKW 466

Query:   308 GDAERLRRVVDERNALKFPGRSLV 331
               A   RR++ E+   K PG S +
Sbjct:   467 DKAAETRRLMKEQGVAKVPGCSTI 490

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2159238 AT5G61800 "AT5G61800" [Arabidopsis thaliana (taxid:3702)]

 Score = 608 (219.1 bits), Expect = 2.7e-59, P = 2.7e-59
 Identities = 128/323 (39%), Positives = 198/323 (61%)

Query:     7 KLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNG 66
             +LFDE P+R++VT+NV+I GLVK  E+  AR LF+ MP R++VSW  +I GY +MN    
Sbjct:   173 QLFDENPQRDVVTYNVLIDGLVKAREIVRARELFDSMPLRDLVSWNSLISGYAQMNHCRE 232

Query:    67 ALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGE-KRGF-NAFHIHVSN 124
             A+ LF  MVA    +P  + I++   A  Q+GD +  + IH Y + KR F ++F   ++ 
Sbjct:   233 AIKLFDEMVALGL-KPDNVAIVSTLSACAQSGDWQKGKAIHDYTKRKRLFIDSF---LAT 288

Query:   125 CLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVL 184
              L+D YAKCG I +A+++FE  S   K L +W ++I+G AMHG G+  V+ F +M    +
Sbjct:   289 GLVDFYAKCGFIDTAMEIFELCS--DKTLFTWNAMITGLAMHGNGELTVDYFRKMVSSGI 346

Query:   185 KPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAE 244
             KP+ VTF+SVL  CSH GLV+E    FD+M    +V  ++KHYGC+ D+LGRAG +E+A 
Sbjct:   347 KPDGVTFISVLVGCSHSGLVDEARNLFDQMRSLYDVNREMKHYGCMADLLGRAGLIEEAA 406

Query:   245 KVASGIPSEITN---VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL 301
             ++   +P +  N   ++ W  LLG C  HGN+E+ E+   ++  +    GG Y +M  + 
Sbjct:   407 EMIEQMPKDGGNREKLLAWSGLLGGCRIHGNIEIAEKAANRVKALSPEDGGVYKVMVEMY 466

Query:   302 AGVWRYGDAERLRRVVDERNALK 324
             A   R+ +  ++R ++D    +K
Sbjct:   467 ANAERWEEVVKVREIIDRDKKVK 489

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2060640 OTP81 "ORGANELLE TRANSCRIPT PROCESSING 81" [Arabidopsis thaliana (taxid:3702)]

 Score = 567 (204.7 bits), Expect = 3.3e-59, Sum P(2) = 3.3e-59
 Identities = 116/330 (35%), Positives = 190/330 (57%)

Query:     2 LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRM 61
             ++D  +LFD + E++ VTW  M+ G     + E AR +   MP +++V+W  +I  Y + 
Sbjct:   283 IEDAKRLFDAMEEKDNVTWTTMLDGYAISEDYEAAREVLNSMPQKDIVAWNALISAYEQN 342

Query:    62 NRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIH 121
              + N AL +F  +   +  + ++IT+++   A  Q G +   + IH Y +K G    + H
Sbjct:   343 GKPNEALIVFHELQLQKNMKLNQITLVSTLSACAQVGALELGRWIHSYIKKHGIR-MNFH 401

Query:   122 VSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQK 181
             V++ LI  Y+KCG +  + ++F   SVE++++  W+++I G AMHG G EAV+ F +MQ+
Sbjct:   402 VTSALIHMYSKCGDLEKSREVFN--SVEKRDVFVWSAMIGGLAMHGCGNEAVDMFYKMQE 459

Query:   182 VVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLE 241
               +KPN VTF +V  ACSH GLV+E    F +M     ++P+ KHY C++D+LGR+G LE
Sbjct:   460 ANVKPNGVTFTNVFCACSHTGLVDEAESLFHQMESNYGIVPEEKHYACIVDVLGRSGYLE 519

Query:   242 QAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL 301
             +A K    +P    +  VW  LLGAC  H N+ + E    ++LE+E    G +VL+ NI 
Sbjct:   520 KAVKFIEAMPIP-PSTSVWGALLGACKIHANLNLAEMACTRLLELEPRNDGAHVLLSNIY 578

Query:   302 AGVWRYGDAERLRRVVDERNALKFPGRSLV 331
             A + ++ +   LR+ +      K PG S +
Sbjct:   579 AKLGKWENVSELRKHMRVTGLKKEPGCSSI 608

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

---

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)
Q680Z7	PPR24_ARATH	No assigned EC number	0.5927	0.9879	0.6488	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	331
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-61
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-51
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-34
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-30
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-28
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-27
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-06
pfam01535	31	pfam01535, PPR, PPR repeat	4e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-04
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.001
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.004

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

 Score =  209 bits (534), Expect = 2e-61
 Identities = 109/316 (34%), Positives = 176/316 (55%), Gaps = 9/316 (2%)

Query: 17  LVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVA 76
           +V  N +I    K   ++ A  +F  +P ++V+SWT II G    NR   AL  FR+M+ 
Sbjct: 424 VVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL 483

Query: 77  CEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCI 136
               +P+ +T++A   A  + G +   + IH +  + G   F   + N L+D Y +CG +
Sbjct: 484 --TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGI-GFDGFLPNALLDLYVRCGRM 540

Query: 137 FSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLN 196
             A   F   +   K++VSW  +++G+  HG G  AVE F RM +  + P+ VTF+S+L 
Sbjct: 541 NYAWNQF---NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLC 597

Query: 197 ACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT- 255
           ACS  G+V +GL++F  M E+  + P++KHY C++D+LGRAG+L +A    + +P  IT 
Sbjct: 598 ACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP--ITP 655

Query: 256 NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRR 315
           +  VW  LL AC  H +VE+GE   + I E++    G Y+L+ N+ A   ++ +  R+R+
Sbjct: 656 DPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRK 715

Query: 316 VVDERNALKFPGRSLV 331
            + E      PG S V
Sbjct: 716 TMRENGLTVDPGCSWV 731

Length = 857

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

 Score =  179 bits (456), Expect = 4e-51
 Identities = 95/286 (33%), Positives = 149/286 (52%), Gaps = 13/286 (4%)

Query: 29  KWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRM----VACEYTEPSE 84
           K G++E AR +F+ MP +  V+W  ++ GY     S  AL L+  M    V+ +    S 
Sbjct: 271 KCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFS- 329

Query: 85  ITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFE 144
             ++ +F  +     + + +  H    + GF    I  +  L+D Y+K G +  A  +F+
Sbjct: 330 -IMIRIFSRL---ALLEHAKQAHAGLIRTGF-PLDIVANTALVDLYSKWGRMEDARNVFD 384

Query: 145 DISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLV 204
            +   RKNL+SW ++I+G+  HG G +AVE FERM    + PN VTFL+VL+AC + GL 
Sbjct: 385 RMP--RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLS 442

Query: 205 EEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLL 264
           E+G + F  M E   + P   HY C+I++LGR G L++A  +    P     V +W  LL
Sbjct: 443 EQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPF-KPTVNMWAALL 501

Query: 265 GACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDA 310
            AC  H N+E+G     K+  M      +YV++ N+     R  +A
Sbjct: 502 TACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEA 547

Length = 697

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

 Score =  131 bits (331), Expect = 6e-34
 Identities = 80/255 (31%), Positives = 133/255 (52%), Gaps = 8/255 (3%)

Query: 21  NVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYT 80
           N +IT  VK G++  AR +F+ MP R+ +SW  +I GY         L LF  M      
Sbjct: 226 NALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELS-V 284

Query: 81  EPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSAL 140
           +P  +TI +V  A    GD R  + +HGY  K GF A  + V N LI  Y   G    A 
Sbjct: 285 DPDLMTITSVISACELLGDERLGREMHGYVVKTGF-AVDVSVCNSLIQMYLSLGSWGEAE 343

Query: 141 KLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSH 200
           K+F    +E K+ VSWT++ISG+  +G+  +A+E +  M++  + P+ +T  SVL+AC+ 
Sbjct: 344 KVFS--RMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACAC 401

Query: 201 GGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVW 260
            G ++ G+K   ++ E   ++  +     LI+M  +   +++A +V   IP +  +V+ W
Sbjct: 402 LGDLDVGVK-LHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK--DVISW 458

Query: 261 RTLL-GACSFHGNVE 274
            +++ G    +   E
Sbjct: 459 TSIIAGLRLNNRCFE 473

Length = 857

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

 Score =  120 bits (302), Expect = 4e-30
 Identities = 85/283 (30%), Positives = 126/283 (44%), Gaps = 37/283 (13%)

Query: 14  ERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRR 73
           E +    N ++   VK G L  AR LF+EMP RN+ SW  II G         A ALFR 
Sbjct: 155 EPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFRE 214

Query: 74  MVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGF--NAFHIHVSNCLIDTYA 131
           M   + ++    T + +  A    G  R  Q +H    K G   + F   VS  LID Y+
Sbjct: 215 MWE-DGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTF---VSCALIDMYS 270

Query: 132 KCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTF 191
           KCG I  A  +F+   +  K  V+W S+++G+A+HG  +EA+  +  M+   +  ++ TF
Sbjct: 271 KCGDIEDARCVFD--GMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTF 328

Query: 192 LSVLNACS-----------HGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL 240
             ++   S           H GL+  G               DI     L+D+  + GR+
Sbjct: 329 SIMIRIFSRLALLEHAKQAHAGLIRTGFPL------------DIVANTALVDLYSKWGRM 376

Query: 241 EQAEKVASGIPSEITNVVVWRTLLGACSFHGN----VEMGERV 279
           E A  V   +P    N++ W  L+     HG     VEM ER+
Sbjct: 377 EDARNVFDRMP--RKNLISWNALIAGYGNHGRGTKAVEMFERM 417

Length = 697

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

 Score =  114 bits (287), Expect = 4e-28
 Identities = 74/257 (28%), Positives = 126/257 (49%), Gaps = 19/257 (7%)

Query: 21  NVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACE-- 78
           N M++  V++GEL +A  +F +MP R++ SW  ++ GY +    + AL L+ RM+     
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 79  ---YTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGC 135
              YT P  +      P      D+   + +H +  + GF    + V N LI  Y KCG 
Sbjct: 185 PDVYTFPCVLRTCGGIP------DLARGREVHAHVVRFGF-ELDVDVVNALITMYVKCGD 237

Query: 136 IFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVL 195
           + SA  +F+   + R++ +SW ++ISG+  +G   E +E F  M+++ + P+ +T  SV+
Sbjct: 238 VVSARLVFD--RMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVI 295

Query: 196 NACSHGGLVEEGL-KFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEI 254
           +AC    L +E L +     V +     D+     LI M    G   +AEKV S +  E 
Sbjct: 296 SAC--ELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM--ET 351

Query: 255 TNVVVWRTLLGACSFHG 271
            + V W  ++     +G
Sbjct: 352 KDAVSWTAMISGYEKNG 368

Length = 857

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

 Score =  111 bits (280), Expect = 3e-27
 Identities = 80/285 (28%), Positives = 129/285 (45%), Gaps = 40/285 (14%)

Query: 3   KDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMN 62
            +  K+F  +  ++ V+W  MI+G  K G  + A                  ++ Y  M 
Sbjct: 340 GEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKA------------------LETYALME 381

Query: 63  RSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHV 122
           + N                P EITI +V  A    GD+     +H   E++G  ++ + V
Sbjct: 382 QDN--------------VSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVV-V 426

Query: 123 SNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKV 182
           +N LI+ Y+KC CI  AL++F +I    K+++SWTSII+G  ++    EA+  F +M  +
Sbjct: 427 ANALIEMYSKCKCIDKALEVFHNIP--EKDVISWTSIIAGLRLNNRCFEALIFFRQM-LL 483

Query: 183 VLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQ 242
            LKPN VT ++ L+AC+  G +  G K     V    +  D      L+D+  R GR+  
Sbjct: 484 TLKPNSVTLIAALSACARIGALMCG-KEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNY 542

Query: 243 AEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEME 287
           A    +   S   +VV W  LL     HG   M   +  +++E  
Sbjct: 543 A---WNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESG 584

Length = 857

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

 Score = 48.9 bits (118), Expect = 3e-08
 Identities = 13/50 (26%), Positives = 29/50 (58%)

Query: 151 KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSH 200
            ++V++ ++I G+   G  +EA++ F  M+K  +KPN  T+  +++    
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 48.6 bits (117), Expect = 5e-08
 Identities = 19/47 (40%), Positives = 29/47 (61%), Gaps = 4/47 (8%)

Query: 16 NLVTWNVMITGLVKWGELEYARSLFEEMPCR----NVVSWTGIIDGY 58
          ++VT+N +I G  K G++E A  LF EM  R    NV +++ +IDG 
Sbjct: 2  DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 53.7 bits (129), Expect = 7e-08
 Identities = 40/160 (25%), Positives = 73/160 (45%), Gaps = 17/160 (10%)

Query: 126 LIDTYAKCGCIFSALKLFEDISVE--RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVV 183
           LI T AK G + +  ++F ++       N+ ++ ++I G A  G   +A   +  M+   
Sbjct: 478 LISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKN 537

Query: 184 LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECE-VLPDIKHYGCLIDMLGRAGRLEQ 242
           +KP+RV F ++++AC   G V+       +M  E   + PD    G L+     AG++++
Sbjct: 538 VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDR 597

Query: 243 AEKV--------ASGIPSEITNVVVWRTLLGACSFHGNVE 274
           A++V          G P   T  V       +CS  G+ +
Sbjct: 598 AKEVYQMIHEYNIKGTPEVYTIAV------NSCSQKGDWD 631

Length = 1060

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

 Score = 53.3 bits (128), Expect = 1e-07
 Identities = 39/171 (22%), Positives = 73/171 (42%), Gaps = 13/171 (7%)

Query: 122 VSNCLIDTYAKCGCIFSALKLFEDISVERKNL----VSWTSIISGFAMHGMGKEAVENFE 177
           V N LI    + G +  A  +  ++  E   +    ++  +++   A  G    A E ++
Sbjct: 544 VFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQ 603

Query: 178 RMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRA 237
            + +  +K     +   +N+CS  G  +  L  +D M ++  V PD   +  L+D+ G A
Sbjct: 604 MIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK-GVKPDEVFFSALVDVAGHA 662

Query: 238 GRLEQA-----EKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKI 283
           G L++A     +    GI       V + +L+GACS   N +    +   I
Sbjct: 663 GDLDKAFEILQDARKQGIKLGT---VSYSSLMGACSNAKNWKKALELYEDI 710

Length = 1060

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

 Score = 49.1 bits (117), Expect = 2e-06
 Identities = 63/279 (22%), Positives = 121/279 (43%), Gaps = 25/279 (8%)

Query: 14  ERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNV----VSWTGIIDGYTRMNRSNGALA 69
           E N+ T+  +I G  + G++  A   +  M  +NV    V +  +I    +    + A  
Sbjct: 504 EANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFD 563

Query: 70  LFRRMVACEYT--EPSEITILAVFPAIWQNGDVRNC----QLIHGYGEKRGFNAFHIHVS 123
           +   M A E    +P  IT+ A+  A    G V       Q+IH Y  K     + I V+
Sbjct: 564 VLAEMKA-ETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVN 622

Query: 124 NCLIDTYAKCGCIFSALKLFEDISVERKNLVS---WTSIISGFAMH-GMGKEAVENFERM 179
           +C     ++ G    AL +++D+   +K +     + S +   A H G   +A E  +  
Sbjct: 623 SC-----SQKGDWDFALSIYDDMK--KKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA 675

Query: 180 QKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR 239
           +K  +K   V++ S++ ACS+    ++ L+ ++  ++  ++ P +     LI  L    +
Sbjct: 676 RKQGIKLGTVSYSSLMGACSNAKNWKKALELYED-IKSIKLRPTVSTMNALITALCEGNQ 734

Query: 240 LEQAEKVASGIPSE--ITNVVVWRTLLGACSFHGNVEMG 276
           L +A +V S +       N + +  LL A     + ++G
Sbjct: 735 LPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVG 773

Length = 1060

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

 Score = 42.4 bits (101), Expect = 7e-06
 Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 1/51 (1%)

Query: 186 PNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGR 236
           P+ VT+ ++++     G VEE LK F++M +   + P++  Y  LID L +
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKR-GIKPNVYTYSILIDGLCK 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|144943 pfam01535, PPR, PPR repeat

 Score = 39.7 bits (94), Expect = 4e-05
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 18 VTWNVMITGLVKWGELEYARSLFEEMPCRNV 48
          VT+N +I+G  K G+LE A  LF+EM  + V
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 38.6 bits (91), Expect = 1e-04
 Identities = 15/32 (46%), Positives = 20/32 (62%)

Query: 18 VTWNVMITGLVKWGELEYARSLFEEMPCRNVV 49
          VT+N +I GL K G +E A  LF+EM  R + 
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32

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

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

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 48/197 (24%), Positives = 78/197 (39%), Gaps = 47/197 (23%)

Query: 117 AFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSII-SGFAMHGMGKEAVEN 175
             +I   N L+    + G I   + L ED+  E++ L+    I  + F      + AV+ 
Sbjct: 371 PEYIDAYNRLL----RDGRIKDCIDLLEDM--EKRGLLDMDKIYHAKFFKACKKQRAVKE 424

Query: 176 FERMQKVVLKPNRVTFLSVLNACSHG----------GLVEE-GLK----FFDKMVEEC-- 218
             R  K++  P   TF  +++ C+             LV+E GLK     +  ++  C  
Sbjct: 425 AFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAK 484

Query: 219 -----------------EVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNV---- 257
                             V  ++  +G LID   RAG++ +A   A GI     NV    
Sbjct: 485 SGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFG-AYGIMRS-KNVKPDR 542

Query: 258 VVWRTLLGACSFHGNVE 274
           VV+  L+ AC   G V+
Sbjct: 543 VVFNALISACGQSGAVD 559

Length = 1060

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

 Score = 37.4 bits (88), Expect = 4e-04
 Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 1/40 (2%)

Query: 47 NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEIT 86
          +VV++  +IDGY +  +   AL LF  M      +P+  T
Sbjct: 2  DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGI-KPNVYT 40

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

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

 Score = 39.9 bits (93), Expect = 0.001
 Identities = 16/48 (33%), Positives = 25/48 (52%)

Query: 2   LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVV 49
           ++D   +FD +P +NL++WN +I G    G    A  +FE M    V 
Sbjct: 376 MEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVA 423

Length = 697

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

 Score = 35.5 bits (83), Expect = 0.001
 Identities = 11/28 (39%), Positives = 20/28 (71%)

Query: 154 VSWTSIISGFAMHGMGKEAVENFERMQK 181
           V++ S+ISG+   G  +EA+E F+ M++
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKE 28

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

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

 Score = 35.8 bits (84), Expect = 0.001
 Identities = 11/31 (35%), Positives = 20/31 (64%)

Query: 14 ERNLVTWNVMITGLVKWGELEYARSLFEEMP 44
          + ++VT+N +I GL + G ++ A  L +EM 
Sbjct: 4  KPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 34.3 bits (80), Expect = 0.004
 Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 4/44 (9%)

Query: 124 NCLIDTYAKCGCIFSALKLFEDISVERK---NLVSWTSIISGFA 164
           N LID Y K G +  ALKLF ++  +R    N+ +++ +I G  
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEM-KKRGIKPNVYTYSILIDGLC 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	331
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.96
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	99.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.91
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.9
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.89
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.89
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	99.86
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.84
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.82
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.81
KOG2076	895	consensus RNA polymerase III transcription factor	99.8
KOG1126	638	consensus DNA-binding cell division cycle control	99.79
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.78
PRK14574	822	hmsH outer membrane protein; Provisional	99.78
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.77
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.76
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.76
KOG1126	638	consensus DNA-binding cell division cycle control	99.75
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.75
PRK14574	822	hmsH outer membrane protein; Provisional	99.74
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.73
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.72
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.71
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.71
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.67
PRK12370	553	invasion protein regulator; Provisional	99.66
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.66
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.65
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.65
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.65
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.65
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.65
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.64
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.64
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.64
PRK11189	296	lipoprotein NlpI; Provisional	99.63
KOG1129	478	consensus TPR repeat-containing protein [General f	99.63
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.62
KOG2003	840	consensus TPR repeat-containing protein [General f	99.62
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.62
PRK12370	553	invasion protein regulator; Provisional	99.59
KOG2076	895	consensus RNA polymerase III transcription factor	99.58
KOG1129	478	consensus TPR repeat-containing protein [General f	99.57
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.56
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.53
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.53
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.52
PRK11189	296	lipoprotein NlpI; Provisional	99.5
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.5
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.49
KOG2003	840	consensus TPR repeat-containing protein [General f	99.49
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.48
PF13041	50	PPR_2: PPR repeat family	99.48
KOG1125	579	consensus TPR repeat-containing protein [General f	99.48
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.47
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.45
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.43
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.4
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.39
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.39
PF13041	50	PPR_2: PPR repeat family	99.39
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.38
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.36
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.35
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.29
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.28
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.28
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.28
KOG1125	579	consensus TPR repeat-containing protein [General f	99.24
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.24
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.19
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.19
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.17
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.15
PLN02789	320	farnesyltranstransferase	99.14
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.13
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.12
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.11
PLN02789	320	farnesyltranstransferase	99.08
PRK04841	903	transcriptional regulator MalT; Provisional	99.08
PRK15359	144	type III secretion system chaperone protein SscB;	99.07
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.07
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.07
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.06
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	99.05
PRK14720	906	transcript cleavage factor/unknown domain fusion p	99.03
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.03
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.03
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.0
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	99.0
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.0
PRK15359	144	type III secretion system chaperone protein SscB;	98.99
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.99
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.98
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.98
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.98
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.98
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.98
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.97
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.97
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.95
PRK04841	903	transcriptional regulator MalT; Provisional	98.94
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.93
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.89
PF12854	34	PPR_1: PPR repeat	98.88
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.86
PF12854	34	PPR_1: PPR repeat	98.85
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.84
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.83
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.83
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.82
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.81
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.81
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.77
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.76
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.73
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.73
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.73
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.72
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.71
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.66
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.65
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.64
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.63
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.59
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.58
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.58
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.53
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.49
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.47
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.46
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.43
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.43
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.42
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.41
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.4
KOG0553	304	consensus TPR repeat-containing protein [General f	98.4
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.39
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.37
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.37
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.37
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.36
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.36
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.35
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.33
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	98.33
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.32
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.3
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.28
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.28
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.28
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.27
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.24
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.24
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.22
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.21
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.19
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.18
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.17
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.16
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.15
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.14
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.12
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	98.12
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.1
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.1
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.08
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.07
KOG0553	304	consensus TPR repeat-containing protein [General f	98.06
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.04
PF12688	120	TPR_5: Tetratrico peptide repeat	98.04
COG3898	531	Uncharacterized membrane-bound protein [Function u	98.02
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.0
PRK15331	165	chaperone protein SicA; Provisional	97.97
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.97
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.94
PF12688	120	TPR_5: Tetratrico peptide repeat	97.94
PF13371	73	TPR_9: Tetratricopeptide repeat	97.94
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.93
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.93
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.92
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.91
PRK10803	263	tol-pal system protein YbgF; Provisional	97.9
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.85
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.85
PRK10803	263	tol-pal system protein YbgF; Provisional	97.83
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.81
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.8
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.8
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.77
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.77
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.75
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.74
PF13371	73	TPR_9: Tetratricopeptide repeat	97.74
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.69
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.68
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.65
PF13428	44	TPR_14: Tetratricopeptide repeat	97.57
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.56
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.54
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.52
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.5
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.5
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.49
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.41
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.4
PRK15331	165	chaperone protein SicA; Provisional	97.39
PF13431	34	TPR_17: Tetratricopeptide repeat	97.37
COG0457	291	NrfG FOG: TPR repeat [General function prediction	97.35
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.33
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.29
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.28
COG0457	291	NrfG FOG: TPR repeat [General function prediction	97.27
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.26
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.25
KOG1585	308	consensus Protein required for fusion of vesicles	97.25
PF13512	142	TPR_18: Tetratricopeptide repeat	97.24
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	97.22
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.18
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	97.17
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.17
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.14
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.1
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.07
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.06
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	97.06
PRK11906	458	transcriptional regulator; Provisional	97.01
COG3118	304	Thioredoxin domain-containing protein [Posttransla	97.0
KOG4555	175	consensus TPR repeat-containing protein [Function	96.91
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.88
PF13512	142	TPR_18: Tetratricopeptide repeat	96.88
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	96.86
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.85
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.85
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.84
KOG1585	308	consensus Protein required for fusion of vesicles	96.84
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.83
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.8
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	96.79
PRK11906	458	transcriptional regulator; Provisional	96.76
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.67
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	96.65
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.64
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	96.62
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.61
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.59
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	96.58
PF13428	44	TPR_14: Tetratricopeptide repeat	96.52
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.52
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.46
KOG4555	175	consensus TPR repeat-containing protein [Function	96.43
COG1747	711	Uncharacterized N-terminal domain of the transcrip	96.36
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.32
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.24
KOG4234	271	consensus TPR repeat-containing protein [General f	96.19
KOG3941	406	consensus Intermediate in Toll signal transduction	96.15
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.05
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	96.0
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	95.97
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	95.93
PRK09687	280	putative lyase; Provisional	95.92
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.91
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.9
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.88
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.87
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.83
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.83
KOG1586	288	consensus Protein required for fusion of vesicles	95.82
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.8
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.8
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.73
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.71
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.54
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	95.54
PF13431	34	TPR_17: Tetratricopeptide repeat	95.54
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.49
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.43
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.37
KOG1258	577	consensus mRNA processing protein [RNA processing	95.35
COG1747	711	Uncharacterized N-terminal domain of the transcrip	95.33
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.31
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.2
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.89
KOG4648	536	consensus Uncharacterized conserved protein, conta	94.87
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	94.86
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.85
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.84
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	94.67
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.62
KOG4234	271	consensus TPR repeat-containing protein [General f	94.58
KOG4648	536	consensus Uncharacterized conserved protein, conta	94.57
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	94.55
COG3947	361	Response regulator containing CheY-like receiver a	94.41
PRK11619	644	lytic murein transglycosylase; Provisional	94.4
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.31
KOG3941	406	consensus Intermediate in Toll signal transduction	94.27
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.25
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	94.13
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	94.09
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.07
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	94.04
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	93.21
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.2
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.16
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.87
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	92.84
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	92.78
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.73
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	92.69
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.53
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	92.47
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.3
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	92.29
KOG1258	577	consensus mRNA processing protein [RNA processing	92.24
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	92.18
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	91.92
PF13929	292	mRNA_stabil: mRNA stabilisation	91.82
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	91.76
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.72
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	91.7
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	91.64
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.51
PRK10941	269	hypothetical protein; Provisional	91.37
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	91.28
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.12
PRK09687	280	putative lyase; Provisional	91.04
COG4455	273	ImpE Protein of avirulence locus involved in tempe	90.91
KOG1550	552	consensus Extracellular protein SEL-1 and related	90.89
COG4455	273	ImpE Protein of avirulence locus involved in tempe	90.72
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	90.57
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	90.22
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	90.05
KOG4507	886	consensus Uncharacterized conserved protein, conta	89.57
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.48
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	89.46
PF13929	292	mRNA_stabil: mRNA stabilisation	89.42
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	87.67
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	87.35
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	87.06
PF09477	116	Type_III_YscG: Bacterial type II secretion system	86.89
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	86.84
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	86.38
COG5159	421	RPN6 26S proteasome regulatory complex component [	86.36
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	86.17
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	85.99
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	85.81
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	85.68
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	85.66
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	85.55
KOG4507	886	consensus Uncharacterized conserved protein, conta	85.38
KOG1586	288	consensus Protein required for fusion of vesicles	85.28
KOG2300	629	consensus Uncharacterized conserved protein [Funct	85.08
PRK10941	269	hypothetical protein; Provisional	85.02
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	84.7
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	84.41
KOG2908	380	consensus 26S proteasome regulatory complex, subun	84.23
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	84.01
KOG3364	149	consensus Membrane protein involved in organellar	83.97
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	83.52
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	83.26
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	83.17
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	83.16
KOG1550	552	consensus Extracellular protein SEL-1 and related	82.54
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	81.58
KOG4279	1226	consensus Serine/threonine protein kinase [Signal	81.18
KOG0551	390	consensus Hsp90 co-chaperone CNS1 (contains TPR re	80.89
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	80.71
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	80.51
KOG2062	929	consensus 26S proteasome regulatory complex, subun	80.21

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

Probab=100.00  E-value=2.9e-56  Score=398.96  Aligned_cols=312  Identities=30%  Similarity=0.542  Sum_probs=301.3

Q ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHH
Q 048799           15 RNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAI   94 (331)
Q Consensus        15 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~   94 (331)
                      ||..+|++|+++|++.|++++|.++|++|.++|+.+||.++.+|++.|++++|+++|++| ...|+.||..||+.++.+|
T Consensus       257 ~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M-~~~g~~pd~~t~~~ll~a~  335 (697)
T PLN03081        257 GDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEM-RDSGVSIDQFTFSIMIRIF  335 (697)
T ss_pred             ccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHH
Confidence            456677889999999999999999999999999999999999999999999999999999 7788999999999999999


Q ss_pred             hhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHH
Q 048799           95 WQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVE  174 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  174 (331)
                      ++.|++++|.+++..+.+.|..| +..+++.|+++|++.|++++|.++|++|.  .||..+||.+|.+|++.|+.++|++
T Consensus       336 ~~~g~~~~a~~i~~~m~~~g~~~-d~~~~~~Li~~y~k~G~~~~A~~vf~~m~--~~d~~t~n~lI~~y~~~G~~~~A~~  412 (697)
T PLN03081        336 SRLALLEHAKQAHAGLIRTGFPL-DIVANTALVDLYSKWGRMEDARNVFDRMP--RKNLISWNALIAGYGNHGRGTKAVE  412 (697)
T ss_pred             HhccchHHHHHHHHHHHHhCCCC-CeeehHHHHHHHHHCCCHHHHHHHHHhCC--CCCeeeHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999999999999 99999999999999999999999999995  5899999999999999999999999


Q ss_pred             HHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCC
Q 048799          175 NFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEI  254 (331)
Q Consensus       175 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  254 (331)
                      +|++|.+.|+.||..||+.++.+|++.|..++|.++|+.|.+.+|+.|+..+|+.++++|++.|++++|.++++++... 
T Consensus       413 lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~-  491 (697)
T PLN03081        413 MFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFK-  491 (697)
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCC-
Confidence            9999999999999999999999999999999999999999886799999999999999999999999999999998654 


Q ss_pred             ccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccccCCCCCCCC
Q 048799          255 TNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKFPGRSLV  331 (331)
Q Consensus       255 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~sw~  331 (331)
                      |+..+|+.++.+|...|+++.|..+++++.+..|++...|..++.+|.+.|++++|.++++.|++.|+.+.||+|||
T Consensus       492 p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i  568 (697)
T PLN03081        492 PTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWI  568 (697)
T ss_pred             CCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEE
Confidence            99999999999999999999999999999999999889999999999999999999999999999999999999996

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.9e-53  Score=382.60  Aligned_cols=321  Identities=15%  Similarity=0.186  Sum_probs=214.3

Q ss_pred             ccchhHHhhhcC----CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC----CCCchhHHHHHHHHHhcCChhHHHHHHHH
Q 048799            2 LKDGSKLFDELP----ERNLVTWNVMITGLVKWGELEYARSLFEEMP----CRNVVSWTGIIDGYTRMNRSNGALALFRR   73 (331)
Q Consensus         2 ~~~A~~~~~~~~----~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   73 (331)
                      ++.|.++|++|.    .||..+|+.+|.+|++.|++++|.++|++|.    .||..+|+.+|.+|++.|++++|.++|++
T Consensus       453 ~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~  532 (1060)
T PLN03218        453 IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGI  532 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            445666666654    4666666666666666666666666666665    35666666666666666666666666666


Q ss_pred             HHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhh--cCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc--
Q 048799           74 MVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEK--RGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE--  149 (331)
Q Consensus        74 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--  149 (331)
                      | ...|+.||..+|+.++.+|++.|++++|.++|++|.+  .|+.| |..+|+.++.+|++.|++++|.++|+.|.+.  
T Consensus       533 M-~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~P-D~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi  610 (1060)
T PLN03218        533 M-RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDP-DHITVGALMKACANAGQVDRAKEVYQMIHEYNI  610 (1060)
T ss_pred             H-HHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            6 5556666666666666666666666666666666654  44555 6666666666666666666666666666555  


Q ss_pred             CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHH
Q 048799          150 RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGC  229 (331)
Q Consensus       150 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  229 (331)
                      .|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++++|.+. |+.|+..+|+.
T Consensus       611 ~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~-G~~pd~~tyns  689 (1060)
T PLN03218        611 KGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ-GIKLGTVSYSS  689 (1060)
T ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHHHHHH
Confidence            35666666666666667777777777777766666677777777777777777777777777777666 66777777777


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcccC--CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHh--hcCCCccHHHHHHHHhhhc
Q 048799          230 LIDMLGRAGRLEQAEKVASGIPSE--ITNVVVWRTLLGACSFHGNVEMGERVTRKILEM--ERGYGGDYVLMYNILAGVW  305 (331)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g  305 (331)
                      ++.+|++.|++++|.++|++|...  .|+..+|+.||.+|++.|++++|.++|++|.+.  .|+. .+|..++.+|.+.|
T Consensus       690 LI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~-~Ty~sLL~a~~k~G  768 (1060)
T PLN03218        690 LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT-ITYSILLVASERKD  768 (1060)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHCC
Confidence            777777777777777777766544  566777777777777777777777777776653  2333 66667777777777


Q ss_pred             cCcchHHHHHHHhhccccCCC
Q 048799          306 RYGDAERLRRVVDERNALKFP  326 (331)
Q Consensus       306 ~~~~a~~~~~~~~~~~~~~~~  326 (331)
                      +.++|.++++.|.+.|+.|+.
T Consensus       769 ~le~A~~l~~~M~k~Gi~pd~  789 (1060)
T PLN03218        769 DADVGLDLLSQAKEDGIKPNL  789 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCCH
Confidence            777777777777776666553

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.1e-53  Score=380.56  Aligned_cols=321  Identities=17%  Similarity=0.237  Sum_probs=305.8

Q ss_pred             ccchhHHhhhcCCchHHHHHHHHHHHHHcCCHHHHHHHHhhCC----CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 048799            2 LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMP----CRNVVSWTGIIDGYTRMNRSNGALALFRRMVAC   77 (331)
Q Consensus         2 ~~~A~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   77 (331)
                      +++|.++|+.|..||..+|+.++.+|++.|+++.|.++|++|.    .||..+|+.||.+|++.|++++|.++|++| ..
T Consensus       422 ~~eAl~lf~~M~~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM-~~  500 (1060)
T PLN03218        422 VKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM-VN  500 (1060)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHH-HH
Confidence            4678889999999999999999999999999999999999997    589999999999999999999999999999 77


Q ss_pred             cCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc----CCcH
Q 048799           78 EYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE----RKNL  153 (331)
Q Consensus        78 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~  153 (331)
                      .|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.| |..+|+.++.+|++.|++++|.++|++|...    .|+.
T Consensus       501 ~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~P-D~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~  579 (1060)
T PLN03218        501 AGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKP-DRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDH  579 (1060)
T ss_pred             cCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcH
Confidence            8899999999999999999999999999999999999999 9999999999999999999999999999752    6899


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHH
Q 048799          154 VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDM  233 (331)
Q Consensus       154 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  233 (331)
                      .+|+.+|.+|++.|++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+. |+.||..+|+.++.+
T Consensus       580 vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~-Gv~PD~~TynsLI~a  658 (1060)
T PLN03218        580 ITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK-GVKPDEVFFSALVDV  658 (1060)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999998 999999999999999


Q ss_pred             HHhcCCHHHHHHHHhhcccC--CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHh--hcCCCccHHHHHHHHhhhccCcc
Q 048799          234 LGRAGRLEQAEKVASGIPSE--ITNVVVWRTLLGACSFHGNVEMGERVTRKILEM--ERGYGGDYVLMYNILAGVWRYGD  309 (331)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~  309 (331)
                      |++.|++++|.++++.|.+.  .|+..+|+.+|.+|++.|++++|.++|++|.+.  .|+ ..+|..++.+|++.|++++
T Consensus       659 ~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~Pd-vvtyN~LI~gy~k~G~~ee  737 (1060)
T PLN03218        659 AGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPT-VSTMNALITALCEGNQLPK  737 (1060)
T ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHCCCHHH
Confidence            99999999999999999987  899999999999999999999999999999874  454 4889999999999999999


Q ss_pred             hHHHHHHHhhccccCCC
Q 048799          310 AERLRRVVDERNALKFP  326 (331)
Q Consensus       310 a~~~~~~~~~~~~~~~~  326 (331)
                      |.++|++|.+.|+.|+.
T Consensus       738 Alelf~eM~~~Gi~Pd~  754 (1060)
T PLN03218        738 ALEVLSEMKRLGLCPNT  754 (1060)
T ss_pred             HHHHHHHHHHcCCCCCH
Confidence            99999999999988764

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=5.4e-53  Score=386.27  Aligned_cols=326  Identities=34%  Similarity=0.643  Sum_probs=299.9

Q ss_pred             cchhHHhhhcC----CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhcc
Q 048799            3 KDGSKLFDELP----ERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACE   78 (331)
Q Consensus         3 ~~A~~~~~~~~----~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   78 (331)
                      +.|.+++..+.    .||..+|+.|+.+|++.|++++|.++|++|..||..+|+.++.+|++.|++++|+++|++| ...
T Consensus       305 ~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M-~~~  383 (857)
T PLN03077        305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALM-EQD  383 (857)
T ss_pred             HHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHH-HHh
Confidence            34555555543    5788889999999999999999999999999999999999999999999999999999999 778


Q ss_pred             CCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc---------
Q 048799           79 YTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE---------  149 (331)
Q Consensus        79 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---------  149 (331)
                      |+.||..||+.++.+|++.|+++.|.++++.+.+.|..+ +..+++.|+.+|++.|++++|.++|++|...         
T Consensus       384 g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~-~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi  462 (857)
T PLN03077        384 NVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLIS-YVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSII  462 (857)
T ss_pred             CCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHH
Confidence            899999999999999999999999999999999999988 8889999999999999888888888876431         


Q ss_pred             --------------------------------------------------------------------------------
Q 048799          150 --------------------------------------------------------------------------------  149 (331)
Q Consensus       150 --------------------------------------------------------------------------------  149 (331)
                                                                                                      
T Consensus       463 ~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~  542 (857)
T PLN03077        463 AGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNY  542 (857)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHH
Confidence                                                                                            


Q ss_pred             --------CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCC
Q 048799          150 --------RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVL  221 (331)
Q Consensus       150 --------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  221 (331)
                              .+|..+||.+|.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+.+|+.
T Consensus       543 A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~  622 (857)
T PLN03077        543 AWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSIT  622 (857)
T ss_pred             HHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCC
Confidence                    245667889999999999999999999999999999999999999999999999999999999999666999


Q ss_pred             CcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHH
Q 048799          222 PDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL  301 (331)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  301 (331)
                      |+..+|+.++.+|++.|++++|.+++++|.- .|+..+|+.|+.+|...|+.+.++.+.+++.++.|++...|..+...|
T Consensus       623 P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~-~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~y  701 (857)
T PLN03077        623 PNLKHYACVVDLLGRAGKLTEAYNFINKMPI-TPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLY  701 (857)
T ss_pred             CchHHHHHHHHHHHhCCCHHHHHHHHHHCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHH
Confidence            9999999999999999999999999999964 499999999999999999999999999999999999999999999999


Q ss_pred             hhhccCcchHHHHHHHhhccccCCCCCCCC
Q 048799          302 AGVWRYGDAERLRRVVDERNALKFPGRSLV  331 (331)
Q Consensus       302 ~~~g~~~~a~~~~~~~~~~~~~~~~~~sw~  331 (331)
                      ...|+|++|.++.+.|++.|+.+.||+|||
T Consensus       702 a~~g~~~~a~~vr~~M~~~g~~k~~g~s~i  731 (857)
T PLN03077        702 ADAGKWDEVARVRKTMRENGLTVDPGCSWV  731 (857)
T ss_pred             HHCCChHHHHHHHHHHHHcCCCCCCCccEE
Confidence            999999999999999999999999999997

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

Probab=100.00  E-value=1.7e-50  Score=361.91  Aligned_cols=317  Identities=25%  Similarity=0.356  Sum_probs=299.3

Q ss_pred             ccchhHHhhhcC----CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 048799            2 LKDGSKLFDELP----ERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVAC   77 (331)
Q Consensus         2 ~~~A~~~~~~~~----~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   77 (331)
                      ++.|.+++..|.    .||..+|+.++.+|++.|+++.|.++|++|.+||..+||.++.+|++.|++++|+++|++| ..
T Consensus       139 ~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M-~~  217 (697)
T PLN03081        139 IRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREM-WE  217 (697)
T ss_pred             HHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHH-HH
Confidence            355677777775    6899999999999999999999999999999999999999999999999999999999999 67


Q ss_pred             cCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHH
Q 048799           78 EYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWT  157 (331)
Q Consensus        78 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  157 (331)
                      .|+.|+..+|+.++.+|+..|+.+.+.+++..+.+.|..+ +..+++.|+.+|++.|++++|.++|++|.  .++..+||
T Consensus       218 ~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~-d~~~~n~Li~~y~k~g~~~~A~~vf~~m~--~~~~vt~n  294 (697)
T PLN03081        218 DGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVG-DTFVSCALIDMYSKCGDIEDARCVFDGMP--EKTTVAWN  294 (697)
T ss_pred             hCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCc-cceeHHHHHHHHHHCCCHHHHHHHHHhCC--CCChhHHH
Confidence            7899999999999999999999999999999999999999 99999999999999999999999999994  57999999


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhc
Q 048799          158 SIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRA  237 (331)
Q Consensus       158 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  237 (331)
                      .+|.+|++.|++++|+++|++|...|+.||..||+.++.+|++.|++++|.+++..|.+. |++||..+++.|+.+|++.
T Consensus       295 ~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~-g~~~d~~~~~~Li~~y~k~  373 (697)
T PLN03081        295 SMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT-GFPLDIVANTALVDLYSKW  373 (697)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHh-CCCCCeeehHHHHHHHHHC
Confidence            999999999999999999999999999999999999999999999999999999999999 9999999999999999999


Q ss_pred             CCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHh--hcCCCccHHHHHHHHhhhccCcchHHHHH
Q 048799          238 GRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEM--ERGYGGDYVLMYNILAGVWRYGDAERLRR  315 (331)
Q Consensus       238 g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  315 (331)
                      |++++|.++|++|.+  ||..+|+.||.+|++.|+.++|.++|++|.+.  .|+. .+|..++.+|.+.|..++|.++|+
T Consensus       374 G~~~~A~~vf~~m~~--~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~-~T~~~ll~a~~~~g~~~~a~~~f~  450 (697)
T PLN03081        374 GRMEDARNVFDRMPR--KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNH-VTFLAVLSACRYSGLSEQGWEIFQ  450 (697)
T ss_pred             CCHHHHHHHHHhCCC--CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHH
Confidence            999999999999986  69999999999999999999999999999984  4554 889999999999999999999999


Q ss_pred             HHhh-ccccCCC
Q 048799          316 VVDE-RNALKFP  326 (331)
Q Consensus       316 ~~~~-~~~~~~~  326 (331)
                      .|.+ .|+.|+.
T Consensus       451 ~m~~~~g~~p~~  462 (697)
T PLN03081        451 SMSENHRIKPRA  462 (697)
T ss_pred             HHHHhcCCCCCc
Confidence            9986 4777654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8.1e-48  Score=352.28  Aligned_cols=304  Identities=26%  Similarity=0.393  Sum_probs=283.3

Q ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHH
Q 048799           15 RNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAI   94 (331)
Q Consensus        15 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~   94 (331)
                      ||..+|++|+.+|++.|++++|.++|++|+.||..+||++|.+|++.|++++|+++|++| ...|+.||..||+.++.+|
T Consensus       220 ~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M-~~~g~~Pd~~ty~~ll~a~  298 (857)
T PLN03077        220 LDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTM-RELSVDPDLMTITSVISAC  298 (857)
T ss_pred             cccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCChhHHHHHHHHH
Confidence            445556778888999999999999999999999999999999999999999999999999 7788999999999999999


Q ss_pred             hhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHH
Q 048799           95 WQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVE  174 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  174 (331)
                      ++.|+.+.+.+++..+.+.|..| |..+|+.|+.+|++.|++++|.++|++|.  .|+..+|+.+|.+|++.|++++|++
T Consensus       299 ~~~g~~~~a~~l~~~~~~~g~~~-d~~~~n~Li~~y~k~g~~~~A~~vf~~m~--~~d~~s~n~li~~~~~~g~~~~A~~  375 (857)
T PLN03077        299 ELLGDERLGREMHGYVVKTGFAV-DVSVCNSLIQMYLSLGSWGEAEKVFSRME--TKDAVSWTAMISGYEKNGLPDKALE  375 (857)
T ss_pred             HhcCChHHHHHHHHHHHHhCCcc-chHHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCeeeHHHHHHHHHhCCCHHHHHH
Confidence            99999999999999999999999 99999999999999999999999999995  6889999999999999999999999


Q ss_pred             HHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCC
Q 048799          175 NFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEI  254 (331)
Q Consensus       175 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  254 (331)
                      +|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+. |+.|+..+++.|+.+|++.|++++|.++|++|.+  
T Consensus       376 lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~-g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~--  452 (857)
T PLN03077        376 TYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERK-GLISYVVVANALIEMYSKCKCIDKALEVFHNIPE--  452 (857)
T ss_pred             HHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHh-CCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC--
Confidence            9999999999999999999999999999999999999999998 9999999999999999999999999999999987  


Q ss_pred             ccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccccCC
Q 048799          255 TNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKF  325 (331)
Q Consensus       255 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  325 (331)
                      ++..+|+.++.+|++.|+.++|..+|++|.+..+.+..+|..++.+|.+.|..+.+.+++..+.+.|+.++
T Consensus       453 ~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~  523 (857)
T PLN03077        453 KDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFD  523 (857)
T ss_pred             CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCcc
Confidence            58899999999999999999999999999874334447888888888888888888888888877776554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.96  E-value=1.6e-25  Score=189.00  Aligned_cols=299  Identities=10%  Similarity=0.005  Sum_probs=247.8

Q ss_pred             HHHHHHHcCCHHHHHHHHhhCCC--C-CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc---hHHHHHHHHHHhh
Q 048799           23 MITGLVKWGELEYARSLFEEMPC--R-NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS---EITILAVFPAIWQ   96 (331)
Q Consensus        23 l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~   96 (331)
                      ....+...|++++|...|+++.+  | +..++..+...+...|++++|..+++.++. .+..++   ...+..+...+..
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~-~~~~~~~~~~~~~~~La~~~~~  119 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLS-RPDLTREQRLLALQELGQDYLK  119 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHHHHHHH
Confidence            34556788999999999999973  3 445788999999999999999999999844 322121   2467888999999


Q ss_pred             cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc------HHHHHHHHHHHHccCChH
Q 048799           97 NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN------LVSWTSIISGFAMHGMGK  170 (331)
Q Consensus        97 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~  170 (331)
                      .|++++|..+|+++.+..+.  +..++..++.++.+.|++++|.+.++.+....|+      ...+..+...+.+.|+++
T Consensus       120 ~g~~~~A~~~~~~~l~~~~~--~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  197 (389)
T PRK11788        120 AGLLDRAEELFLQLVDEGDF--AEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLD  197 (389)
T ss_pred             CCCHHHHHHHHHHHHcCCcc--hHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHH
Confidence            99999999999999987432  7788999999999999999999999999876442      124566778889999999


Q ss_pred             HHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhc
Q 048799          171 EAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGI  250 (331)
Q Consensus       171 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (331)
                      +|...|+++.+.. +.+...+..+...+.+.|++++|.++++++.+. +......++..++.+|...|++++|.+.++++
T Consensus       198 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  275 (389)
T PRK11788        198 AARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ-DPEYLSEVLPKLMECYQALGDEAEGLEFLRRA  275 (389)
T ss_pred             HHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999998753 234567788889999999999999999999875 32223467888999999999999999999999


Q ss_pred             ccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh---hccCcchHHHHHHHhhccccCCCC
Q 048799          251 PSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG---VWRYGDAERLRRVVDERNALKFPG  327 (331)
Q Consensus       251 ~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~  327 (331)
                      ....|+...+..++..+.+.|++++|..+++++.+..|++ ..+..++..+..   .|+.+++..++++|.++++.++|.
T Consensus       276 ~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~-~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        276 LEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSL-RGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCH-HHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            8877777777889999999999999999999999988987 456555555543   568999999999999999998886

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

Probab=99.96  E-value=2.3e-25  Score=207.60  Aligned_cols=311  Identities=12%  Similarity=0.043  Sum_probs=187.7

Q ss_pred             ccchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048799            2 LKDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRMV   75 (331)
Q Consensus         2 ~~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   75 (331)
                      .++|...|+++.   +.+...+..++..+.+.|++++|..+++.+.   ..+...|..+..++...|++++|...|+++.
T Consensus       549 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  628 (899)
T TIGR02917       549 EEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLL  628 (899)
T ss_pred             HHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            355666666653   3345566666677777777777777777664   2344566667777777777777777777663


Q ss_pred             hccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHH
Q 048799           76 ACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLV  154 (331)
Q Consensus        76 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~  154 (331)
                      ...  +.+...+..+..++...|++++|...++++.+..+.  +...+..++..+...|++++|..+++.+....| +..
T Consensus       629 ~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  704 (899)
T TIGR02917       629 ALQ--PDSALALLLLADAYAVMKNYAKAITSLKRALELKPD--NTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAAL  704 (899)
T ss_pred             HhC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChH
Confidence            322  234455666666666677777777777766665433  455666666666666666666666666655533 445


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHH
Q 048799          155 SWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDML  234 (331)
Q Consensus       155 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  234 (331)
                      .+..+...+...|++++|++.|+++...+  |+..++..++.++.+.|++++|.+.++++.+.  .+.+...+..+...|
T Consensus       705 ~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~  780 (899)
T TIGR02917       705 GFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--HPNDAVLRTALAELY  780 (899)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            55566666666666666666666665533  44455555666666666666666666666553  233555566666666


Q ss_pred             HhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHH
Q 048799          235 GRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERL  313 (331)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  313 (331)
                      ...|++++|.++|+++... ++++..+..+...+...|+ ++|+..++++.+..|+++..+..++.++...|++++|...
T Consensus       781 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~  859 (899)
T TIGR02917       781 LAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPL  859 (899)
T ss_pred             HHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHH
Confidence            6666666666666666555 3345555555555555555 5566666665555555555555555555555666666666


Q ss_pred             HHHHhhcc
Q 048799          314 RRVVDERN  321 (331)
Q Consensus       314 ~~~~~~~~  321 (331)
                      ++++.+.+
T Consensus       860 ~~~a~~~~  867 (899)
T TIGR02917       860 LRKAVNIA  867 (899)
T ss_pred             HHHHHhhC
Confidence            65555543

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=8e-25  Score=203.99  Aligned_cols=308  Identities=12%  Similarity=0.057  Sum_probs=183.1

Q ss_pred             cchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 048799            3 KDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVA   76 (331)
Q Consensus         3 ~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   76 (331)
                      ++|.++++.+.   +.+..+|..++.++.+.|++++|...|+.+.+   .+...+..+...+...|++++|...|+++..
T Consensus       584 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  663 (899)
T TIGR02917       584 KKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALE  663 (899)
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44555555544   33455666666666666666666666665541   2344555666666666666666666666532


Q ss_pred             ccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHH
Q 048799           77 CEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSW  156 (331)
Q Consensus        77 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  156 (331)
                      .  .+.+..++..+...+...|++++|..+++.+.+..+.  +...+..++..+...|++++|...|+++....|+..++
T Consensus       664 ~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  739 (899)
T TIGR02917       664 L--KPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPK--AALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNA  739 (899)
T ss_pred             c--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC--ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHH
Confidence            1  1234555666666666666666666666666655433  44555556666666666666666666665555555555


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHh
Q 048799          157 TSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGR  236 (331)
Q Consensus       157 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  236 (331)
                      ..++.++.+.|++++|.+.++++.... +.+...+..+...|...|++++|..+|+++.+.  .+++...+..++..+..
T Consensus       740 ~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~  816 (899)
T TIGR02917       740 IKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK--APDNAVVLNNLAWLYLE  816 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHh
Confidence            556666666666666666666665532 334555566666666666666666666666553  23455566666666666


Q ss_pred             cCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHH
Q 048799          237 AGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRR  315 (331)
Q Consensus       237 ~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  315 (331)
                      .|+ .+|...++++... +.++.++..+...+...|++++|.+.++++++.+|.++.++..++.++.+.|++++|.++++
T Consensus       817 ~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  895 (899)
T TIGR02917       817 LKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKAEARKELD  895 (899)
T ss_pred             cCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            666 5566666665554 22345555566666666666666666666666666666666666666666666666666666


Q ss_pred             HHh
Q 048799          316 VVD  318 (331)
Q Consensus       316 ~~~  318 (331)
                      +|.
T Consensus       896 ~~~  898 (899)
T TIGR02917       896 KLL  898 (899)
T ss_pred             HHh
Confidence            654

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=99.94  E-value=7.2e-24  Score=178.99  Aligned_cols=280  Identities=15%  Similarity=0.127  Sum_probs=235.2

Q ss_pred             CccchhHHhhhcC--Cc-hHHHHHHHHHHHHHcCCHHHHHHHHhhCCC-CC------chhHHHHHHHHHhcCChhHHHHH
Q 048799            1 FLKDGSKLFDELP--ER-NLVTWNVMITGLVKWGELEYARSLFEEMPC-RN------VVSWTGIIDGYTRMNRSNGALAL   70 (331)
Q Consensus         1 ~~~~A~~~~~~~~--~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~------~~~~~~l~~~~~~~~~~~~a~~~   70 (331)
                      ++++|++.|.++.  .| +..++..+...+.+.|++++|..+++.+.. |+      ...+..++..|.+.|++++|..+
T Consensus        50 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~  129 (389)
T PRK11788         50 QPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEEL  129 (389)
T ss_pred             ChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3578899999887  34 567899999999999999999999998864 22      24678889999999999999999


Q ss_pred             HHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcch---hHHHHHHHHHHHhcCCHhHHHHHHHHhh
Q 048799           71 FRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFH---IHVSNCLIDTYAKCGCIFSALKLFEDIS  147 (331)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~  147 (331)
                      |+++...  .+++..++..++..+...|++++|.+.++.+.+.++.+..   ...+..++..+.+.|++++|...|+++.
T Consensus       130 ~~~~l~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al  207 (389)
T PRK11788        130 FLQLVDE--GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKAL  207 (389)
T ss_pred             HHHHHcC--CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            9999432  2456778999999999999999999999999987654312   2345677888999999999999999998


Q ss_pred             hcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhh
Q 048799          148 VERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKH  226 (331)
Q Consensus       148 ~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  226 (331)
                      +..|+ ...+..+...+.+.|++++|.++|+++...+......++..++.+|...|++++|...++++.+.   .|+...
T Consensus       208 ~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~  284 (389)
T PRK11788        208 AADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE---YPGADL  284 (389)
T ss_pred             hHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchH
Confidence            77654 66788888999999999999999999987543333467888999999999999999999999865   466677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhc---CCchhHHHHHHHHHHH
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSF---HGNVEMGERVTRKILE  285 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~  285 (331)
                      +..++..+.+.|++++|..+++++....|+...+..++..+..   .|+.+++..+++++.+
T Consensus       285 ~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        285 LLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHH
Confidence            7889999999999999999999988888888888888877664   5689999999999987

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

Probab=99.92  E-value=1.3e-23  Score=172.71  Aligned_cols=311  Identities=14%  Similarity=0.133  Sum_probs=235.4

Q ss_pred             ccchhHHhhhcC--Cc-hHHHHHHHHHHHHHcCCHHHHHHHHhhCCC--CC-----------------------------
Q 048799            2 LKDGSKLFDELP--ER-NLVTWNVMITGLVKWGELEYARSLFEEMPC--RN-----------------------------   47 (331)
Q Consensus         2 ~~~A~~~~~~~~--~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-----------------------------   47 (331)
                      +++|+.+++.+.  +| .+..|..+..++...|+.+.|.+.|.+..+  |+                             
T Consensus       132 ~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi  211 (966)
T KOG4626|consen  132 LQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAEGRLEEAKACYLKAI  211 (966)
T ss_pred             HHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhhcccchhHHHHHHHH
Confidence            456666666655  33 456677777777777766666666655431  11                             


Q ss_pred             ------chhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc-hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchh
Q 048799           48 ------VVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS-EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHI  120 (331)
Q Consensus        48 ------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  120 (331)
                            ..+|+.|...+..+|+...|++.|++.++   +.|+ ...|..|...|...+.+++|...|.++....+.  ..
T Consensus       212 ~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk---ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn--~A  286 (966)
T KOG4626|consen  212 ETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK---LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPN--HA  286 (966)
T ss_pred             hhCCceeeeehhcchHHhhcchHHHHHHHHHHhhc---CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCc--ch
Confidence                  12455666666667777777777777644   3343 346777777777777777777777777666433  56


Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCC-HHHHHHHHHHH
Q 048799          121 HVSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN-RVTFLSVLNAC  198 (331)
Q Consensus       121 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~  198 (331)
                      .++..+...|...|.+|-|+..|++....+|+ ..+|+.|..++...|+..+|.+.|.+....  .|+ ....+.|...|
T Consensus       287 ~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni~  364 (966)
T KOG4626|consen  287 VAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNIY  364 (966)
T ss_pred             hhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHHH
Confidence            66777777777888888888888888777775 778999999999899999999999888773  344 46777888899


Q ss_pred             hccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhcCCchhHH
Q 048799          199 SHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGACSFHGNVEMG  276 (331)
Q Consensus       199 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a  276 (331)
                      ...|.+++|..+|....+   +.| -...++.|...|-+.|++++|...|+++....|+ ...|+.+...|-..|+++.|
T Consensus       365 ~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~A  441 (966)
T KOG4626|consen  365 REQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSAA  441 (966)
T ss_pred             HHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHHH
Confidence            999999999999988875   344 3567788888899999999999999998888666 47888899999999999999


Q ss_pred             HHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          277 ERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      ++.+.+++..+|...+++..|+.+|...|+..+|++-++...+.+.
T Consensus       442 ~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  442 IQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             HHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            9999999999998888999999999999999999999988877543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.92  E-value=1.1e-21  Score=173.94  Aligned_cols=314  Identities=8%  Similarity=-0.085  Sum_probs=253.3

Q ss_pred             CccchhHHhhhcC--Cc-hHHHHHHHHHHHHHcCCHHHHHHHHhhCCC--C-CchhHHHHHHHHHhcCChhHHHHHHHHH
Q 048799            1 FLKDGSKLFDELP--ER-NLVTWNVMITGLVKWGELEYARSLFEEMPC--R-NVVSWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus         1 ~~~~A~~~~~~~~--~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      ++++|..+++.+.  .| +...+..++.++...|+++.|...|+++..  | +...+..+...+...|++++|...++++
T Consensus        57 ~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~A  136 (656)
T PRK15174         57 ETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQA  136 (656)
T ss_pred             CcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3567778877765  23 455666777778889999999999999863  3 4567888889999999999999999998


Q ss_pred             HhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC--c
Q 048799           75 VACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK--N  152 (331)
Q Consensus        75 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~  152 (331)
                      +...  +.+...+..+...+...|++++|...++.+....+.+  ...+..+ ..+...|++++|...++.+....|  +
T Consensus       137 l~l~--P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~--~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~  211 (656)
T PRK15174        137 WLAF--SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR--GDMIATC-LSFLNKSRLPEDHDLARALLPFFALER  211 (656)
T ss_pred             HHhC--CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC--HHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcc
Confidence            5432  3456678888999999999999999999888776553  3344333 347889999999999999876643  3


Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHH----HHHHHHHHHHhcCCCCcHhhHH
Q 048799          153 LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEE----GLKFFDKMVEECEVLPDIKHYG  228 (331)
Q Consensus       153 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~  228 (331)
                      ...+..+..++...|++++|+..++++.... +.+...+..+...+...|++++    |...++++.+.  .+.+...+.
T Consensus       212 ~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~  288 (656)
T PRK15174        212 QESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVT  288 (656)
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHH
Confidence            4445556678889999999999999998754 3356777788999999999986    89999999864  234677889


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccC
Q 048799          229 CLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRY  307 (331)
Q Consensus       229 ~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  307 (331)
                      .+...+.+.|++++|...++++....| +...+..+..++.+.|++++|...++++.+..|++...+..++.++...|+.
T Consensus       289 ~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~  368 (656)
T PRK15174        289 LYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKT  368 (656)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCH
Confidence            999999999999999999999888744 4677888889999999999999999999998998766566678889999999


Q ss_pred             cchHHHHHHHhhccc
Q 048799          308 GDAERLRRVVDERNA  322 (331)
Q Consensus       308 ~~a~~~~~~~~~~~~  322 (331)
                      ++|...+++..+...
T Consensus       369 deA~~~l~~al~~~P  383 (656)
T PRK15174        369 SEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHHHHHHHHHhCh
Confidence            999999998877543

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

Probab=99.92  E-value=1.3e-21  Score=173.79  Aligned_cols=315  Identities=9%  Similarity=-0.028  Sum_probs=208.1

Q ss_pred             CccchhHHhhhcC--CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCC--C-CchhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048799            1 FLKDGSKLFDELP--ERNLVTWNVMITGLVKWGELEYARSLFEEMPC--R-NVVSWTGIIDGYTRMNRSNGALALFRRMV   75 (331)
Q Consensus         1 ~~~~A~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   75 (331)
                      ++++|++.|++..  .|+...|..+..+|.+.|++++|+..++...+  | +...|..+..+|...|++++|+..|..+.
T Consensus       142 ~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~  221 (615)
T TIGR00990       142 DFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDLTASC  221 (615)
T ss_pred             CHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3567888888765  57777888888888889999999988888763  3 34567777777777777777765443221


Q ss_pred             --------------------------------------------------------------------------------
Q 048799           76 --------------------------------------------------------------------------------   75 (331)
Q Consensus        76 --------------------------------------------------------------------------------   75 (331)
                                                                                                      
T Consensus       222 ~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  301 (615)
T TIGR00990       222 IIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKS  301 (615)
T ss_pred             HhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchHHHHHHH
Confidence                                                                                            


Q ss_pred             --------------------hccCCCC-chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcC
Q 048799           76 --------------------ACEYTEP-SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCG  134 (331)
Q Consensus        76 --------------------~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  134 (331)
                                          ......| ....+..+...+...|++++|+..+++.++..+.  ....|..+..++...|
T Consensus       302 ~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~--~~~~~~~la~~~~~~g  379 (615)
T TIGR00990       302 PESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR--VTQSYIKRASMNLELG  379 (615)
T ss_pred             HHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC--cHHHHHHHHHHHHHCC
Confidence                                1100111 1223444445555666677777777766665332  4556666667777777


Q ss_pred             CHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 048799          135 CIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDK  213 (331)
Q Consensus       135 ~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  213 (331)
                      ++++|...|+++....| +...|..+...+...|++++|+..|++..... +.+...+..+...+.+.|++++|+..|++
T Consensus       380 ~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~  458 (615)
T TIGR00990       380 DPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRR  458 (615)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            77777777777665544 45667777777777777777777777776632 22345566666777777777777777777


Q ss_pred             HHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc-HH-------HHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          214 MVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN-VV-------VWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       214 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~-------~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      ..+.  .+.+...++.+...+...|++++|.+.|+++....|+ ..       .++..+..+...|++++|.++++++.+
T Consensus       459 al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~  536 (615)
T TIGR00990       459 CKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALI  536 (615)
T ss_pred             HHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            7653  2335667777777777888888888887776655222 11       111122223345788888888888887


Q ss_pred             hhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          286 MERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       286 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      .+|++...+..++.++.+.|++++|...+++..+.
T Consensus       537 l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       537 IDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             cCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            77777677778888888888888888888776553

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.91  E-value=1.7e-21  Score=172.70  Aligned_cols=295  Identities=10%  Similarity=-0.031  Sum_probs=247.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhh
Q 048799           20 WNVMITGLVKWGELEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQ   96 (331)
Q Consensus        20 ~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   96 (331)
                      ...++..+.+.|++++|..+++....   .+...+..++.+....|++++|...|+++....  |.+...+..+...+..
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~--P~~~~a~~~la~~l~~  122 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN--VCQPEDVLLVASVLLK  122 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHH
Confidence            33456778899999999999998762   345567777788889999999999999995532  3456678888999999


Q ss_pred             cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHH
Q 048799           97 NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVEN  175 (331)
Q Consensus        97 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~  175 (331)
                      .|++++|...++++.+..+.  +..++..++.++...|++++|...++.+....|+ ...+..+ ..+...|++++|+..
T Consensus       123 ~g~~~~Ai~~l~~Al~l~P~--~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~-~~l~~~g~~~eA~~~  199 (656)
T PRK15174        123 SKQYATVADLAEQAWLAFSG--NSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGDMIATC-LSFLNKSRLPEDHDL  199 (656)
T ss_pred             cCCHHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHHH-HHHHHcCCHHHHHHH
Confidence            99999999999999988544  7788889999999999999999999988766554 3444333 347889999999999


Q ss_pred             HHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHH----HHHHHhhcc
Q 048799          176 FERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQ----AEKVASGIP  251 (331)
Q Consensus       176 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~----A~~~~~~~~  251 (331)
                      ++.+......++......+..++...|++++|...++++.+.  .+.+...+..+...+...|++++    |...|+++.
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~--~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al  277 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALAR--GLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHAL  277 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHH
Confidence            999877643345555566677888999999999999999874  34467888889999999999986    899999998


Q ss_pred             cCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          252 SEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       252 ~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ...| +...+..+...+...|++++|...++++.+..|+++..+..++.++.+.|++++|...++.+.+.+
T Consensus       278 ~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~  348 (656)
T PRK15174        278 QFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREK  348 (656)
T ss_pred             hhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            8744 578899999999999999999999999999999998899999999999999999999999988754

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

Probab=99.90  E-value=2.8e-21  Score=159.14  Aligned_cols=299  Identities=12%  Similarity=0.130  Sum_probs=258.1

Q ss_pred             ccchhHHhhhcC--Cch-HHHHHHHHHHHHHcCCHHHHHHHHhhCCC--CC-chhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048799            2 LKDGSKLFDELP--ERN-LVTWNVMITGLVKWGELEYARSLFEEMPC--RN-VVSWTGIIDGYTRMNRSNGALALFRRMV   75 (331)
Q Consensus         2 ~~~A~~~~~~~~--~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~   75 (331)
                      +++|...+.+..  .|. ..+|+.|...+-.+|++..|+.-|++..+  |+ ..+|-.|...|-..+.+++|+..|.+..
T Consensus       200 l~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl  279 (966)
T KOG4626|consen  200 LEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRAL  279 (966)
T ss_pred             cchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHH
Confidence            455555555544  444 35688888888899999999999999874  43 3589999999999999999999999984


Q ss_pred             hccCCCC-chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-H
Q 048799           76 ACEYTEP-SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-L  153 (331)
Q Consensus        76 ~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~  153 (331)
                      .   ..| ....+..+...|...|+++-|+..|++.++..+.  -+.+|+.|..++...|++.+|...|.+.....|+ .
T Consensus       280 ~---lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~--F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~ha  354 (966)
T KOG4626|consen  280 N---LRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN--FPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHA  354 (966)
T ss_pred             h---cCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCC--chHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccH
Confidence            4   334 4668888999999999999999999999998655  6789999999999999999999999999888774 7


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc-HhhHHHHH
Q 048799          154 VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN-RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD-IKHYGCLI  231 (331)
Q Consensus       154 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~  231 (331)
                      .+.+.|...|...|.+++|..+|.....  +.|. ...++.|...|-++|++++|...|++++   .+.|+ ...++.+.
T Consensus       355 dam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmG  429 (966)
T KOG4626|consen  355 DAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMG  429 (966)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcc
Confidence            7899999999999999999999999877  4454 4578899999999999999999999998   45775 57899999


Q ss_pred             HHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcch
Q 048799          232 DMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDA  310 (331)
Q Consensus       232 ~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  310 (331)
                      ..|...|+...|.+.+.+++...|. ...++.|...|...|++.+|+..|+.++++.|+.+.+|..++..+--..+|.+-
T Consensus       430 nt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D~  509 (966)
T KOG4626|consen  430 NTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTDY  509 (966)
T ss_pred             hHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccch
Confidence            9999999999999999999988665 588999999999999999999999999999999999999998887666666653

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.89  E-value=5.5e-20  Score=173.55  Aligned_cols=314  Identities=10%  Similarity=0.012  Sum_probs=202.1

Q ss_pred             ccchhHHhhhcC--Cc-hHHHHHHHHHHHHHcCCHHHHHHHHhhCCC--CCc---hhHH------------HHHHHHHhc
Q 048799            2 LKDGSKLFDELP--ER-NLVTWNVMITGLVKWGELEYARSLFEEMPC--RNV---VSWT------------GIIDGYTRM   61 (331)
Q Consensus         2 ~~~A~~~~~~~~--~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~------------~l~~~~~~~   61 (331)
                      +++|+..|++..  .| +..++..+..++.+.|++++|+..|++..+  |+.   ..|.            .+...+.+.
T Consensus       285 ~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~  364 (1157)
T PRK11447        285 GGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKA  364 (1157)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHC
Confidence            467778887765  34 677888888888888999988888887653  321   1121            223456778


Q ss_pred             CChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHH---------------
Q 048799           62 NRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL---------------  126 (331)
Q Consensus        62 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l---------------  126 (331)
                      |++++|...|++++...  +.+...+..+..++...|++++|++.|+++++..+.  +..++..+               
T Consensus       365 g~~~eA~~~~~~Al~~~--P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~--~~~a~~~L~~l~~~~~~~~A~~~  440 (1157)
T PRK11447        365 NNLAQAERLYQQARQVD--NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG--NTNAVRGLANLYRQQSPEKALAF  440 (1157)
T ss_pred             CCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHhcCHHHHHHH
Confidence            88888888888885432  244566777888888888888888888888876543  33333222               


Q ss_pred             ---------------------------HHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHH
Q 048799          127 ---------------------------IDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFER  178 (331)
Q Consensus       127 ---------------------------~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~  178 (331)
                                                 ...+...|++++|.+.|+++....| +...+..+...|.+.|++++|+..+++
T Consensus       441 l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~  520 (1157)
T PRK11447        441 IASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRR  520 (1157)
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                                       2334456777888888877776666 455666777778888888888888887


Q ss_pred             HHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh-------------------------------------c-CC
Q 048799          179 MQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE-------------------------------------C-EV  220 (331)
Q Consensus       179 m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------------------------------------~-~~  220 (331)
                      +.+... .+...+..+...+...++.++|...++.+...                                     . ..
T Consensus       521 al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~  599 (1157)
T PRK11447        521 LAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQ  599 (1157)
T ss_pred             HHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            765321 12222222222233344444444433322100                                     0 01


Q ss_pred             CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHH
Q 048799          221 LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYN  299 (331)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  299 (331)
                      +++...+..+...+.+.|++++|...|+++... +.+...+..++..+...|++++|++.++.+.+..|+++..+..++.
T Consensus       600 p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~  679 (1157)
T PRK11447        600 PPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVAL  679 (1157)
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            234445556666677777777777777777666 3346667777777777777777777777777666776666667777


Q ss_pred             HHhhhccCcchHHHHHHHhhc
Q 048799          300 ILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       300 ~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      ++...|++++|.++++.+.+.
T Consensus       680 ~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        680 AWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHhCCCHHHHHHHHHHHhhh
Confidence            777777777777777776654

>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=99.89  E-value=3.2e-19  Score=158.54  Aligned_cols=298  Identities=10%  Similarity=-0.053  Sum_probs=240.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhCC--CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhh
Q 048799           19 TWNVMITGLVKWGELEYARSLFEEMP--CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQ   96 (331)
Q Consensus        19 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   96 (331)
                      .+......+.+.|++++|+..|++..  .|+...|..+..+|.+.|++++|+..+++.+...  +.+...+..+..++..
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~--p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD--PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHH
Confidence            45567788999999999999999976  5788889999999999999999999999985422  3456688889999999


Q ss_pred             cCchhHHHHHHhhhhhcCCC----------------------------cchhHHHHHHHH--------------------
Q 048799           97 NGDVRNCQLIHGYGEKRGFN----------------------------AFHIHVSNCLID--------------------  128 (331)
Q Consensus        97 ~~~~~~a~~~~~~~~~~~~~----------------------------~~~~~~~~~l~~--------------------  128 (331)
                      .|++++|+..+..+...+..                            |.+...+..+..                    
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            99999998766544322110                            000000000000                    


Q ss_pred             ----------HH------HhcCCHhHHHHHHHHhhhc---CC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCC-
Q 048799          129 ----------TY------AKCGCIFSALKLFEDISVE---RK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN-  187 (331)
Q Consensus       129 ----------~~------~~~g~~~~A~~~~~~~~~~---~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-  187 (331)
                                ..      ...+++++|.+.|+++...   .| ....|+.+...+...|++++|+..|++....  .|+ 
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~  364 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRV  364 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCc
Confidence                      00      1235788999999988764   23 4567888888999999999999999999874  454 


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHH
Q 048799          188 RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGA  266 (331)
Q Consensus       188 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~  266 (331)
                      ...|..+...+...|++++|...|+++.+.  .+.+...+..+...+...|++++|...|+++....| +...+..+..+
T Consensus       365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~  442 (615)
T TIGR00990       365 TQSYIKRASMNLELGDPDKAEEDFDKALKL--NSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVT  442 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHH
Confidence            567888888999999999999999999874  234678899999999999999999999999988844 56778888999


Q ss_pred             HhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          267 CSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       267 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      +.+.|++++|+..++++++..|+++..+..++.++...|++++|.+.+++..+...
T Consensus       443 ~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p  498 (615)
T TIGR00990       443 QYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEK  498 (615)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999999999999999999877543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.87  E-value=4.9e-19  Score=167.21  Aligned_cols=308  Identities=11%  Similarity=0.061  Sum_probs=207.5

Q ss_pred             ccchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCC--C-CchhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048799            2 LKDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMPC--R-NVVSWTGIIDGYTRMNRSNGALALFRRMV   75 (331)
Q Consensus         2 ~~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   75 (331)
                      +++|++.|++..   +.+...+..+..++...|++++|++.|++..+  | +...+..+...+. .++.++|+..++.+.
T Consensus       367 ~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~  445 (1157)
T PRK11447        367 LAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-QQSPEKALAFIASLS  445 (1157)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCHHHHHHHHHhCC
Confidence            456777887765   33566777888889999999999999988763  3 3344544544443 234555555554431


Q ss_pred             hccCC-------CCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhh
Q 048799           76 ACEYT-------EPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISV  148 (331)
Q Consensus        76 ~~~~~-------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  148 (331)
                      .....       ......+..+...+...|++++|++.++++++..+.  +..++..+...|.+.|++++|...|+++..
T Consensus       446 ~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~--~~~~~~~LA~~~~~~G~~~~A~~~l~~al~  523 (1157)
T PRK11447        446 ASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG--SVWLTYRLAQDLRQAGQRSQADALMRRLAQ  523 (1157)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            10000       000112233444455556666666666666655433  445555566666666666666666665554


Q ss_pred             cCC-cHHHHHH--------------------------------------------HHHHHHccCChHHHHHHHHHHHhcc
Q 048799          149 ERK-NLVSWTS--------------------------------------------IISGFAMHGMGKEAVENFERMQKVV  183 (331)
Q Consensus       149 ~~~-~~~~~~~--------------------------------------------l~~~~~~~~~~~~a~~~~~~m~~~~  183 (331)
                      ..| +...+..                                            +...+...|+.++|+++++.     
T Consensus       524 ~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----  598 (1157)
T PRK11447        524 QKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----  598 (1157)
T ss_pred             cCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----
Confidence            433 2222222                                            23344555566666655541     


Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHH
Q 048799          184 LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRT  262 (331)
Q Consensus       184 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~  262 (331)
                      .+++...+..+...+.+.|++++|...|+++.+.  -+.+...+..++..|...|++++|.+.++.+....| +...+..
T Consensus       599 ~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~  676 (1157)
T PRK11447        599 QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRR  676 (1157)
T ss_pred             CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHH
Confidence            2345566777888999999999999999999975  244788899999999999999999999999887744 5677778


Q ss_pred             HHHHHhcCCchhHHHHHHHHHHHhhcCCCc------cHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          263 LLGACSFHGNVEMGERVTRKILEMERGYGG------DYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       263 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      +..++...|++++|.++++++.+..|+++.      .+..++.++...|++++|+..++....
T Consensus       677 la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        677 VALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            888999999999999999999987665543      455678899999999999999988854

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.86  E-value=2.6e-18  Score=155.59  Aligned_cols=313  Identities=11%  Similarity=0.043  Sum_probs=190.3

Q ss_pred             ccchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048799            2 LKDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRMV   75 (331)
Q Consensus         2 ~~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   75 (331)
                      .++|+++|.+..   +.+...+..+...+.+.|++++|..+|++..   ..+...+..++.++...|++++|+..+++++
T Consensus        31 ~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l  110 (765)
T PRK10049         31 DAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLV  110 (765)
T ss_pred             HHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            456777777755   2355568888888888888888888888854   2345567777778888888888888888884


Q ss_pred             hccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHH-----------
Q 048799           76 ACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFE-----------  144 (331)
Q Consensus        76 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~-----------  144 (331)
                      ...  +.+.. +..+..++...|+.++|+..++++.+..+.  +..++..++.++...|..++|+..++           
T Consensus       111 ~~~--P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~--~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~  185 (765)
T PRK10049        111 SGA--PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ--TQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRD  185 (765)
T ss_pred             HhC--CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHH
Confidence            432  23444 777777888888888888888888887554  55555556666655555554443333           


Q ss_pred             -----------------------------------Hhhhc---CCcHH-HHH----HHHHHHHccCChHHHHHHHHHHHh
Q 048799          145 -----------------------------------DISVE---RKNLV-SWT----SIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       145 -----------------------------------~~~~~---~~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                                                         .+...   .|+.. .+.    ..+.++...|++++|+..|+++.+
T Consensus       186 l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~  265 (765)
T PRK10049        186 LEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKA  265 (765)
T ss_pred             HHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence                                               22211   11110 010    112233455777777777777766


Q ss_pred             ccCC-CCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC--cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc---
Q 048799          182 VVLK-PNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP--DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT---  255 (331)
Q Consensus       182 ~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p---  255 (331)
                      .+.+ |+. ....+..+|...|++++|+.+|+++.+.....+  .......+..++.+.|++++|.++++.+....|   
T Consensus       266 ~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~  344 (765)
T PRK10049        266 EGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFL  344 (765)
T ss_pred             cCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceE
Confidence            5422 322 112245566677777777777777654311110  123344455566667777777777666655422   


Q ss_pred             ----------c---HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          256 ----------N---VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       256 ----------~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                                +   ...+..+...+...|+.++|+++++++.+..|+++..+..++.++...|+.++|++.+++..+.
T Consensus       345 ~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l  422 (765)
T PRK10049        345 RLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVL  422 (765)
T ss_pred             eecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence                      1   1233445555666666666666666666666666666666666666666666666666665553

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.86  E-value=6.6e-18  Score=152.99  Aligned_cols=318  Identities=11%  Similarity=-0.017  Sum_probs=236.0

Q ss_pred             CccchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCC--C-CchhHHHHHHHHHhcCChhHHHHHHHHH
Q 048799            1 FLKDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMPC--R-NVVSWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus         1 ~~~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      ++++|.++|++..   +.+...+..++.++...|++++|+..+++...  | +.. +..+..++...|+.++|+..++++
T Consensus        64 ~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~a  142 (765)
T PRK10049         64 QWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQA  142 (765)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHH
Confidence            3567888999854   44677788888999999999999999998762  3 445 888888999999999999999998


Q ss_pred             HhccCCCCchHHHHHHHHHHhhcCchhHHH----------------------------------------------HHHh
Q 048799           75 VACEYTEPSEITILAVFPAIWQNGDVRNCQ----------------------------------------------LIHG  108 (331)
Q Consensus        75 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~----------------------------------------------~~~~  108 (331)
                      ....  +.+...+..+..++...+..+.|+                                              +.++
T Consensus       143 l~~~--P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~  220 (765)
T PRK10049        143 LPRA--PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYD  220 (765)
T ss_pred             HHhC--CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHH
Confidence            5532  233444455555555555554444                                              3444


Q ss_pred             hhhhc-CCCcchhHH----HHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-H-HHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          109 YGEKR-GFNAFHIHV----SNCLIDTYAKCGCIFSALKLFEDISVERKN-L-VSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       109 ~~~~~-~~~~~~~~~----~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      .+.+. ...|.+...    ....+..+...|++++|+..|+++....++ + ..-..+..+|...|++++|+..|+++.+
T Consensus       221 ~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~  300 (765)
T PRK10049        221 ALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFY  300 (765)
T ss_pred             HHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhh
Confidence            44432 111211111    111133456779999999999999876432 1 1222356789999999999999999876


Q ss_pred             ccCCC---CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcC----------CCCc---HhhHHHHHHHHHhcCCHHHHHH
Q 048799          182 VVLKP---NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECE----------VLPD---IKHYGCLIDMLGRAGRLEQAEK  245 (331)
Q Consensus       182 ~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~g~~~~A~~  245 (331)
                      .....   .......+..++...|++++|..+++.+.+...          -.|+   ...+..+...+...|++++|.+
T Consensus       301 ~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~  380 (765)
T PRK10049        301 HPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEM  380 (765)
T ss_pred             cCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHH
Confidence            43111   134566677788999999999999999986410          0122   2345667788999999999999


Q ss_pred             HHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          246 VASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       246 ~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      +++++... +.+...+..+...+...|++++|++.++++++..|++...+...+..+.+.|++++|+.+++.+.+..
T Consensus       381 ~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~  457 (765)
T PRK10049        381 RARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVARE  457 (765)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            99999887 44678899999999999999999999999999999999999999999999999999999999997754

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

Probab=99.84  E-value=7.4e-21  Score=152.78  Aligned_cols=261  Identities=17%  Similarity=0.084  Sum_probs=109.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh
Q 048799           53 GIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK  132 (331)
Q Consensus        53 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  132 (331)
                      .+...+.+.|++++|++++++.......+.+...|..+.......++.+.|.+.++++...+..  ++..+..++.. ..
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~--~~~~~~~l~~l-~~   89 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA--NPQDYERLIQL-LQ   89 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc--ccccccccccc-cc
Confidence            4566778888999999988654232212334445555666677788899999999988877554  56667777776 68


Q ss_pred             cCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhcc-CCCCHHHHHHHHHHHhccCChHHHHHHH
Q 048799          133 CGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVV-LKPNRVTFLSVLNACSHGGLVEEGLKFF  211 (331)
Q Consensus       133 ~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~  211 (331)
                      .+++++|..+++..-+..+++..+..++..+...++++++.++++++.... .+++...|..+...+.+.|+.++|.+.+
T Consensus        90 ~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   90 DGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             cccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            889999998888776656677777888888888999999999998876533 3456777888888888999999999999


Q ss_pred             HHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          212 DKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       212 ~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      +++.+.   .| |......++..+...|+.+++.+++...... +.++..+..+..++...|++++|...++++.+.+|+
T Consensus       170 ~~al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~  246 (280)
T PF13429_consen  170 RKALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPD  246 (280)
T ss_dssp             HHHHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccc
Confidence            998875   44 5778888888898999999888888777665 345677888889999999999999999999998999


Q ss_pred             CCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          290 YGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       290 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      ++.....++.++...|+.++|.++.++..+
T Consensus       247 d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  247 DPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             -HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccccc
Confidence            988889999999999999999988876543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.82  E-value=1.9e-16  Score=144.31  Aligned_cols=298  Identities=10%  Similarity=-0.035  Sum_probs=215.4

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCCC--CC----chhHHHHHHHHHhcCC---hhHHHHH----------------
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMPC--RN----VVSWTGIIDGYTRMNR---SNGALAL----------------   70 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~l~~~~~~~~~---~~~a~~~----------------   70 (331)
                      +....-.+.-...+.|+.++|.++|+....  ++    ...-.-|+..|.+.+.   ..++..+                
T Consensus       375 ~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  454 (987)
T PRK09782        375 NLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQL  454 (987)
T ss_pred             CHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhh
Confidence            455555555667788999999999888763  11    2233356666666655   3333222                


Q ss_pred             ------HHHHHhccCC-CC--chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHH
Q 048799           71 ------FRRMVACEYT-EP--SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALK  141 (331)
Q Consensus        71 ------~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  141 (331)
                            ........+. ++  +...|..+..++.. ++.++|...+.+.....+   +......+...+...|++++|..
T Consensus       455 ~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~P---d~~~~L~lA~al~~~Gr~eeAi~  530 (987)
T PRK09782        455 PGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQP---DAWQHRAVAYQAYQVEDYATALA  530 (987)
T ss_pred             hhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCC---chHHHHHHHHHHHHCCCHHHHHH
Confidence                  2222111112 33  56677777777766 788888888888777643   33333345555678899999999


Q ss_pred             HHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCC
Q 048799          142 LFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVL  221 (331)
Q Consensus       142 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  221 (331)
                      .|+++....|+...+..+..++.+.|+.++|...+++..+.. +++...+..+.......|++++|...+++..+.   .
T Consensus       531 ~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l---~  606 (987)
T PRK09782        531 AWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI---A  606 (987)
T ss_pred             HHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh---C
Confidence            999887666665666777778888899999999998888754 223333333444445669999999999998854   5


Q ss_pred             CcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHH
Q 048799          222 PDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      |+...+..+..++.+.|++++|...++++....| +...+..+..++...|++++|+..++++.+..|+++..+..++.+
T Consensus       607 P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~a  686 (987)
T PRK09782        607 PSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYV  686 (987)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            6778888888889999999999999999888844 567788888888899999999999999999999988889999999


Q ss_pred             HhhhccCcchHHHHHHHhhcc
Q 048799          301 LAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       301 ~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      +...|++++|+..+++..+..
T Consensus       687 l~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        687 NQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHCCCHHHHHHHHHHHHhcC
Confidence            999999999999998887644

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.81  E-value=3.6e-16  Score=142.56  Aligned_cols=265  Identities=9%  Similarity=0.005  Sum_probs=217.9

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHH
Q 048799           47 NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL  126 (331)
Q Consensus        47 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  126 (331)
                      +...|..+..++.. +++++|+..+.+....   .|+......+...+...|++++|...++++....+   +...+..+
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~---~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p---~~~a~~~l  548 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR---QPDAWQHRAVAYQAYQVEDYATALAAWQKISLHDM---SNEDLLAA  548 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh---CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCC---CcHHHHHH
Confidence            45677888887776 8999999988887442   35655555556666789999999999999866532   33445677


Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChH
Q 048799          127 IDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVE  205 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  205 (331)
                      +.++.+.|+.++|...|++.....|+ ...+..+.......|++++|+..+++..+  ..|+...+..+..++.+.|+.+
T Consensus       549 a~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~d  626 (987)
T PRK09782        549 ANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVP  626 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHH
Confidence            88899999999999999999877654 33344444455567999999999999987  4577888999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHH
Q 048799          206 EGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKIL  284 (331)
Q Consensus       206 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  284 (331)
                      +|...+++..+.  .+.+...+..+...+...|++++|...++++....| ++..+..+..++...|++++|+..++++.
T Consensus       627 eA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al  704 (987)
T PRK09782        627 AAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVI  704 (987)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999999874  234677888888999999999999999999988844 67889999999999999999999999999


Q ss_pred             HhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          285 EMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       285 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      +..|+...+....+....+..+++.+.+.+++-...++
T Consensus       705 ~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~  742 (987)
T PRK09782        705 DDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSF  742 (987)
T ss_pred             hcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCc
Confidence            99999989999999999999999999988887665544

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

Probab=99.80  E-value=1.3e-16  Score=137.02  Aligned_cols=324  Identities=14%  Similarity=0.098  Sum_probs=191.0

Q ss_pred             ccchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048799            2 LKDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRMV   75 (331)
Q Consensus         2 ~~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   75 (331)
                      +++|.+++.++.   +.+...|..|...|-+.|+.+++...+-...   ..|...|-.+.....+.|.+++|.-.|.+++
T Consensus       155 ~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI  234 (895)
T KOG2076|consen  155 LEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYSRAI  234 (895)
T ss_pred             HHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            344555555443   2234445555555555555555544433221   2233444555555555555555555555542


Q ss_pred             hccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHH----HHHHHHHhcCCHhHHHHHHHHhhhc--
Q 048799           76 ACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSN----CLIDTYAKCGCIFSALKLFEDISVE--  149 (331)
Q Consensus        76 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~--  149 (331)
                      ...  +++...+-.-...|-+.|+...|..-|.++....++. +..-+.    ..++.+...++-+.|.+.++.....  
T Consensus       235 ~~~--p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~-d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~  311 (895)
T KOG2076|consen  235 QAN--PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPV-DIERIEDLIRRVAHYFITHNERERAAKALEGALSKEK  311 (895)
T ss_pred             hcC--CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCch-hHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhcc
Confidence            221  2333333333444445555555555555555443311 221111    1233344444445555555544432  


Q ss_pred             -CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCC---------------------------CHHHHHHHHHHHhcc
Q 048799          150 -RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP---------------------------NRVTFLSVLNACSHG  201 (331)
Q Consensus       150 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p---------------------------~~~~~~~l~~~~~~~  201 (331)
                       ..+...++.++..|.+...++.+......+......+                           +... ..+.-++.+.
T Consensus       312 ~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~L  390 (895)
T KOG2076|consen  312 DEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICLVHL  390 (895)
T ss_pred             ccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhhhcc
Confidence             1233445566666666666666666665554411111                           1111 1222334444


Q ss_pred             CChHHHHHHHHHHHHhcCCCC--cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc--cHHHHHHHHHHHhcCCchhHHH
Q 048799          202 GLVEEGLKFFDKMVEECEVLP--DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT--NVVVWRTLLGACSFHGNVEMGE  277 (331)
Q Consensus       202 ~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~a~  277 (331)
                      +..+....+.....+. .+.|  +...|.-+..+|...|++.+|..+|..+....+  +...|..+..+|...|.+++|.
T Consensus       391 ~~~e~~e~ll~~l~~~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~  469 (895)
T KOG2076|consen  391 KERELLEALLHFLVED-NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAI  469 (895)
T ss_pred             cccchHHHHHHHHHHh-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHH
Confidence            4455555555555554 5334  567888999999999999999999999998833  4679999999999999999999


Q ss_pred             HHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccccCCCCCCC
Q 048799          278 RVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKFPGRSL  330 (331)
Q Consensus       278 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~sw  330 (331)
                      +.|++++...|++..+...|...+.+.|+.++|.+.++.+..-+....++.+|
T Consensus       470 e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~  522 (895)
T KOG2076|consen  470 EFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAW  522 (895)
T ss_pred             HHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccc
Confidence            99999999999999999999999999999999999999886433333355555

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

Probab=99.79  E-value=4.1e-17  Score=135.86  Aligned_cols=284  Identities=11%  Similarity=-0.028  Sum_probs=227.6

Q ss_pred             cCCHHHHHHHHhhCCC--CCc-hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCC-chHHHHHHHHHHhhcCchhHHHH
Q 048799           30 WGELEYARSLFEEMPC--RNV-VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEP-SEITILAVFPAIWQNGDVRNCQL  105 (331)
Q Consensus        30 ~g~~~~A~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~  105 (331)
                      .-+..+|...|..++.  +|. .....+.++|...+++++|..+|+.+.+...... +..+|.+.+--+-+   .-+---
T Consensus       332 ~y~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~---~v~Ls~  408 (638)
T KOG1126|consen  332 QYNCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD---EVALSY  408 (638)
T ss_pred             HHHHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh---hHHHHH
Confidence            3456789999998663  333 4566788999999999999999999955444332 45677777665422   222222


Q ss_pred             HHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccC
Q 048799          106 IHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVL  184 (331)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  184 (331)
                      +-+.+++..  |..+.+|.+++++|.-+++.+.|++.|+++...+| ...+|+.+..-+.....+|.|...|+..+.  +
T Consensus       409 Laq~Li~~~--~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~  484 (638)
T KOG1126|consen  409 LAQDLIDTD--PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--V  484 (638)
T ss_pred             HHHHHHhhC--CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--C
Confidence            334444443  33789999999999999999999999999998887 689999999999999999999999998765  3


Q ss_pred             CCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHH
Q 048799          185 KPNR-VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWR  261 (331)
Q Consensus       185 ~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~  261 (331)
                      .|.. ..|.-+...|.++++++.|+-.|+++.+   +.| +......++..+.+.|+.++|+++++++... +.++..--
T Consensus       485 ~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~---INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~  561 (638)
T KOG1126|consen  485 DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE---INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKY  561 (638)
T ss_pred             CchhhHHHHhhhhheeccchhhHHHHHHHhhhc---CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHH
Confidence            3332 3445567789999999999999999985   455 6777788888999999999999999999877 44666666


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcccc
Q 048799          262 TLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNAL  323 (331)
Q Consensus       262 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  323 (331)
                      ..+..+...+++++|+..++++.+..|+....|..++..|.+.|+.+.|+.-|.-+.+...+
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            67788889999999999999999999999999999999999999999999998887765443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.78  E-value=1.2e-15  Score=128.18  Aligned_cols=279  Identities=11%  Similarity=0.055  Sum_probs=215.7

Q ss_pred             HcCCHHHHHHHHhhCCCC--Cchh-HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHH--HHHHHHhhcCchhHH
Q 048799           29 KWGELEYARSLFEEMPCR--NVVS-WTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITIL--AVFPAIWQNGDVRNC  103 (331)
Q Consensus        29 ~~g~~~~A~~~~~~~~~~--~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a  103 (331)
                      -.|+++.|.+.+....+.  ++.. |.....+..+.|+++.|...+.++.+   ..|+.....  .....+...|+++.|
T Consensus        96 ~eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~---~~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAE---LADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCcchHHHHHHHHHHHHHCCCHHHH
Confidence            369999999999876642  2333 33334455899999999999999943   345543322  346788899999999


Q ss_pred             HHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHH--------HHHHHHHHHHccCChHHHHH
Q 048799          104 QLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLV--------SWTSIISGFAMHGMGKEAVE  174 (331)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~--------~~~~l~~~~~~~~~~~~a~~  174 (331)
                      ...++++.+..+.  ++.+...+...|.+.|++++|.+++..+.+..+ +..        +|..++.......+.+...+
T Consensus       173 l~~l~~~~~~~P~--~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~  250 (398)
T PRK10747        173 RHGVDKLLEVAPR--HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR  250 (398)
T ss_pred             HHHHHHHHhcCCC--CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            9999999998755  788889999999999999999999999987632 121        33344444444555666666


Q ss_pred             HHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCC
Q 048799          175 NFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEI  254 (331)
Q Consensus       175 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  254 (331)
                      +++.+-.. .+.+......+...+...|+.++|.+.+++..+.   +|+....  ++.+....++.+++.+..+...+..
T Consensus       251 ~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~  324 (398)
T PRK10747        251 WWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH  324 (398)
T ss_pred             HHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC
Confidence            66665332 3457778888999999999999999999998864   4555332  3334456699999999999988885


Q ss_pred             c-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          255 T-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       255 p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      | |+..+..+...+.+.|++++|.+.|+++.+..|++ ..+..++.++.+.|+.++|.+++++-..
T Consensus       325 P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~-~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        325 GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA-YDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5 56778889999999999999999999999999987 7788999999999999999999987654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.78  E-value=2.6e-15  Score=134.44  Aligned_cols=314  Identities=10%  Similarity=0.040  Sum_probs=191.1

Q ss_pred             ccchhHHhhhcCCchH-HHHHHH--HHHHHHcCCHHHHHHHHhhCCC--C-CchhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048799            2 LKDGSKLFDELPERNL-VTWNVM--ITGLVKWGELEYARSLFEEMPC--R-NVVSWTGIIDGYTRMNRSNGALALFRRMV   75 (331)
Q Consensus         2 ~~~A~~~~~~~~~p~~-~~~~~l--~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   75 (331)
                      .++|+..+++...|+. ..+..+  ...+...|++++|+++|+++.+  | +...+..++..+...++.++|++.++++.
T Consensus        84 ~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~  163 (822)
T PRK14574         84 DQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELA  163 (822)
T ss_pred             cHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhc
Confidence            3456666666554422 222222  4456666777777777776652  2 33445555666666677777777776663


Q ss_pred             hccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHH-----------
Q 048799           76 ACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFE-----------  144 (331)
Q Consensus        76 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~-----------  144 (331)
                      .   ..|+...+..++..+...++..+|++.++++++..+.  +...+..+..++.+.|-...|.++..           
T Consensus       164 ~---~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~--n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~  238 (822)
T PRK14574        164 E---RDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPT--SEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHY  238 (822)
T ss_pred             c---cCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHH
Confidence            2   2344444433333333345554577777777766443  45555555555555443333333222           


Q ss_pred             -------------------------------------Hhhh---cCCcH-HHH----HHHHHHHHccCChHHHHHHHHHH
Q 048799          145 -------------------------------------DISV---ERKNL-VSW----TSIISGFAMHGMGKEAVENFERM  179 (331)
Q Consensus       145 -------------------------------------~~~~---~~~~~-~~~----~~l~~~~~~~~~~~~a~~~~~~m  179 (331)
                                                           .+..   ..|.. ..|    .-.+-++...+++.++++.|+.|
T Consensus       239 ~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l  318 (822)
T PRK14574        239 RQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAM  318 (822)
T ss_pred             HHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence                                                 1111   01211 111    12234566777888888888888


Q ss_pred             HhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcC----CCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc
Q 048799          180 QKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECE----VLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT  255 (331)
Q Consensus       180 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  255 (331)
                      ...+.+....+-..+..+|...+.+++|+.++..+....+    .+++......|.-+|...+++++|..+++.+....|
T Consensus       319 ~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p  398 (822)
T PRK14574        319 EAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTP  398 (822)
T ss_pred             hhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC
Confidence            8777655556777788888888888888888888765411    122344456777888888888888888888776412


Q ss_pred             -------------c---HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          256 -------------N---VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       256 -------------~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                                   +   ......++..+.-.|+..+|++.++++....|.++.....++.++...|...+|+..++....
T Consensus       399 ~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~  478 (822)
T PRK14574        399 YQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVES  478 (822)
T ss_pred             cEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Confidence                         2   123344566677788888888888888888888888888888888888888888888866544


Q ss_pred             c
Q 048799          320 R  320 (331)
Q Consensus       320 ~  320 (331)
                      .
T Consensus       479 l  479 (822)
T PRK14574        479 L  479 (822)
T ss_pred             h
Confidence            3

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

Probab=99.77  E-value=3.3e-15  Score=114.38  Aligned_cols=279  Identities=14%  Similarity=0.086  Sum_probs=184.9

Q ss_pred             ccchhHHhhhcCCchHHH---HHHHHHHHHHcCCHHHHHHHHhhCC-CCCch------hHHHHHHHHHhcCChhHHHHHH
Q 048799            2 LKDGSKLFDELPERNLVT---WNVMITGLVKWGELEYARSLFEEMP-CRNVV------SWTGIIDGYTRMNRSNGALALF   71 (331)
Q Consensus         2 ~~~A~~~~~~~~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~------~~~~l~~~~~~~~~~~~a~~~~   71 (331)
                      .++|.++|-+|.+-|..|   --+|.+.|.+.|..|+|+++-..+. +||..      +...|..-|...|-+++|..+|
T Consensus        51 ~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f  130 (389)
T COG2956          51 PDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIF  130 (389)
T ss_pred             cchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            467888888877544443   4467777888888888888877765 44432      3445666677888888888888


Q ss_pred             HHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcch---hHHHHHHHHHHHhcCCHhHHHHHHHHhhh
Q 048799           72 RRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFH---IHVSNCLIDTYAKCGCIFSALKLFEDISV  148 (331)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  148 (331)
                      ..++. .+ .--......|+..|-...+|++|+++-+++.+.+..+..   ...|.-|...+....+.+.|..++.++.+
T Consensus       131 ~~L~d-e~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlq  208 (389)
T COG2956         131 NQLVD-EG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQ  208 (389)
T ss_pred             HHHhc-ch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHh
Confidence            87732 21 123446667788888888888888888877777665422   23455555666667778888888888777


Q ss_pred             cCCcH-HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhH
Q 048799          149 ERKNL-VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHY  227 (331)
Q Consensus       149 ~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  227 (331)
                      .+|+. .+--.+.......|++++|++.++...+.+..--..+...|..+|...|+.++...++..+.+.   .+....-
T Consensus       209 a~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~~  285 (389)
T COG2956         209 ADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET---NTGADAE  285 (389)
T ss_pred             hCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc---cCCccHH
Confidence            66643 3444555677778888888888888777664445566777778888888888888888777754   3444444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhc---CCchhHHHHHHHHHHH
Q 048799          228 GCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSF---HGNVEMGERVTRKILE  285 (331)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~  285 (331)
                      ..+.+.-....-.+.|...+.+-....|+...+..++.....   .|...+....+++|..
T Consensus       286 l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         286 LMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             HHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence            455554444455566666555555555887777777776543   3445556666666664

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.76  E-value=9.9e-15  Score=122.65  Aligned_cols=279  Identities=11%  Similarity=-0.034  Sum_probs=215.1

Q ss_pred             CccchhHHhhhcCC--chHHHHHHH-HHHHHHcCCHHHHHHHHhhCCC--CCchhHH--HHHHHHHhcCChhHHHHHHHH
Q 048799            1 FLKDGSKLFDELPE--RNLVTWNVM-ITGLVKWGELEYARSLFEEMPC--RNVVSWT--GIIDGYTRMNRSNGALALFRR   73 (331)
Q Consensus         1 ~~~~A~~~~~~~~~--p~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~--~l~~~~~~~~~~~~a~~~~~~   73 (331)
                      +++.|.+.+....+  +++..+..+ ..+..+.|+++.|...|.++.+  |+.....  .....+...|++++|...+++
T Consensus        99 d~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~  178 (398)
T PRK10747         99 DYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGVDK  178 (398)
T ss_pred             CHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            34567777776553  233333333 4555899999999999999874  4443332  335678999999999999999


Q ss_pred             HHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchh------HHHHHHHHHHHhcCCHhHHHHHHHHhh
Q 048799           74 MVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHI------HVSNCLIDTYAKCGCIFSALKLFEDIS  147 (331)
Q Consensus        74 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~  147 (331)
                      +....  |-++.....+...+.+.|++++|.+++..+.+.+..++..      .+|..++.......+.+...++++...
T Consensus       179 ~~~~~--P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp  256 (398)
T PRK10747        179 LLEVA--PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQS  256 (398)
T ss_pred             HHhcC--CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCC
Confidence            94432  3456788889999999999999999999999887653121      233344444445556677777787776


Q ss_pred             hcC-CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhh
Q 048799          148 VER-KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKH  226 (331)
Q Consensus       148 ~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  226 (331)
                      ... .++.....+...+...|+.++|.+++++..+  .+|+....  ++.+....++.+++.+..+...+.  .+-|...
T Consensus       257 ~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~--~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~--~P~~~~l  330 (398)
T PRK10747        257 RKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLK--RQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ--HGDTPLL  330 (398)
T ss_pred             HHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHH--HHHhhccCCChHHHHHHHHHHHhh--CCCCHHH
Confidence            553 4677888999999999999999999999887  34565322  334445669999999999999874  3446778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhh
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEME  287 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  287 (331)
                      +..+...+.+.|++++|.+.|+.+....|+...+..+..++.+.|+.++|.+++++...+.
T Consensus       331 ~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~  391 (398)
T PRK10747        331 WSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            8899999999999999999999999888999999999999999999999999999998743

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

Probab=99.76  E-value=9.4e-18  Score=134.82  Aligned_cols=254  Identities=13%  Similarity=0.148  Sum_probs=113.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhC-CC----CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhh
Q 048799           22 VMITGLVKWGELEYARSLFEEM-PC----RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQ   96 (331)
Q Consensus        22 ~l~~~~~~~g~~~~A~~~~~~~-~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   96 (331)
                      .+...+.+.|++++|++++++. ..    .|...|..+.......++++.|...++++...+.  -++..+..++.. ..
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~--~~~~~~~~l~~l-~~   89 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK--ANPQDYERLIQL-LQ   89 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc--cccccccccccc-cc
Confidence            5688899999999999999643 22    3455666777778889999999999999944322  245566666666 78


Q ss_pred             cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc---CCcHHHHHHHHHHHHccCChHHHH
Q 048799           97 NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE---RKNLVSWTSIISGFAMHGMGKEAV  173 (331)
Q Consensus        97 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~  173 (331)
                      .+++++|.+++....+..  + ++..+..++..+...++++++..+++.+...   +.+...|..+...+.+.|+.++|+
T Consensus        90 ~~~~~~A~~~~~~~~~~~--~-~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~  166 (280)
T PF13429_consen   90 DGDPEEALKLAEKAYERD--G-DPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKAL  166 (280)
T ss_dssp             -------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHH
T ss_pred             cccccccccccccccccc--c-ccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            999999999998877654  3 5566778889999999999999999997654   346778888999999999999999


Q ss_pred             HHHHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhccc
Q 048799          174 ENFERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPS  252 (331)
Q Consensus       174 ~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  252 (331)
                      +.+++..+.  .| |......++..+...|+.+++.+++....+.  .+.++..+..+..+|...|+.++|..++++...
T Consensus       167 ~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~--~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~  242 (280)
T PF13429_consen  167 RDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKA--APDDPDLWDALAAAYLQLGRYEEALEYLEKALK  242 (280)
T ss_dssp             HHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHH--CcCHHHHHHHHHHHhcccccccccccccccccc
Confidence            999999885  36 4677888999999999999999999998875  255777888999999999999999999999887


Q ss_pred             C-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          253 E-ITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       253 ~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      . +.|+.....+..++...|+.++|.++.+++.+
T Consensus       243 ~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  243 LNPDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HSTT-HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccccccccc
Confidence            6 44788889999999999999999999988765

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

Probab=99.75  E-value=2.7e-16  Score=131.09  Aligned_cols=276  Identities=13%  Similarity=0.065  Sum_probs=223.5

Q ss_pred             cchhHHhhhcC--CchH-HHHHHHHHHHHHcCCHHHHHHHHhhCCC------CCchhHHHHHHHHHhcCChhHHHHHHHH
Q 048799            3 KDGSKLFDELP--ERNL-VTWNVMITGLVKWGELEYARSLFEEMPC------RNVVSWTGIIDGYTRMNRSNGALALFRR   73 (331)
Q Consensus         3 ~~A~~~~~~~~--~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~   73 (331)
                      ++|+.+|..++  .+|. -....+..+|...+++++|.++|+.+.+      .+...|.+.+..+-+    +-++..+.+
T Consensus       336 ~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~Laq  411 (638)
T KOG1126|consen  336 REALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYLAQ  411 (638)
T ss_pred             HHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHHHH
Confidence            57888888865  3444 3445677999999999999999999873      356788888876533    223333333


Q ss_pred             HHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-c
Q 048799           74 MVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-N  152 (331)
Q Consensus        74 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~  152 (331)
                      -+.. -.+..+.+|.++.++|.-+++.+.|++.|+++++..+.  ...+|+.+..-+.....+|.|...|+.+....| +
T Consensus       412 ~Li~-~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~--faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~rh  488 (638)
T KOG1126|consen  412 DLID-TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR--FAYAYTLLGHESIATEEFDKAMKSFRKALGVDPRH  488 (638)
T ss_pred             HHHh-hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc--cchhhhhcCChhhhhHHHHhHHHHHHhhhcCCchh
Confidence            2121 13456789999999999999999999999999998554  788999999999999999999999999987655 4


Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHH
Q 048799          153 LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCL  230 (331)
Q Consensus       153 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l  230 (331)
                      -.+|..+...|.+.++++.|+-.|+++.+-  .| +......+...+.+.|+.++|+++++++...   .| |+..--..
T Consensus       489 YnAwYGlG~vy~Kqek~e~Ae~~fqkA~~I--NP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~l---d~kn~l~~~~~  563 (638)
T KOG1126|consen  489 YNAWYGLGTVYLKQEKLEFAEFHFQKAVEI--NPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHL---DPKNPLCKYHR  563 (638)
T ss_pred             hHHHHhhhhheeccchhhHHHHHHHhhhcC--CccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhc---CCCCchhHHHH
Confidence            567888889999999999999999999884  45 4556667777888999999999999999853   33 55555666


Q ss_pred             HHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          231 IDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      +..+...++.++|++.++++....| +...+..++..|.+.|+.+.|..-|.-+..++|.-
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            7778899999999999999998855 46788888999999999999999999999988865

>TIGR00540 hemY_coli hemY protein

Probab=99.75  E-value=1.1e-14  Score=122.94  Aligned_cols=283  Identities=10%  Similarity=0.039  Sum_probs=201.5

Q ss_pred             HHcCCHHHHHHHHhhCCC--CCc-hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCch--HHHHHHHHHHhhcCchhH
Q 048799           28 VKWGELEYARSLFEEMPC--RNV-VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSE--ITILAVFPAIWQNGDVRN  102 (331)
Q Consensus        28 ~~~g~~~~A~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~  102 (331)
                      ...|+++.|.+.+.+..+  |+. ..+-....++.+.|+++.|.+.+.+..+ .  .|+.  .........+...|+++.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~-~--~p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAE-L--AGNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-h--CCcCchHHHHHHHHHHHHCCCHHH
Confidence            568999999999988763  333 2344445677888999999999999843 2  2343  344445778888999999


Q ss_pred             HHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC-CcHHHHH----HHHHHHHccCChHHHHHHHH
Q 048799          103 CQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVER-KNLVSWT----SIISGFAMHGMGKEAVENFE  177 (331)
Q Consensus       103 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~----~l~~~~~~~~~~~~a~~~~~  177 (331)
                      |...++.+.+..+.  ++.+...+...+...|++++|.+.+..+.+.. .+...+.    .........+..++..+.+.
T Consensus       172 Al~~l~~l~~~~P~--~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~  249 (409)
T TIGR00540       172 ARHGVDKLLEMAPR--HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLL  249 (409)
T ss_pred             HHHHHHHHHHhCCC--CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            99999999998655  67788889999999999999999999988663 2333231    11112223333344444555


Q ss_pred             HHHhccC---CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhh---HHHHHHHHHhcCCHHHHHHHHhhcc
Q 048799          178 RMQKVVL---KPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKH---YGCLIDMLGRAGRLEQAEKVASGIP  251 (331)
Q Consensus       178 ~m~~~~~---~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~  251 (331)
                      .+.....   +.+...+..+...+...|+.++|.+.+++..+.   .|+...   .....-.....++.+.+.+.++...
T Consensus       250 ~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~l  326 (409)
T TIGR00540       250 NWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQA  326 (409)
T ss_pred             HHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHH
Confidence            5544321   137778888888999999999999999999875   333331   1112222344578888888888887


Q ss_pred             cCCc-cH--HHHHHHHHHHhcCCchhHHHHHHHH--HHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          252 SEIT-NV--VVWRTLLGACSFHGNVEMGERVTRK--ILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       252 ~~~p-~~--~~~~~l~~~~~~~g~~~~a~~~~~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      +..| ++  ....++...+.+.|++++|.+.|+.  ..+..|++ ..+..++..+.+.|+.++|.+++++-..
T Consensus       327 k~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~-~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       327 KNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDA-NDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7744 34  5667888999999999999999994  55567776 5577999999999999999999887543

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.

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.74  E-value=5e-14  Score=126.31  Aligned_cols=319  Identities=12%  Similarity=-0.016  Sum_probs=236.2

Q ss_pred             CccchhHHhhhcC--Cc-hHHHHHHHHHHHHHcCCHHHHHHHHhhCCC--CCchhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048799            1 FLKDGSKLFDELP--ER-NLVTWNVMITGLVKWGELEYARSLFEEMPC--RNVVSWTGIIDGYTRMNRSNGALALFRRMV   75 (331)
Q Consensus         1 ~~~~A~~~~~~~~--~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   75 (331)
                      ++++|+++|+++.  .| +...+..++..+...++.++|+..++++.+  |+...+..++..+...++..+|++.++++.
T Consensus       117 dyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll  196 (822)
T PRK14574        117 RWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAV  196 (822)
T ss_pred             CHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            3578999999987  34 567777888999999999999999999985  444444444444444666666999999995


Q ss_pred             hccCCCCchHHHHHHHHHHhhcCchhHHHH------------------------------------------------HH
Q 048799           76 ACEYTEPSEITILAVFPAIWQNGDVRNCQL------------------------------------------------IH  107 (331)
Q Consensus        76 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~------------------------------------------------~~  107 (331)
                      ...  |.+...+..+..++.+.|-...|.+                                                -+
T Consensus       197 ~~~--P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~  274 (822)
T PRK14574        197 RLA--PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADY  274 (822)
T ss_pred             HhC--CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHH
Confidence            532  2345555555555555554333332                                                23


Q ss_pred             hhhhhc-CCCcch----hHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC--cHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 048799          108 GYGEKR-GFNAFH----IHVSNCLIDTYAKCGCIFSALKLFEDISVERK--NLVSWTSIISGFAMHGMGKEAVENFERMQ  180 (331)
Q Consensus       108 ~~~~~~-~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  180 (331)
                      +.+... +..|+.    ..+..-.+-++...|++.++++.|+.+.....  ...+-..+.++|...+++++|+.+|+.+.
T Consensus       275 ~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~  354 (822)
T PRK14574        275 QNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLY  354 (822)
T ss_pred             HHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHh
Confidence            333321 111211    11222345567789999999999999986642  34566678899999999999999999987


Q ss_pred             hcc-----CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcC----------CCCcH---hhHHHHHHHHHhcCCHHH
Q 048799          181 KVV-----LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECE----------VLPDI---KHYGCLIDMLGRAGRLEQ  242 (331)
Q Consensus       181 ~~~-----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------~~~~~---~~~~~l~~~~~~~g~~~~  242 (331)
                      ...     ..++......|.-++...+++++|..+++.+.+...          -.|+.   ..+..++..+.-.|++.+
T Consensus       355 ~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~  434 (822)
T PRK14574        355 YSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPT  434 (822)
T ss_pred             hccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHH
Confidence            643     123444457889999999999999999999987311          01221   234556778889999999


Q ss_pred             HHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          243 AEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       243 A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      |++.++++... +-|......+...+...|.+..|++.++.+....|++..+....+..+...+++.+|..+.+...+..
T Consensus       435 Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~  514 (822)
T PRK14574        435 AQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRS  514 (822)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhC
Confidence            99999999877 55789999999999999999999999999999999999999999999999999999999887775543

>TIGR00540 hemY_coli hemY protein

Probab=99.73  E-value=1.7e-14  Score=121.82  Aligned_cols=90  Identities=12%  Similarity=-0.005  Sum_probs=38.7

Q ss_pred             HHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChH
Q 048799           92 PAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGK  170 (331)
Q Consensus        92 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  170 (331)
                      .+....|+.+.|.+.+.++.+..+.+ ...+.......+...|+++.|...++.+.+..| +...+..+...+...|+++
T Consensus       126 ~aa~~~g~~~~A~~~l~~a~~~~p~~-~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~  204 (409)
T TIGR00540       126 EAAQQRGDEARANQHLEEAAELAGND-NILVEIARTRILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQ  204 (409)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCcC-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHH
Confidence            34444444444444444444332221 111222234444444444444444444444433 2334444444444444444


Q ss_pred             HHHHHHHHHHhc
Q 048799          171 EAVENFERMQKV  182 (331)
Q Consensus       171 ~a~~~~~~m~~~  182 (331)
                      +|.+++..+.+.
T Consensus       205 ~a~~~l~~l~k~  216 (409)
T TIGR00540       205 ALDDIIDNMAKA  216 (409)
T ss_pred             HHHHHHHHHHHc
Confidence            444444444444

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.

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

Probab=99.72  E-value=2.6e-14  Score=109.61  Aligned_cols=302  Identities=9%  Similarity=0.005  Sum_probs=220.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhCCCCCchh---HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCch--HHHHHHHHHH
Q 048799           20 WNVMITGLVKWGELEYARSLFEEMPCRNVVS---WTGIIDGYTRMNRSNGALALFRRMVACEYTEPSE--ITILAVFPAI   94 (331)
Q Consensus        20 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~   94 (331)
                      |-.=++.+ -..+.++|.++|-+|.+.|..+   .-+|.+.|.+.|.+++|+.+-+.+..+.+..-+.  .....|..-|
T Consensus        39 Yv~GlNfL-Ls~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dy  117 (389)
T COG2956          39 YVKGLNFL-LSNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDY  117 (389)
T ss_pred             HHhHHHHH-hhcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHH
Confidence            43333333 3578899999999998655554   4578888999999999999999885543332222  2445577788


Q ss_pred             hhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcH------HHHHHHHHHHHccCC
Q 048799           95 WQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNL------VSWTSIISGFAMHGM  168 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~  168 (331)
                      ...|-+|.|+.+|..+.+.+.-  -..+...|+..|-...+|++|+++-++..+..+..      ..|--+...+....+
T Consensus       118 m~aGl~DRAE~~f~~L~de~ef--a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~  195 (389)
T COG2956         118 MAAGLLDRAEDIFNQLVDEGEF--AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSD  195 (389)
T ss_pred             HHhhhhhHHHHHHHHHhcchhh--hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhh
Confidence            8999999999999999886644  45677789999999999999999988887664322      235566666777889


Q ss_pred             hHHHHHHHHHHHhccCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHH
Q 048799          169 GKEAVENFERMQKVVLKPNR-VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVA  247 (331)
Q Consensus       169 ~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  247 (331)
                      .+.|..++.+..+.+  |+. ..-..+.+.....|+++.|.+.++.+.++ +..--..+...|..+|...|+.++...++
T Consensus       196 ~d~A~~~l~kAlqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L~~~Y~~lg~~~~~~~fL  272 (389)
T COG2956         196 VDRARELLKKALQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQ-NPEYLSEVLEMLYECYAQLGKPAEGLNFL  272 (389)
T ss_pred             HHHHHHHHHHHHhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHh-ChHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            999999999988754  333 22334667788899999999999999887 54445677888899999999999999999


Q ss_pred             hhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHh---hhccCcchHHHHHHHhhccccC
Q 048799          248 SGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILA---GVWRYGDAERLRRVVDERNALK  324 (331)
Q Consensus       248 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~---~~g~~~~a~~~~~~~~~~~~~~  324 (331)
                      .++.+..+....-..+...-....-.+.|...+.+-++..|.. ..+..++..-.   .-|+..+....++.|....++.
T Consensus       273 ~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~-~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~  351 (389)
T COG2956         273 RRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTM-RGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRR  351 (389)
T ss_pred             HHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcH-HHHHHHHHhhhccccccchhhhHHHHHHHHHHHHhh
Confidence            9988886666655555555555555666777777666667765 44555555432   3456778888888888877776


Q ss_pred             CCCC
Q 048799          325 FPGR  328 (331)
Q Consensus       325 ~~~~  328 (331)
                      .|.|
T Consensus       352 ~~~Y  355 (389)
T COG2956         352 KPRY  355 (389)
T ss_pred             cCCc
Confidence            6654

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

Probab=99.71  E-value=1.1e-14  Score=117.45  Aligned_cols=215  Identities=15%  Similarity=0.082  Sum_probs=170.8

Q ss_pred             cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHH
Q 048799           97 NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVEN  175 (331)
Q Consensus        97 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~  175 (331)
                      .|+.-.|..-|+..++..+.  +...|.-+...|....+-.+....|..+.+.+| ++.+|..-...+.-.+++++|..-
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~--~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aD  416 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPA--FNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIAD  416 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcc--cchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHH
Confidence            35555666666666666554  334466677888888888999999998887755 677787777777788899999999


Q ss_pred             HHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCC
Q 048799          176 FERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEI  254 (331)
Q Consensus       176 ~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  254 (331)
                      |++.+.  +.| +...|..+..+..+.+.+++++..|++.++  .+|..+.+|+...+.+...++++.|.+.|+.++...
T Consensus       417 F~Kai~--L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  417 FQKAIS--LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHhh--cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            999877  445 445666676677788999999999999988  466678899999999999999999999999988774


Q ss_pred             cc---------HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHh
Q 048799          255 TN---------VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVD  318 (331)
Q Consensus       255 p~---------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  318 (331)
                      |.         +.+...++..-.+ +++..|+.+++++.+++|.+...|..|+....+.|+.++|+++|++-.
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             cccccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            43         2222223322233 899999999999999999999999999999999999999999998653

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

Probab=99.71  E-value=9.2e-14  Score=111.52  Aligned_cols=164  Identities=11%  Similarity=0.043  Sum_probs=142.2

Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHH
Q 048799          153 LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN-RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLI  231 (331)
Q Consensus       153 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  231 (331)
                      +.|+..+.+-|.-.++.++|+..|++..+.+  |. ...|+.+..-|...++...|.+-++.+++-  .+.|-..|-.|.
T Consensus       330 ~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN--p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi--~p~DyRAWYGLG  405 (559)
T KOG1155|consen  330 PETCCIIANYYSLRSEHEKAVMYFKRALKLN--PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI--NPRDYRAWYGLG  405 (559)
T ss_pred             ccceeeehhHHHHHHhHHHHHHHHHHHHhcC--cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc--CchhHHHHhhhh
Confidence            3444555666777889999999999998854  44 466788888899999999999999999863  334889999999


Q ss_pred             HHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcch
Q 048799          232 DMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDA  310 (331)
Q Consensus       232 ~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  310 (331)
                      ++|.-.+.+.-|+-.|+++... +.|+..|..|+.+|.+.++.++|++.|+.+...+......+..++.+|.+.++.++|
T Consensus       406 QaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eA  485 (559)
T KOG1155|consen  406 QAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEA  485 (559)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHH
Confidence            9999999999999999999888 447899999999999999999999999999987666668999999999999999999


Q ss_pred             HHHHHHHhhc
Q 048799          311 ERLRRVVDER  320 (331)
Q Consensus       311 ~~~~~~~~~~  320 (331)
                      ...+++..+.
T Consensus       486 a~~yek~v~~  495 (559)
T KOG1155|consen  486 AQYYEKYVEV  495 (559)
T ss_pred             HHHHHHHHHH
Confidence            9999888763

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.67  E-value=5.3e-14  Score=110.17  Aligned_cols=200  Identities=12%  Similarity=0.055  Sum_probs=144.0

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                      ....+..+...+...|++++|...++++....| +...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            345666777777778888888888877766554 45666777777777788888888887776643 2344566667777


Q ss_pred             HhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHH
Q 048799          198 CSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMG  276 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a  276 (331)
                      +...|++++|.+.++++.+....+.....+..+...+...|++++|.+.+.+.....| +...+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            7778888888888888776412222445566677778888888888888888776633 456777777888888888888


Q ss_pred             HHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          277 ERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      ...++++.+..|.++..+..++..+...|+.++|..+.+.+..
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            8888888877676666677777788888888888887776654

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=99.66  E-value=1.4e-13  Score=120.65  Aligned_cols=263  Identities=14%  Similarity=0.058  Sum_probs=190.2

Q ss_pred             CchhHHHHHHHHHh-----cCChhHHHHHHHHHHhccCCCCc-hHHHHHHHHHHh---------hcCchhHHHHHHhhhh
Q 048799           47 NVVSWTGIIDGYTR-----MNRSNGALALFRRMVACEYTEPS-EITILAVFPAIW---------QNGDVRNCQLIHGYGE  111 (331)
Q Consensus        47 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~  111 (331)
                      +...|...+.+...     .+++++|...|++.+..   .|+ ...+..+..++.         ..+++++|...+++++
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l---dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM---SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc---CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            44555555555321     23467999999998543   343 445655555443         2345899999999999


Q ss_pred             hcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCH-H
Q 048799          112 KRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNR-V  189 (331)
Q Consensus       112 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~  189 (331)
                      +..+.  +..++..+...+...|++++|...|+++....|+ ...+..+..++...|++++|+..+++..+..  |+. .
T Consensus       332 ~ldP~--~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~  407 (553)
T PRK12370        332 ELDHN--NPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAA  407 (553)
T ss_pred             hcCCC--CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChh
Confidence            98655  7888889999999999999999999999988774 6788889999999999999999999998854  443 2


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccH-HHHHHHHHHH
Q 048799          190 TFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNV-VVWRTLLGAC  267 (331)
Q Consensus       190 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~  267 (331)
                      .+..++..+...|++++|...++++.+. . +| +...+..+..++...|+.++|...+.++....|+. ...+.+...|
T Consensus       408 ~~~~~~~~~~~~g~~eeA~~~~~~~l~~-~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~  485 (553)
T PRK12370        408 AGITKLWITYYHTGIDDAIRLGDELRSQ-H-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEY  485 (553)
T ss_pred             hHHHHHHHHHhccCHHHHHHHHHHHHHh-c-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHH
Confidence            3333444566789999999999998764 3 34 45567778888999999999999999987765554 4455555667


Q ss_pred             hcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          268 SFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       268 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ...|  +.|...++.+.+..-..+.........+.-.|+.+.+... +++.+.+
T Consensus       486 ~~~g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        486 CQNS--ERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hccH--HHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            7777  4888888887763222212233356666667777766665 7776653

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

Probab=99.66  E-value=1.1e-12  Score=103.71  Aligned_cols=286  Identities=12%  Similarity=0.055  Sum_probs=214.1

Q ss_pred             cCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHH
Q 048799           30 WGELEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLI  106 (331)
Q Consensus        30 ~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  106 (331)
                      .|++.+|+++..+-.+   .....|..-+.+.-+.|+.+.+-.++.+. .+....++.....+........|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~ea-ae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEA-AELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHH-hccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            6899999998887653   23345555566777889999999999998 4432345566677777888899999999999


Q ss_pred             HhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC---------cHHHHHHHHHHHHccCChHHHHHHHH
Q 048799          107 HGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK---------NLVSWTSIISGFAMHGMGKEAVENFE  177 (331)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~  177 (331)
                      ...+.+.++.  .+.+......+|.+.|++.....++.++.+.+.         ...+|+.++.=....+..+.-...++
T Consensus       176 v~~ll~~~pr--~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~  253 (400)
T COG3071         176 VDQLLEMTPR--HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWK  253 (400)
T ss_pred             HHHHHHhCcC--ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            9999888766  677778889999999999999999999877621         12456666666655566666555565


Q ss_pred             HHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-Ccc
Q 048799          178 RMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITN  256 (331)
Q Consensus       178 ~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~  256 (331)
                      ..-. ..+-++..-..++.-+.+.|+.++|.++..+..++ +..|+..   .+ -.+.+-++.+.-.+..+..... +.+
T Consensus       254 ~~pr-~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~L~---~~-~~~l~~~d~~~l~k~~e~~l~~h~~~  327 (400)
T COG3071         254 NQPR-KLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPRLC---RL-IPRLRPGDPEPLIKAAEKWLKQHPED  327 (400)
T ss_pred             hccH-HhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChhHH---HH-HhhcCCCCchHHHHHHHHHHHhCCCC
Confidence            5432 24455666667778888999999999999998887 6655521   12 2345667777666666665555 335


Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccccCC
Q 048799          257 VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKF  325 (331)
Q Consensus       257 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  325 (331)
                      +..+.+|...|.+.+.+.+|...|+.+.+..|+. ++|..++.++.+.|+..+|.++.++-.-.-.+|.
T Consensus       328 p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~-~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         328 PLLLSTLGRLALKNKLWGKASEALEAALKLRPSA-SDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCCh-hhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            6888999999999999999999999998877776 8899999999999999999999888765444443

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

Probab=99.65  E-value=7.7e-13  Score=106.76  Aligned_cols=322  Identities=14%  Similarity=0.122  Sum_probs=204.3

Q ss_pred             ccchhHHhhhcC--CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 048799            2 LKDGSKLFDELP--ERNLVTWNVMITGLVKWGELEYARSLFEEMP--CRNVVSWTGIIDGYTRMNRSNGALALFRRMVAC   77 (331)
Q Consensus         2 ~~~A~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   77 (331)
                      +..|.++|++-.  +|+..+|++.|..-.+-+.++.|..+|+...  .|++.+|--..+.-.+.|.+..|.++|+..+..
T Consensus       157 i~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~  236 (677)
T KOG1915|consen  157 IAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF  236 (677)
T ss_pred             cHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            455666666543  6777777777777777777777777777643  566666666666666667777777777666433


Q ss_pred             cCCC-CchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHH--------HHHhhh
Q 048799           78 EYTE-PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKL--------FEDISV  148 (331)
Q Consensus        78 ~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~--------~~~~~~  148 (331)
                      -|.. .+...+.+....-.+.+.++.|.-+|+-+++.-+.......|..+...=-+-|+.......        |+.+.+
T Consensus       237 ~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~  316 (677)
T KOG1915|consen  237 LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVS  316 (677)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHH
Confidence            2211 1112233333333445566666666666665533321234444444333344443332222        233333


Q ss_pred             cCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHH-------HHHHHHHH---HhccCChHHHHHHHHHHHHh
Q 048799          149 ERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRV-------TFLSVLNA---CSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       149 ~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-------~~~~l~~~---~~~~~~~~~a~~~~~~~~~~  217 (331)
                      .+| |-.+|--.+..-...|+.+...++|++.+.+ ++|-..       .|.-+=-+   -....+.+.+.++++..++.
T Consensus       317 ~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l  395 (677)
T KOG1915|consen  317 KNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL  395 (677)
T ss_pred             hCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            344 5667777777777788889999999888754 555221       12111111   12467788888888888762


Q ss_pred             cCCCCcHhhHH----HHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCcc
Q 048799          218 CEVLPDIKHYG----CLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGD  293 (331)
Q Consensus       218 ~~~~~~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  293 (331)
                        +|-...||.    ...+...++.++..|.+++..++...|...++...|..-.+.++++....+|++.++..|.+..+
T Consensus       396 --IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~  473 (677)
T KOG1915|consen  396 --IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYA  473 (677)
T ss_pred             --cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHH
Confidence              333334443    33444457788888888888888888888888888888888888899999999988888888888


Q ss_pred             HHHHHHHHhhhccCcchHHHHHHHhhccccCCC
Q 048799          294 YVLMYNILAGVWRYGDAERLRRVVDERNALKFP  326 (331)
Q Consensus       294 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  326 (331)
                      |...+..-...|+++.|..+|+..........|
T Consensus       474 W~kyaElE~~LgdtdRaRaifelAi~qp~ldmp  506 (677)
T KOG1915|consen  474 WSKYAELETSLGDTDRARAIFELAISQPALDMP  506 (677)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhcCcccccH
Confidence            888888888888888888888877765544333

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

Probab=99.65  E-value=3.1e-13  Score=108.60  Aligned_cols=252  Identities=14%  Similarity=0.099  Sum_probs=185.8

Q ss_pred             cCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCc-chhH------------------
Q 048799           61 MNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNA-FHIH------------------  121 (331)
Q Consensus        61 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~------------------  121 (331)
                      ..+.++++.-.+.. ...|.+-+...-+....+.....|+++|+.+|+++.+..+-. .|..                  
T Consensus       240 l~q~~e~~~k~e~l-~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~L  318 (559)
T KOG1155|consen  240 LHQHEEALQKKERL-SSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYL  318 (559)
T ss_pred             HHHHHHHHHHHHHH-HhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHH
Confidence            33445555544444 334443333333334444456667777777777766653211 1222                  


Q ss_pred             -------------HHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCC
Q 048799          122 -------------VSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN  187 (331)
Q Consensus       122 -------------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  187 (331)
                                   ++..+++-|.-.++.++|...|+++.+.+| ...+|+.+..-|...++...|++-++..++-. +-|
T Consensus       319 A~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~D  397 (559)
T KOG1155|consen  319 AQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRD  397 (559)
T ss_pred             HHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chh
Confidence                         333444556667788999999999998877 46789999999999999999999999998843 336


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHH
Q 048799          188 RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLG  265 (331)
Q Consensus       188 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~  265 (331)
                      -..|-.|.++|.-.+...-|+-+|+++.+   ++| |..+|.+|.++|.+.++.++|.+.|.++... ..+...+..|.+
T Consensus       398 yRAWYGLGQaYeim~Mh~YaLyYfqkA~~---~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~Lak  474 (559)
T KOG1155|consen  398 YRAWYGLGQAYEIMKMHFYALYYFQKALE---LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAK  474 (559)
T ss_pred             HHHHhhhhHHHHHhcchHHHHHHHHHHHh---cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHH
Confidence            78899999999999999999999999985   355 8899999999999999999999999998877 456688999999


Q ss_pred             HHhcCCchhHHHHHHHHHHHh-------hcCCCccHHHHHHHHhhhccCcchHHHHHHH
Q 048799          266 ACSFHGNVEMGERVTRKILEM-------ERGYGGDYVLMYNILAGVWRYGDAERLRRVV  317 (331)
Q Consensus       266 ~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  317 (331)
                      .|-+.++.++|...|.+.++.       .|....+..-|+.-+.+.+++++|..+....
T Consensus       475 Lye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~  533 (559)
T KOG1155|consen  475 LYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLV  533 (559)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            999999999999999999872       2222233334667777888888887654443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.65  E-value=1.6e-13  Score=115.38  Aligned_cols=236  Identities=16%  Similarity=0.097  Sum_probs=182.6

Q ss_pred             hHHHHHHHHHHhhcCchhHHHHHHhhhhhc-----CCCcchh-HHHHHHHHHHHhcCCHhHHHHHHHHhhhc--------
Q 048799           84 EITILAVFPAIWQNGDVRNCQLIHGYGEKR-----GFNAFHI-HVSNCLIDTYAKCGCIFSALKLFEDISVE--------  149 (331)
Q Consensus        84 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------  149 (331)
                      ..++..+...|...|+++.|+.+++..++.     |...+.. ...+.+...|...+++++|..+|+++...        
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            446667899999999999999999988765     2221122 34445788899999999999999998754        


Q ss_pred             CCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhc-----cC-CCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHhcC--
Q 048799          150 RKN-LVSWTSIISGFAMHGMGKEAVENFERMQKV-----VL-KPNR-VTFLSVLNACSHGGLVEEGLKFFDKMVEECE--  219 (331)
Q Consensus       150 ~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-----~~-~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--  219 (331)
                      .|. ..+++.|..+|.+.|++++|...+++..+-     |. .|.. .-++.+...|+..+++++|..+++...+.+.  
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence            232 457888888999999999999888876531     11 1222 3466777788999999999999998776532  


Q ss_pred             CCC----cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC--------Cc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHH-
Q 048799          220 VLP----DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE--------IT-NVVVWRTLLGACSFHGNVEMGERVTRKILE-  285 (331)
Q Consensus       220 ~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-  285 (331)
                      +.+    -..+++.|...|...|++++|.++++++...        .+ ....++.+...|.+.+++++|.++|.+... 
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            222    2467899999999999999999999998765        11 245678888999999999999999998876 


Q ss_pred             ---hhcCC---CccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          286 ---MERGY---GGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       286 ---~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                         ..|++   ..+|..|+.+|.+.|++++|.++.+....
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence               33444   45788899999999999999999888764

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

Probab=99.65  E-value=4.5e-13  Score=116.59  Aligned_cols=301  Identities=12%  Similarity=0.074  Sum_probs=194.2

Q ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCC------chhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCch--HH
Q 048799           15 RNLVTWNVMITGLVKWGELEYARSLFEEMPCRN------VVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSE--IT   86 (331)
Q Consensus        15 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~   86 (331)
                      .|+.+.+.|...|.-.|++..++.+...+...+      ..+|..+.++|...|++++|...|.+...   ..|+.  ..
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k---~~~d~~~l~  344 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLK---ADNDNFVLP  344 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc---cCCCCcccc
Confidence            355666667777777777777777766665321      23566777777777777777777766632   22332  34


Q ss_pred             HHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcC----CHhHHHHHHHHhhhcCC-cHHHHHHHHH
Q 048799           87 ILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCG----CIFSALKLFEDISVERK-NLVSWTSIIS  161 (331)
Q Consensus        87 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~A~~~~~~~~~~~~-~~~~~~~l~~  161 (331)
                      +..+...+...|+++.+...|+...+..+.  +..+...|+..|...+    ..+.|..++.+.....| +..+|-.+..
T Consensus       345 ~~GlgQm~i~~~dle~s~~~fEkv~k~~p~--~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laq  422 (1018)
T KOG2002|consen  345 LVGLGQMYIKRGDLEESKFCFEKVLKQLPN--NYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQ  422 (1018)
T ss_pred             ccchhHHHHHhchHHHHHHHHHHHHHhCcc--hHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            445666777777777777777777776443  5566666666666654    45666666666655533 5666766666


Q ss_pred             HHHccCChHHHHHHHHHHH----hccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcC--CCCcH------hhHHH
Q 048799          162 GFAMHGMGKEAVENFERMQ----KVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECE--VLPDI------KHYGC  229 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~----~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~------~~~~~  229 (331)
                      .+...+ ...++..|..+.    ..+..+.....|.+...+...|+++.|...|........  ..++.      .+--.
T Consensus       423 l~e~~d-~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YN  501 (1018)
T KOG2002|consen  423 LLEQTD-PWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYN  501 (1018)
T ss_pred             HHHhcC-hHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHH
Confidence            665443 333366655433    344446677777888778888888888888877764310  11222      23334


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCc
Q 048799          230 LIDMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYG  308 (331)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  308 (331)
                      +...+-..++++.|.+.|..+....|. ...|..++......++..+|...++.+...+..++..+..++..+.+...|.
T Consensus       502 larl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~  581 (1018)
T KOG2002|consen  502 LARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWK  581 (1018)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhc
Confidence            455556667888888888887777555 3555555544455677788888888888877777788888888888888888


Q ss_pred             chHHHHHHHhhcc
Q 048799          309 DAERLRRVVDERN  321 (331)
Q Consensus       309 ~a~~~~~~~~~~~  321 (331)
                      .|.+-|+.+.+.-
T Consensus       582 ~a~k~f~~i~~~~  594 (1018)
T KOG2002|consen  582 PAKKKFETILKKT  594 (1018)
T ss_pred             ccccHHHHHHhhh
Confidence            8887666665543

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

Probab=99.65  E-value=2.7e-12  Score=101.49  Aligned_cols=277  Identities=13%  Similarity=0.016  Sum_probs=220.9

Q ss_pred             CccchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCC----CchhHHHHHHHHHhcCChhHHHHHHHH
Q 048799            1 FLKDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMPCR----NVVSWTGIIDGYTRMNRSNGALALFRR   73 (331)
Q Consensus         1 ~~~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~   73 (331)
                      ++.+|.++..+..   +-....|..-+.+-.+.|+.+.+-+++.+..++    +...+-+........|+++.|..-+.+
T Consensus        99 ~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~  178 (400)
T COG3071          99 DFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQ  178 (400)
T ss_pred             cHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHH
Confidence            4567777777654   234456777778889999999999999998753    345666777889999999999999998


Q ss_pred             HHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcc------hhHHHHHHHHHHHhcCCHhHHHHHHHHhh
Q 048799           74 MVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAF------HIHVSNCLIDTYAKCGCIFSALKLFEDIS  147 (331)
Q Consensus        74 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  147 (331)
                      +.. .+ +-++........+|.+.|++.....+...+.+.+.-.+      ...+|..+++-....+..+.-...++...
T Consensus       179 ll~-~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~p  256 (400)
T COG3071         179 LLE-MT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQP  256 (400)
T ss_pred             HHH-hC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhcc
Confidence            843 32 34566788889999999999999999999999886541      12466666666666666776667777776


Q ss_pred             hc-CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhh
Q 048799          148 VE-RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKH  226 (331)
Q Consensus       148 ~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  226 (331)
                      .. ..++..-..++.-+.+.|+.++|.++.++..+.+..|+.   ..+ -.+.+-++.+.-++..++..+.  .+-++..
T Consensus       257 r~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L---~~~-~~~l~~~d~~~l~k~~e~~l~~--h~~~p~L  330 (400)
T COG3071         257 RKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL---CRL-IPRLRPGDPEPLIKAAEKWLKQ--HPEDPLL  330 (400)
T ss_pred             HHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH---HHH-HhhcCCCCchHHHHHHHHHHHh--CCCChhH
Confidence            55 345666777888899999999999999999988776662   222 2456788888888888888775  3335588


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      +..|...|.+.+.+.+|...|+......|+..+|+.+..++.+.|+..+|.++.++...
T Consensus       331 ~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         331 LSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            89999999999999999999999888899999999999999999999999999999986

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.64  E-value=5.4e-13  Score=106.36  Aligned_cols=306  Identities=16%  Similarity=0.142  Sum_probs=206.1

Q ss_pred             HhhhcCCchHHHHHHHHHHHHHcCCHHHHHHHHhhCCC----CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc
Q 048799            8 LFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPC----RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS   83 (331)
Q Consensus         8 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   83 (331)
                      ++-+..+.+..+|.+||.++|+-...++|.++|++-..    -+..+||.+|.+-.    +....+++.+| ......||
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S----~~~~K~Lv~EM-isqkm~Pn  272 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS----YSVGKKLVAEM-ISQKMTPN  272 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH----hhccHHHHHHH-HHhhcCCc
Confidence            44455556778999999999999999999999998763    46678888877532    22337788888 66678999


Q ss_pred             hHHHHHHHHHHhhcCchhH----HHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhH-HHHHHHHhhhc---------
Q 048799           84 EITILAVFPAIWQNGDVRN----CQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFS-ALKLFEDISVE---------  149 (331)
Q Consensus        84 ~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~---------  149 (331)
                      ..|+|+++.+..+.|+++.    |.+++.+|.+.|+.| +...|..++..+++.++..+ |..+...+...         
T Consensus       273 l~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVeP-sLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~  351 (625)
T KOG4422|consen  273 LFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEP-SLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPI  351 (625)
T ss_pred             hHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCc-chhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCC
Confidence            9999999999999997765    467888999999999 99999999999988877644 44444444322         


Q ss_pred             CC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhcc----CCCCH---HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCC
Q 048799          150 RK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVV----LKPNR---VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVL  221 (331)
Q Consensus       150 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~----~~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  221 (331)
                      .| +...|...+..|....+.+-|.++-.-+....    +.|+.   +-|..+....|.....+.-...|+.|.-. -+-
T Consensus       352 ~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~-~y~  430 (625)
T KOG4422|consen  352 TPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPS-AYF  430 (625)
T ss_pred             CCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-eec
Confidence            23 34456677777778888887777665543321    33332   34566777777888888888888888776 667


Q ss_pred             CcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC--CccHHHHHHHHHHHhcCC-ch--h---H----HHHHHHHH---HHh
Q 048799          222 PDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE--ITNVVVWRTLLGACSFHG-NV--E---M----GERVTRKI---LEM  286 (331)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g-~~--~---~----a~~~~~~~---~~~  286 (331)
                      |+..+...++++..-.|.++-.-+++..+...  .-+...-..++..+++.. +.  .   +    ..++.-.+   .+.
T Consensus       431 p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~  510 (625)
T KOG4422|consen  431 PHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYES  510 (625)
T ss_pred             CCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHh
Confidence            78888888888888888888877777776654  112222222333333332 11  0   0    00111111   110


Q ss_pred             -------hcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          287 -------ERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       287 -------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                             ..-.+......+..+.+.|+.++|.+++..+.++
T Consensus       511 ~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~  551 (625)
T KOG4422|consen  511 QPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRK  551 (625)
T ss_pred             hHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhc
Confidence                   1112344566677778888888888888777543

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

Probab=99.64  E-value=4e-13  Score=116.89  Aligned_cols=240  Identities=9%  Similarity=-0.018  Sum_probs=141.8

Q ss_pred             CchHHHHHHHHHHhhcCchhHHHHHHhhhhhc---CCCc-----chhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-
Q 048799           82 PSEITILAVFPAIWQNGDVRNCQLIHGYGEKR---GFNA-----FHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-  152 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-  152 (331)
                      +-+...|.+.......|++..|...|..+...   ...+     .+..+-..+..++-..++++.|.+.|..+.+..|+ 
T Consensus       450 ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~Y  529 (1018)
T KOG2002|consen  450 IPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGY  529 (1018)
T ss_pred             CCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchh
Confidence            34445555555555555555555555554433   0011     01112233445555555555555555555555443 


Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHH
Q 048799          153 LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLID  232 (331)
Q Consensus       153 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  232 (331)
                      +..|..++......+...+|...++...... ..++..+..+...+.....+..|.+-|....+.....+|.....+|..
T Consensus       530 Id~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN  608 (1018)
T KOG2002|consen  530 IDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGN  608 (1018)
T ss_pred             HHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhH
Confidence            3334444433334456667777776665432 223333444555666666666666666655554333456665555655


Q ss_pred             HHHh------------cCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHH
Q 048799          233 MLGR------------AGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYN  299 (331)
Q Consensus       233 ~~~~------------~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  299 (331)
                      .|.+            .+..++|.++|.++... +.|...-+-+..+++..|++..|..+|.++.+...+.+.+|..++.
T Consensus       609 ~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah  688 (1018)
T KOG2002|consen  609 VYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAH  688 (1018)
T ss_pred             HHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHH
Confidence            4432            24467777777777766 4466677777777888888888888888888765566678888888


Q ss_pred             HHhhhccCcchHHHHHHHhhccc
Q 048799          300 ILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       300 ~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      +|..+|++..|+++|+...++..
T Consensus       689 ~~~e~~qy~~AIqmYe~~lkkf~  711 (1018)
T KOG2002|consen  689 CYVEQGQYRLAIQMYENCLKKFY  711 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhc
Confidence            88888888888888887766543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.64  E-value=3.3e-13  Score=105.69  Aligned_cols=196  Identities=11%  Similarity=0.030  Sum_probs=95.0

Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHH
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFA  164 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~  164 (331)
                      .+..+...+...|++++|...++++++..+.  +...+..+...+...|++++|.+.+++.....| +...+..+...+.
T Consensus        33 ~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~--~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  110 (234)
T TIGR02521        33 IRVQLALGYLEQGDLEVAKENLDKALEHDPD--DYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLC  110 (234)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc--cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHH
Confidence            3444444444455555555555544443221  344444455555555555555555555544432 2344444455555


Q ss_pred             ccCChHHHHHHHHHHHhccC-CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHH
Q 048799          165 MHGMGKEAVENFERMQKVVL-KPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQA  243 (331)
Q Consensus       165 ~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  243 (331)
                      ..|++++|.+.+++...... ......+..+...+...|++++|...+.+..+.  .+.+...+..+...+...|++++|
T Consensus       111 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       111 QQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQI--DPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCChHHHHHHHHHHHHcCCHHHH
Confidence            55555555555555543211 112233444455555555555555555555542  122344455555555555566555


Q ss_pred             HHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          244 EKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       244 ~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      ...++++... +.+...+..++..+...|+.+.|..+.+.+.+
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            5555555443 22334444445555555566665555555443

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.

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.63  E-value=8.5e-13  Score=106.44  Aligned_cols=234  Identities=8%  Similarity=-0.073  Sum_probs=168.2

Q ss_pred             cCChhHHHHHHHHHHhccCCCCc--hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhH
Q 048799           61 MNRSNGALALFRRMVACEYTEPS--EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFS  138 (331)
Q Consensus        61 ~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  138 (331)
                      .+..+.++.-+.+++......|+  ...|..+...+...|+.++|...|+++++..+.  +..+|+.+...+...|++++
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~--~~~a~~~lg~~~~~~g~~~~  116 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD--MADAYNYLGIYLTQAGNFDA  116 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC--CHHHHHHHHHHHHHCCCHHH
Confidence            35667788888877544333333  356778888899999999999999999998654  78899999999999999999


Q ss_pred             HHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          139 ALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       139 A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      |...|+++.+..| +..+|..+..++...|++++|++.|++..+..  |+..........+...++.++|...|.+....
T Consensus       117 A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        117 AYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            9999999988877 46788889999999999999999999998743  54332222222344567899999999776643


Q ss_pred             cCCCCcHhhHHHHHHHHHhcCCHHHH--HHHHhhcccC-----CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhc-C
Q 048799          218 CEVLPDIKHYGCLIDMLGRAGRLEQA--EKVASGIPSE-----ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMER-G  289 (331)
Q Consensus       218 ~~~~~~~~~~~~l~~~~~~~g~~~~A--~~~~~~~~~~-----~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~  289 (331)
                        ..|+...+ .+.  ....|+...+  .+.+......     +.....|..+...+.+.|++++|...|+++.+.+| +
T Consensus       195 --~~~~~~~~-~~~--~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~  269 (296)
T PRK11189        195 --LDKEQWGW-NIV--EFYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYN  269 (296)
T ss_pred             --CCccccHH-HHH--HHHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCch
Confidence              33433222 233  3334555433  3333322222     12346899999999999999999999999999886 4


Q ss_pred             CCccHHHHHHHHhh
Q 048799          290 YGGDYVLMYNILAG  303 (331)
Q Consensus       290 ~~~~~~~l~~~~~~  303 (331)
                      .+.....+++....
T Consensus       270 ~~e~~~~~~e~~~~  283 (296)
T PRK11189        270 FVEHRYALLELALL  283 (296)
T ss_pred             HHHHHHHHHHHHHH
Confidence            44444444444433

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

Probab=99.63  E-value=2.6e-14  Score=109.83  Aligned_cols=234  Identities=12%  Similarity=0.049  Sum_probs=170.3

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHH
Q 048799           52 TGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYA  131 (331)
Q Consensus        52 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  131 (331)
                      +.+.++|.+.|.+.+|.+.|+..+.   ..|-+.||..|-++|.+..+...|+.++.+.++.-+.  ++.......+.+-
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~---q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~--~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLT---QFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPF--DVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhh---cCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCc--hhhhhhhhHHHHH
Confidence            4677788888888888888877644   3466677777888888888888888888877776433  6666666777777


Q ss_pred             hcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHH
Q 048799          132 KCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKF  210 (331)
Q Consensus       132 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  210 (331)
                      ..++.++|.++|+...+..| ++.+...+...|.-.++++-|+..|+++.+.|+ -+...|+.+.-+|.-.++++-++.-
T Consensus       302 am~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHH
Confidence            78888888888888776654 566666666777777888888888888888775 3666777777777778888888887


Q ss_pred             HHHHHHhcCCCCc--HhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhh
Q 048799          211 FDKMVEECEVLPD--IKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEME  287 (331)
Q Consensus       211 ~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  287 (331)
                      |++.... --.|+  ..+|-.+.......|++.-|.+.|+-+... ..+...++.|.-.-.+.|+++.|..++..+....
T Consensus       381 f~RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  381 FQRALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            7777654 33332  356666777777778888888888777666 3345777777777777888888888888777777


Q ss_pred             cCCCc
Q 048799          288 RGYGG  292 (331)
Q Consensus       288 ~~~~~  292 (331)
                      |+-.+
T Consensus       460 P~m~E  464 (478)
T KOG1129|consen  460 PDMAE  464 (478)
T ss_pred             ccccc
Confidence            76433

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

Probab=99.62  E-value=2.2e-12  Score=108.03  Aligned_cols=300  Identities=12%  Similarity=0.040  Sum_probs=197.2

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHH
Q 048799           18 VTWNVMITGLVKWGELEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAI   94 (331)
Q Consensus        18 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~   94 (331)
                      ..|......+...|++..|..++...-+   .+...|-.-+.......++++|..+|.+. ..  ..|+...|..-+...
T Consensus       585 ~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llaka-r~--~sgTeRv~mKs~~~e  661 (913)
T KOG0495|consen  585 ILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKA-RS--ISGTERVWMKSANLE  661 (913)
T ss_pred             hHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHH-hc--cCCcchhhHHHhHHH
Confidence            3344444555566666666666665542   23345556666666666677777776666 22  234555555544444


Q ss_pred             hhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHH
Q 048799           95 WQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAV  173 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~  173 (331)
                      --.+..++|++++++.++.-+.  -...|..+...+-+.++++.|...|..-.+..|+ +..|-.+...--+.|..-.|.
T Consensus       662 r~ld~~eeA~rllEe~lk~fp~--f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR  739 (913)
T KOG0495|consen  662 RYLDNVEEALRLLEEALKSFPD--FHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRAR  739 (913)
T ss_pred             HHhhhHHHHHHHHHHHHHhCCc--hHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHH
Confidence            5556666777777666665332  4455666666666666777776666665555453 445666666666666677777


Q ss_pred             HHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          174 ENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       174 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      .+|++..-.+ +-+...|...|..-.+.|+.+.|..+..++.+.  ++.+...|..-|...-+.++-......+++... 
T Consensus       740 ~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe--cp~sg~LWaEaI~le~~~~rkTks~DALkkce~-  815 (913)
T KOG0495|consen  740 SILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE--CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEH-  815 (913)
T ss_pred             HHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccchhHHHHHHhccCcccchHHHHHHHhccC-
Confidence            7776665443 235566666666666777777777777666663  444556666666666666665555555555543 


Q ss_pred             CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccccCCCCCCC
Q 048799          254 ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKFPGRSL  330 (331)
Q Consensus       254 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~sw  330 (331)
                        |+.....+...+....++++|.+.|.++++.+|++..+|.-+...+.+.|.-++-.+++..+..  ..|..|..|
T Consensus       816 --dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~--~EP~hG~~W  888 (913)
T KOG0495|consen  816 --DPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCET--AEPTHGELW  888 (913)
T ss_pred             --CchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhc--cCCCCCcHH
Confidence              5555666777788888999999999999999999999999999999999999999999998876  345666666

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

Probab=99.62  E-value=5.3e-13  Score=107.30  Aligned_cols=274  Identities=11%  Similarity=0.046  Sum_probs=209.2

Q ss_pred             HHHHcCCHHHHHHHHhhCCCCCchhHH----HHH-HHHHh-cCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCc
Q 048799           26 GLVKWGELEYARSLFEEMPCRNVVSWT----GII-DGYTR-MNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGD   99 (331)
Q Consensus        26 ~~~~~g~~~~A~~~~~~~~~~~~~~~~----~l~-~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   99 (331)
                      .+.+.|+++.|+++++-..+.|..+-.    .|- .-|.+ ..++..|.+.-+..+...  .-+......-.+.....|+
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d--ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID--RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc--ccCHHHhhcCCceeeecCc
Confidence            467899999999999887755443322    222 22333 346777777666553222  2344444445555667899


Q ss_pred             hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-CCcHHHHHHHHHHHHccCChHHHHHHHHH
Q 048799          100 VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-RKNLVSWTSIISGFAMHGMGKEAVENFER  178 (331)
Q Consensus       100 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  178 (331)
                      +++|.+.|++++...-.. . .+...+.-.+-..|++++|+..|-++... ..+......+.+.|-...+..+|++++-+
T Consensus       506 ~dka~~~ykeal~ndasc-~-ealfniglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q  583 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASC-T-EALFNIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQ  583 (840)
T ss_pred             HHHHHHHHHHHHcCchHH-H-HHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence            999999999999875443 3 33334566788899999999999888544 34566677778889999999999999987


Q ss_pred             HHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHH
Q 048799          179 MQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVV  258 (331)
Q Consensus       179 m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  258 (331)
                      .... ++.|+.....|...|-+.|+-.+|.+.+-.--+  -++.+..+...|...|....-++++..+|+++.-.+|+..
T Consensus       584 ~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~  660 (840)
T KOG2003|consen  584 ANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQS  660 (840)
T ss_pred             hccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHH
Confidence            6542 455778899999999999999999887765543  4566899999999999999999999999999887789999


Q ss_pred             HHHHHHHHH-hcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhcc
Q 048799          259 VWRTLLGAC-SFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWR  306 (331)
Q Consensus       259 ~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  306 (331)
                      -|..++..| .+.|++.+|..+|+...+.-|.+......|.+.+...|-
T Consensus       661 kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  661 KWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            999988665 578999999999999999999988888888888777664

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

Probab=99.62  E-value=5e-13  Score=109.87  Aligned_cols=263  Identities=11%  Similarity=-0.042  Sum_probs=209.5

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHH
Q 048799           49 VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLID  128 (331)
Q Consensus        49 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  128 (331)
                      ........-+...+++.+..++.+......+  +....+..-+.++...|+..+-..+-.++++.-+.  .+..|.+++-
T Consensus       245 dll~~~ad~~y~~c~f~~c~kit~~lle~dp--fh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~--~a~sW~aVg~  320 (611)
T KOG1173|consen  245 DLLAEKADRLYYGCRFKECLKITEELLEKDP--FHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPS--KALSWFAVGC  320 (611)
T ss_pred             HHHHHHHHHHHHcChHHHHHHHhHHHHhhCC--CCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCC--CCcchhhHHH
Confidence            3344445557788999999999999865544  45555555666888999988888888888888544  7788889999


Q ss_pred             HHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHH
Q 048799          129 TYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEG  207 (331)
Q Consensus       129 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  207 (331)
                      -|.-.|++++|.+.|.+....+|. ...|-.+..+|+-.|..++|+..+...-+. ++-...-+.-+.--|.+.++.+.|
T Consensus       321 YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLA  399 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLA  399 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHH
Confidence            999999999999999998777664 678999999999999999999998876552 112222233455568889999999


Q ss_pred             HHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-------Cc-cHHHHHHHHHHHhcCCchhHHHH
Q 048799          208 LKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-------IT-NVVVWRTLLGACSFHGNVEMGER  278 (331)
Q Consensus       208 ~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~p-~~~~~~~l~~~~~~~g~~~~a~~  278 (331)
                      .++|.++..   +.| |+...+-+.-.....+.+.+|..+|+.....       .+ -..+++.|+.+|.+.+.+++|+.
T Consensus       400 e~Ff~~A~a---i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~  476 (611)
T KOG1173|consen  400 EKFFKQALA---IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAID  476 (611)
T ss_pred             HHHHHHHHh---cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHH
Confidence            999999874   445 7778888877777889999999999887633       11 34668888999999999999999


Q ss_pred             HHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          279 VTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       279 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      .+++++.+.|.++.++..++-.|...|+++.|.+.|.+..-
T Consensus       477 ~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  477 YYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             HHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            99999999999999999999999999999999998876543

>PRK12370 invasion protein regulator; Provisional

Probab=99.59  E-value=6.5e-13  Score=116.50  Aligned_cols=230  Identities=12%  Similarity=-0.016  Sum_probs=176.7

Q ss_pred             CchHHHHHHHHHHh-----hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh---------cCCHhHHHHHHHHhh
Q 048799           82 PSEITILAVFPAIW-----QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK---------CGCIFSALKLFEDIS  147 (331)
Q Consensus        82 ~~~~~~~~l~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~g~~~~A~~~~~~~~  147 (331)
                      .+...|...+.+..     ..+++++|...++++++..+.  +...+..+..++..         .+++++|...++++.
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~--~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPN--SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCc--cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            34455555555432     234578999999999988554  66777777766553         245899999999998


Q ss_pred             hcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc-Hh
Q 048799          148 VERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD-IK  225 (331)
Q Consensus       148 ~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~  225 (331)
                      ...| +..++..+...+...|++++|+..|+++.+.+ +.+...+..+...+...|++++|...++++.+.   .|+ ..
T Consensus       332 ~ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l---~P~~~~  407 (553)
T PRK12370        332 ELDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKL---DPTRAA  407 (553)
T ss_pred             hcCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCChh
Confidence            8877 57788888889999999999999999998854 234567788888999999999999999999865   443 33


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcccC-Cc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh
Q 048799          226 HYGCLIDMLGRAGRLEQAEKVASGIPSE-IT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG  303 (331)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  303 (331)
                      .+..++..+...|++++|...++++... .| ++..+..+..++...|++++|...++++....|........+...|..
T Consensus       408 ~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        408 AGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             hHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhc
Confidence            3344455577789999999999998765 34 455677788889999999999999999887777766667777778887


Q ss_pred             hccCcchHHHHHHHhh
Q 048799          304 VWRYGDAERLRRVVDE  319 (331)
Q Consensus       304 ~g~~~~a~~~~~~~~~  319 (331)
                      .|+  +|...++.+.+
T Consensus       488 ~g~--~a~~~l~~ll~  501 (553)
T PRK12370        488 NSE--RALPTIREFLE  501 (553)
T ss_pred             cHH--HHHHHHHHHHH
Confidence            774  78777777655

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

Probab=99.58  E-value=1e-11  Score=107.58  Aligned_cols=301  Identities=14%  Similarity=0.041  Sum_probs=224.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHH
Q 048799           17 LVTWNVMITGLVKWGELEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPA   93 (331)
Q Consensus        17 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~   93 (331)
                      ....-.....+.-.|++++|..++.++.+   .+...|.+|...|-+.|+.+++...+-.+  ..-.+-|...|..+...
T Consensus       139 l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llA--AHL~p~d~e~W~~ladl  216 (895)
T KOG2076|consen  139 LRQLLGEANNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLA--AHLNPKDYELWKRLADL  216 (895)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHH--HhcCCCChHHHHHHHHH
Confidence            44444444555556999999999999874   45679999999999999999999887655  23345667899999999


Q ss_pred             HhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcH------HHHHHHHHHHHccC
Q 048799           94 IWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNL------VSWTSIISGFAMHG  167 (331)
Q Consensus        94 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~~~~~l~~~~~~~~  167 (331)
                      ..+.|.++.|.-+|.++++..+.  +....-.-...|-+.|+...|...|.++....|.+      ..--.++..+...+
T Consensus       217 s~~~~~i~qA~~cy~rAI~~~p~--n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~  294 (895)
T KOG2076|consen  217 SEQLGNINQARYCYSRAIQANPS--NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHN  294 (895)
T ss_pred             HHhcccHHHHHHHHHHHHhcCCc--chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999665  55555567889999999999999999998776621      22234456777788


Q ss_pred             ChHHHHHHHHHHHhc-cCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh----------------------c----CC
Q 048799          168 MGKEAVENFERMQKV-VLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE----------------------C----EV  220 (331)
Q Consensus       168 ~~~~a~~~~~~m~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----------------------~----~~  220 (331)
                      +.+.|.+.++..... +-..+...++.++..+.+...++.|......+...                      +    ++
T Consensus       295 ~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~  374 (895)
T KOG2076|consen  295 ERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKEL  374 (895)
T ss_pred             HHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCC
Confidence            889999999887763 23345567788888888888999998888777651                      0    12


Q ss_pred             CCcHhhHHHHHHHHH--hcCCHHHHHHHHhhcccC--CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC-CCccHH
Q 048799          221 LPDIKHYGCLIDMLG--RAGRLEQAEKVASGIPSE--ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERG-YGGDYV  295 (331)
Q Consensus       221 ~~~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~  295 (331)
                      .++..++. ++-++.  +.+...+++.-+-.-...  .-+...|.-+..+|...|++.+|+.++..+....+. +...|.
T Consensus       375 s~~l~v~r-l~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~  453 (895)
T KOG2076|consen  375 SYDLRVIR-LMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWY  453 (895)
T ss_pred             CccchhHh-HhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhH
Confidence            22333311 222233  344444444444333222  225678889999999999999999999999975543 446899


Q ss_pred             HHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          296 LMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       296 ~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      .++.+|...|.+++|.+.++.+.....
T Consensus       454 ~~a~c~~~l~e~e~A~e~y~kvl~~~p  480 (895)
T KOG2076|consen  454 KLARCYMELGEYEEAIEFYEKVLILAP  480 (895)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            999999999999999999999877543

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

Probab=99.57  E-value=1.9e-13  Score=105.17  Aligned_cols=228  Identities=11%  Similarity=-0.015  Sum_probs=197.6

Q ss_pred             HHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHH-HHHHHHHHcc
Q 048799           88 LAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSW-TSIISGFAMH  166 (331)
Q Consensus        88 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~l~~~~~~~  166 (331)
                      +.+.++|.+.|.+.+|...++..++...   -+.+|..|.+.|.+..+...|+.+|.+-.+.-|..+|| .-+...+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~---~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFP---HPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCC---chhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHH
Confidence            5688899999999999999999888855   45667779999999999999999999998887765555 4566778888


Q ss_pred             CChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHH
Q 048799          167 GMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKV  246 (331)
Q Consensus       167 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  246 (331)
                      ++.++|.++|+...+.. +.+......+...|.-.++.+-|.+++.++.+. |+. ++..|+.+.-+|.-.++++-++.-
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqm-G~~-speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQM-GAQ-SPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHh-cCC-ChHHHhhHHHHHHhhcchhhhHHH
Confidence            99999999999988753 345566677777888899999999999999998 764 788999999999999999999999


Q ss_pred             HhhcccC--Ccc--HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          247 ASGIPSE--ITN--VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       247 ~~~~~~~--~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      |.++...  .|+  ..+|-.+.......|++..|.+.|+-++..+|++...+..|+..-.+.|+.++|..++.......
T Consensus       381 f~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  381 FQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            9988766  344  57899999999999999999999999999999999999999999999999999999999876643

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

Probab=99.56  E-value=3.2e-11  Score=101.25  Aligned_cols=293  Identities=10%  Similarity=0.010  Sum_probs=141.8

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCC------CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHH
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMP------CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILA   89 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   89 (331)
                      +...|-.=...|-..|..-.+..+.....      +.--.+|+.-...|.+.+.++-|..+|...+..  .+-+...|..
T Consensus       478 ~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv--fp~k~slWlr  555 (913)
T KOG0495|consen  478 NRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV--FPCKKSLWLR  555 (913)
T ss_pred             cHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh--ccchhHHHHH
Confidence            34444444444444444444444444332      112234555555555555555555555554221  1223334444


Q ss_pred             HHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCC
Q 048799           90 VFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGM  168 (331)
Q Consensus        90 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  168 (331)
                      ....--..|..+....+++++...-+.  ....|......+-..|++..|..++.++....| +...|..-+.....+.+
T Consensus       556 a~~~ek~hgt~Esl~Allqkav~~~pk--ae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e  633 (913)
T KOG0495|consen  556 AAMFEKSHGTRESLEALLQKAVEQCPK--AEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDE  633 (913)
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHHhCCc--chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhcccc
Confidence            444334445555555555555554332  344444444445555555555555555544433 23445555555555555


Q ss_pred             hHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHh
Q 048799          169 GKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVAS  248 (331)
Q Consensus       169 ~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  248 (331)
                      ++.|..+|.+...  ..|+...|..-+......++.++|.+++++..+.  ++.-...|..+.+.+-+.++++.|...|.
T Consensus       634 ~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~  709 (913)
T KOG0495|consen  634 LERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYL  709 (913)
T ss_pred             HHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            5555555555444  2344444444444444445555555555555542  22223444555555555555555555555


Q ss_pred             hcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHH
Q 048799          249 GIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRV  316 (331)
Q Consensus       249 ~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  316 (331)
                      .-....| .+..|..+...--+.|.+-.|..++++..-.+|++...|...+.+-.+.|+.++|..++.+
T Consensus       710 ~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmak  778 (913)
T KOG0495|consen  710 QGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAK  778 (913)
T ss_pred             hccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5444423 2344444444444455555555555555555555555555555555555555555544433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.53  E-value=5.5e-12  Score=106.27  Aligned_cols=237  Identities=13%  Similarity=0.064  Sum_probs=182.1

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhc----cC-CCCchHH-HHHHHHHHhhcCchhHHHHHHhhhhhc-----CC-C
Q 048799           49 VSWTGIIDGYTRMNRSNGALALFRRMVAC----EY-TEPSEIT-ILAVFPAIWQNGDVRNCQLIHGYGEKR-----GF-N  116 (331)
Q Consensus        49 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~  116 (331)
                      .+...|...|...|+++.|..+++..+..    .| ..|...+ .+.+...|...+++++|..+|+++...     |. .
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            35566889999999999999999988543    11 1344443 344778889999999999999998753     22 2


Q ss_pred             cchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc--------CCcH-HHHHHHHHHHHccCChHHHHHHHHHHHhc---cC
Q 048799          117 AFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE--------RKNL-VSWTSIISGFAMHGMGKEAVENFERMQKV---VL  184 (331)
Q Consensus       117 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~---~~  184 (331)
                      |.-..+++.|..+|.+.|++++|...++++...        .|.+ ..++.++..++..+++++|..+++...+.   -+
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            324567788888999999999999988877543        2332 34667778899999999999999876542   12


Q ss_pred             CC----CHHHHHHHHHHHhccCChHHHHHHHHHHHHhc-----CCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-
Q 048799          185 KP----NRVTFLSVLNACSHGGLVEEGLKFFDKMVEEC-----EVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-  253 (331)
Q Consensus       185 ~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-  253 (331)
                      .+    ...+++.|...|...|++++|.+++++++...     +..+ ....++.|...|.+.++..+|.++|.+.... 
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            22    24689999999999999999999999987652     1122 3456788899999999999999988876544 


Q ss_pred             ------Ccc-HHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          254 ------ITN-VVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       254 ------~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                            .|+ ..+|..|...|...|+++.|+++.+.+..
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence                  444 47899999999999999999999999985

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

Probab=99.53  E-value=2.7e-11  Score=98.30  Aligned_cols=296  Identities=13%  Similarity=0.022  Sum_probs=207.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhCC--CCC-chhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCch-HHHHHHHHHHh
Q 048799           20 WNVMITGLVKWGELEYARSLFEEMP--CRN-VVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSE-ITILAVFPAIW   95 (331)
Q Consensus        20 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~   95 (331)
                      +-....-|.+.|++++|++.|.+..  .|+ +..|.....+|...|+|+++.+.-.+.++   +.|+. ..+..-..++-
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALE---l~P~Y~KAl~RRA~A~E  194 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALE---LNPDYVKALLRRASAHE  194 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhh---cCcHHHHHHHHHHHHHH
Confidence            4455667889999999999999987  577 78899999999999999999888777744   44553 35555556666


Q ss_pred             hcCchhHHHH----------------------HHhh--------hhh-cC-CCcchhHHHHHHHHHHHh---------c-
Q 048799           96 QNGDVRNCQL----------------------IHGY--------GEK-RG-FNAFHIHVSNCLIDTYAK---------C-  133 (331)
Q Consensus        96 ~~~~~~~a~~----------------------~~~~--------~~~-~~-~~~~~~~~~~~l~~~~~~---------~-  133 (331)
                      ..|++++|+.                      ++++        -.+ .+ +..|+.....+....+..         . 
T Consensus       195 ~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~  274 (606)
T KOG0547|consen  195 QLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSD  274 (606)
T ss_pred             hhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCc
Confidence            6777666542                      1111        111 11 111133222222222210         0 


Q ss_pred             ---------------C---CHhHHHHHHHHhhhc---CC--c---------HHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          134 ---------------G---CIFSALKLFEDISVE---RK--N---------LVSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       134 ---------------g---~~~~A~~~~~~~~~~---~~--~---------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                                     +   .+.+|...+.+-...   .+  +         ..+.......+.-.|+.-.|...|+..+.
T Consensus       275 ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~  354 (606)
T KOG0547|consen  275 KSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIK  354 (606)
T ss_pred             cchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHh
Confidence                           0   122222222111110   11  1         12222223345567899999999999988


Q ss_pred             ccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHH
Q 048799          182 VVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVW  260 (331)
Q Consensus       182 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~  260 (331)
                      ....++. .|-.+...|....+.++....|+.+.+.  -+.++.+|..-.+.+.-.+++++|..-|++.+...| +...|
T Consensus       355 l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~l--dp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~  431 (606)
T KOG0547|consen  355 LDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDL--DPENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAY  431 (606)
T ss_pred             cCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhc--CCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHH
Confidence            6543333 2777778899999999999999999753  233778888888999999999999999999998844 46777


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          261 RTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       261 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      -.+..+..+.+++++++..|++..+.-|..+..|...+.++...+++++|.+.++...+..
T Consensus       432 iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  432 IQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            7777788899999999999999999999999999999999999999999999999887753

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

Probab=99.52  E-value=2.6e-11  Score=100.01  Aligned_cols=282  Identities=12%  Similarity=-0.020  Sum_probs=220.8

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHH
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFP   92 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~   92 (331)
                      +......-.+-|...+++.+...+++...+   +....+..-|.++...|+..+-.-+=.+++..  .|..+.+|.++.-
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~--yP~~a~sW~aVg~  320 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL--YPSKALSWFAVGC  320 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCCcchhhHHH
Confidence            334444555667788999999999998874   34456666677888999988888777777543  3455779999999


Q ss_pred             HHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHH
Q 048799           93 AIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKE  171 (331)
Q Consensus        93 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  171 (331)
                      -|...|..++|.+.|.+.......  -...|..++..|.-.|..+.|+..|..+.+.-| ....+..+.--|.+.+..+-
T Consensus       321 YYl~i~k~seARry~SKat~lD~~--fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kL  398 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLDPT--FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKL  398 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCcc--ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHH
Confidence            999999999999999998877544  567889999999999999999999998876633 22233344455778899999


Q ss_pred             HHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhc-CCCC----cHhhHHHHHHHHHhcCCHHHHHHH
Q 048799          172 AVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEEC-EVLP----DIKHYGCLIDMLGRAGRLEQAEKV  246 (331)
Q Consensus       172 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~----~~~~~~~l~~~~~~~g~~~~A~~~  246 (331)
                      |.+.|.+...- .+.|+...+-+.-.....+.+.+|..+|+...... .+.+    -..+++.|..+|.+.+++++|+..
T Consensus       399 Ae~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~  477 (611)
T KOG1173|consen  399 AEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDY  477 (611)
T ss_pred             HHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHH
Confidence            99999987663 23466777777777777899999999999887321 1111    234688999999999999999999


Q ss_pred             HhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHh
Q 048799          247 ASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILA  302 (331)
Q Consensus       247 ~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  302 (331)
                      ++..... +.+..++..+.-.|...|+++.|++.|.+++-+.|++..+-..|..+..
T Consensus       478 ~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  478 YQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            9998877 6688999999999999999999999999999999998555555554443

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.50  E-value=8.7e-12  Score=100.62  Aligned_cols=217  Identities=12%  Similarity=-0.003  Sum_probs=160.9

Q ss_pred             cCchhHHHHHHhhhhhcCC-Cc-chhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHH
Q 048799           97 NGDVRNCQLIHGYGEKRGF-NA-FHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAV  173 (331)
Q Consensus        97 ~~~~~~a~~~~~~~~~~~~-~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~  173 (331)
                      .+..+.++.-+.+++.... .| .....|..+...|...|++++|...|+++....| +...|+.+...+...|++++|+
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            3566777777777776432 22 1356788889999999999999999999988876 5789999999999999999999


Q ss_pred             HHHHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhccc
Q 048799          174 ENFERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPS  252 (331)
Q Consensus       174 ~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  252 (331)
                      ..|++..+.  .| +..++..+..++...|++++|.+.++...+.   .|+..........+...+++++|...+.+...
T Consensus       119 ~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~  193 (296)
T PRK11189        119 EAFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYE  193 (296)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            999999874  45 4567788888899999999999999999875   44433222222234457889999999976554


Q ss_pred             C-CccHHHHHHHHHHHhcCCchhHHHHHHHHHH-------HhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          253 E-ITNVVVWRTLLGACSFHGNVEMGERVTRKIL-------EMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       253 ~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      . .|+...+   .......|+...+ ..+..+.       +..|..+..|..++..+.+.|++++|...|++..+.++
T Consensus       194 ~~~~~~~~~---~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        194 KLDKEQWGW---NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             hCCccccHH---HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            3 2332222   2223345555544 3444444       45566668899999999999999999999999887664

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

Probab=99.50  E-value=4.1e-11  Score=88.14  Aligned_cols=201  Identities=12%  Similarity=-0.020  Sum_probs=128.4

Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHH
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFA  164 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~  164 (331)
                      +...|...|...|+...|..-++++++..+.  +..+|..+...|-+.|+.+.|.+.|+++.+..| +....|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs--~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPS--YYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc--cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHH
Confidence            3445556666677777777777776666433  566666677777777777777777777766654 4556666777777


Q ss_pred             ccCChHHHHHHHHHHHhccC-CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHH
Q 048799          165 MHGMGKEAVENFERMQKVVL-KPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQA  243 (331)
Q Consensus       165 ~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  243 (331)
                      ..|++++|...|++....-. .--..||..+.-+..+.|+++.|...|++..+.  .+-.......+.+...+.|++..|
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~--dp~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL--DPQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh--CcCCChHHHHHHHHHHhcccchHH
Confidence            77777777777776665421 112356666666666777777777777776653  222445556666666777777777


Q ss_pred             HHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          244 EKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       244 ~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      ..+++..... .++..+...-|..-...|+.+.+-+.=..+.+.-|.+
T Consensus       193 r~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s  240 (250)
T COG3063         193 RLYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYS  240 (250)
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCc
Confidence            7777666555 4555555555666666677766666666666666655

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.49  E-value=3.4e-11  Score=96.31  Aligned_cols=243  Identities=16%  Similarity=0.143  Sum_probs=189.0

Q ss_pred             HHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcc
Q 048799           39 LFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAF  118 (331)
Q Consensus        39 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  118 (331)
                      ++-+....+..+|..+|.++++-...++|.+++++. .....+.+..+||.++.+-+-..+    .++..+|+.....| 
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~-~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~P-  271 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEH-RAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTP-  271 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHH-HHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCC-
Confidence            444444456789999999999999999999999998 555557899999999987643332    78899999999999 


Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHH----HHHHhhhc--CCcHHHHHHHHHHHHccCChHH-HHHHHHHHHh----ccCC--
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALK----LFEDISVE--RKNLVSWTSIISGFAMHGMGKE-AVENFERMQK----VVLK--  185 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~----~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~m~~----~~~~--  185 (331)
                      |..++|+++.+..+.|+++.|.+    ++.+|++.  .|...+|..+|..+++.++..+ +..++.++..    ..+.  
T Consensus       272 nl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~  351 (625)
T KOG4422|consen  272 NLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPI  351 (625)
T ss_pred             chHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCC
Confidence            99999999999999998877665    45555544  6888999999999999888754 4455555443    2222  


Q ss_pred             -C-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhc---CCCCc---HhhHHHHHHHHHhcCCHHHHHHHHhhcccC--Cc
Q 048799          186 -P-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEEC---EVLPD---IKHYGCLIDMLGRAGRLEQAEKVASGIPSE--IT  255 (331)
Q Consensus       186 -p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p  255 (331)
                       | +...|...+..|.+..+.+-|.++..-.....   -+.|+   ..-|..+..+.|+....+.-..+|+.+...  .|
T Consensus       352 ~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p  431 (625)
T KOG4422|consen  352 TPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFP  431 (625)
T ss_pred             CCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecC
Confidence             3 44567778888889999999998887775431   12233   234566777888999999999999999988  88


Q ss_pred             cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhh
Q 048799          256 NVVVWRTLLGACSFHGNVEMGERVTRKILEME  287 (331)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  287 (331)
                      +..+-..++++....|.++-.-+++..+...+
T Consensus       432 ~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  432 HSQTMIHLLRALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             CchhHHHHHHHHhhcCcchhHHHHHHHHHHhh
Confidence            88888889999999999998888888887643

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

Probab=99.49  E-value=3e-11  Score=97.38  Aligned_cols=187  Identities=12%  Similarity=0.028  Sum_probs=144.9

Q ss_pred             HhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHH
Q 048799          131 AKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLK  209 (331)
Q Consensus       131 ~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  209 (331)
                      ...|++++|.+.|+++.....+ ..+...+.-.+-..|+.++|++.|-++..- +..+......+...|....+..+|++
T Consensus       501 f~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  501 FANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             eecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            3468899999999988755332 233333444567789999999999887542 33466677778888988999999999


Q ss_pred             HHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhc
Q 048799          210 FFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMER  288 (331)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  288 (331)
                      ++.+...  -++.|+.+.+.|...|-+.|+-..|.+.+-+--.- +-+..+..-|..-|....-+++++.+|+++.-+.|
T Consensus       580 ~~~q~~s--lip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp  657 (840)
T KOG2003|consen  580 LLMQANS--LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQP  657 (840)
T ss_pred             HHHHhcc--cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCc
Confidence            9988764  45558899999999999999999999987665555 44677877788888888888999999999988888


Q ss_pred             CCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          289 GYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       289 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      +.......++..+.+.|++.+|.++++.+..+
T Consensus       658 ~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  658 NQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             cHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            87444445566778899999999999887543

>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=4.5e-11  Score=101.96  Aligned_cols=260  Identities=10%  Similarity=-0.007  Sum_probs=178.4

Q ss_pred             HHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcC-
Q 048799           56 DGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCG-  134 (331)
Q Consensus        56 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-  134 (331)
                      ..+...|++++|++.+++- . ..+.............+.+.|+.++|..++..+++.+++  +...|..+..+..-.. 
T Consensus        12 ~il~e~g~~~~AL~~L~~~-~-~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd--n~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKN-E-KQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD--NYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhh-h-hhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC--cHHHHHHHHHHHhhhcc
Confidence            4467788888888888764 2 223334445566777888888888888888888888665  6666767766663332 


Q ss_pred             ----CHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChH-HHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHH
Q 048799          135 ----CIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGK-EAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLK  209 (331)
Q Consensus       135 ----~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  209 (331)
                          +.+...++|+++...-|...+...+.-.+.....+. .+..++..+...|+++   +|..|-..|....+.+-..+
T Consensus        88 ~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHH
Confidence                466777888877666565444444433333323343 3445566677777643   34555555555545555555


Q ss_pred             HHHHHHHhc-------------CCCCcH--hhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhcCCch
Q 048799          210 FFDKMVEEC-------------EVLPDI--KHYGCLIDMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGACSFHGNV  273 (331)
Q Consensus       210 ~~~~~~~~~-------------~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~  273 (331)
                      ++.......             .-+|+.  .++..+.+.|...|++++|.+++++++...|+ +..|..-...+-..|++
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCH
Confidence            555544321             113444  34456677888899999999999998888665 67888888889999999


Q ss_pred             hHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          274 EMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       274 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      .+|.+.++.+.++++.+-..-...+..+.+.|+.++|.+++..+...+.
T Consensus       245 ~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~  293 (517)
T PF12569_consen  245 KEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDV  293 (517)
T ss_pred             HHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCC
Confidence            9999999999998888766666678888899999999999888877665

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 [], [].

>PF13041 PPR_2: PPR repeat family

Probab=99.48  E-value=1.7e-13  Score=78.52  Aligned_cols=50  Identities=28%  Similarity=0.523  Sum_probs=39.3

Q ss_pred             CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhc
Q 048799          151 KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSH  200 (331)
Q Consensus       151 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  200 (331)
                      ||..+||.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            67777888888888888888888888888877888888888888877764

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

Probab=99.48  E-value=3.6e-12  Score=105.26  Aligned_cols=221  Identities=13%  Similarity=0.095  Sum_probs=182.8

Q ss_pred             HHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChH
Q 048799           92 PAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGK  170 (331)
Q Consensus        92 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  170 (331)
                      ..+.+.|++.+|.-.|+..++..+.  +..+|..|.......++-..|+..+++..+.+| +..+...|.-.|...|.-.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP~--haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDPQ--HAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhChH--HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHH
Confidence            3456889999999999999999655  889999999999999999999999999998877 6788899999999999999


Q ss_pred             HHHHHHHHHHhccCCCCHHHHHHHH-----------HHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC
Q 048799          171 EAVENFERMQKVVLKPNRVTFLSVL-----------NACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR  239 (331)
Q Consensus       171 ~a~~~~~~m~~~~~~p~~~~~~~l~-----------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (331)
                      .|+..+++-+....+     |..+.           ..+.....+....++|-++....+..+|+.++..|.-.|--.|+
T Consensus       371 ~Al~~L~~Wi~~~p~-----y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~e  445 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPK-----YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGE  445 (579)
T ss_pred             HHHHHHHHHHHhCcc-----chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchH
Confidence            999999988664311     11111           11222233445566666665553656788899999999999999


Q ss_pred             HHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHh
Q 048799          240 LEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVD  318 (331)
Q Consensus       240 ~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  318 (331)
                      +++|.+.|+.+....| |..+||.|...++...+..+|+..|++++++.|....+...|+..|...|.+++|.+.|=...
T Consensus       446 fdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  446 FDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            9999999999998855 679999999999999999999999999999999999999999999999999999998876654


Q ss_pred             h
Q 048799          319 E  319 (331)
Q Consensus       319 ~  319 (331)
                      .
T Consensus       526 ~  526 (579)
T KOG1125|consen  526 S  526 (579)
T ss_pred             H
Confidence            4

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

Probab=99.47  E-value=2.4e-10  Score=92.72  Aligned_cols=311  Identities=11%  Similarity=0.050  Sum_probs=208.7

Q ss_pred             chhHHhhhcC--CchH-HHHHHHHHHHHHcCCHHHHHHHHhhCC--CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhcc
Q 048799            4 DGSKLFDELP--ERNL-VTWNVMITGLVKWGELEYARSLFEEMP--CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACE   78 (331)
Q Consensus         4 ~A~~~~~~~~--~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   78 (331)
                      .|..+|++.+  -|.+ ..|...+.+--..|++..|.++|+.=.  +|+..+|++.|+.-.+.+.++.|..++++.+.  
T Consensus       125 hARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~--  202 (677)
T KOG1915|consen  125 HARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL--  202 (677)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--
Confidence            4445555443  1222 234444444455666777777766533  57778888888877778888888888887744  


Q ss_pred             CCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhc-CCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc---HH
Q 048799           79 YTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKR-GFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN---LV  154 (331)
Q Consensus        79 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~  154 (331)
                       +.|+..+|....+.-.+.|+...+.++|..+++. |.+..+...+.+....=.++..++.|..+|+-+...-|.   ..
T Consensus       203 -~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raee  281 (677)
T KOG1915|consen  203 -VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEE  281 (677)
T ss_pred             -ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHH
Confidence             4577777777777777778888888888777653 222213445555555555667778888888777666332   34


Q ss_pred             HHHHHHHHHHccCChHHHHHH--------HHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHh-
Q 048799          155 SWTSIISGFAMHGMGKEAVEN--------FERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIK-  225 (331)
Q Consensus       155 ~~~~l~~~~~~~~~~~~a~~~--------~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-  225 (331)
                      .|..+...--+-|+.....+.        |+++...+ +-|-.+|--.+..-...|+.+...++|++++.  +++|-.. 
T Consensus       282 L~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIa--nvpp~~ek  358 (677)
T KOG1915|consen  282 LYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIA--NVPPASEK  358 (677)
T ss_pred             HHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHc--cCCchhHH
Confidence            455555444444554333322        23333332 34666777777777788999999999999987  6777322 


Q ss_pred             -hHHHHH-----HH---HHhcCCHHHHHHHHhhcccCCcc-HH----HHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCC
Q 048799          226 -HYGCLI-----DM---LGRAGRLEQAEKVASGIPSEITN-VV----VWRTLLGACSFHGNVEMGERVTRKILEMERGYG  291 (331)
Q Consensus       226 -~~~~l~-----~~---~~~~g~~~~A~~~~~~~~~~~p~-~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  291 (331)
                       .|...|     -+   -....+++.+.++|+...+..|+ ..    .|.....-..++.++..|.+++-.++...|.+ 
T Consensus       359 r~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~-  437 (677)
T KOG1915|consen  359 RYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKD-  437 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCch-
Confidence             222222     11   23578899999999988877454 23    34444455568889999999999999999988 


Q ss_pred             ccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          292 GDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       292 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      .+|...+..-.+.++++.+.+++++..+.+
T Consensus       438 KlFk~YIelElqL~efDRcRkLYEkfle~~  467 (677)
T KOG1915|consen  438 KLFKGYIELELQLREFDRCRKLYEKFLEFS  467 (677)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            889999999999999999999999998854

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

Probab=99.45  E-value=2.5e-10  Score=90.97  Aligned_cols=273  Identities=10%  Similarity=-0.030  Sum_probs=171.1

Q ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhH---HHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHH
Q 048799           15 RNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSW---TGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVF   91 (331)
Q Consensus        15 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~   91 (331)
                      -|+.....+.+.+...|+.++|+..|++...-|+.+.   ....-.+.+.|++++...+...+....  .-+...|..-+
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~--~~ta~~wfV~~  307 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV--KYTASHWFVHA  307 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh--hcchhhhhhhh
Confidence            3555666666777777777777777776553333221   122223455666666666665552211  12223344444


Q ss_pred             HHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChH
Q 048799           92 PAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGK  170 (331)
Q Consensus        92 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  170 (331)
                      ......++++.|+.+-++.++....  +...+..-..++...|+.++|.-.|+.+....| +...|..|+.+|...|.+.
T Consensus       308 ~~l~~~K~~~rAL~~~eK~I~~~~r--~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~k  385 (564)
T KOG1174|consen  308 QLLYDEKKFERALNFVEKCIDSEPR--NHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFK  385 (564)
T ss_pred             hhhhhhhhHHHHHHHHHHHhccCcc--cchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHH
Confidence            4455667777777777777766433  555665556677777777777777777766654 5677777888777777777


Q ss_pred             HHHHHHHHHHhccCCCCHHHHHHHH-HHHh-ccCChHHHHHHHHHHHHhcCCCCc-HhhHHHHHHHHHhcCCHHHHHHHH
Q 048799          171 EAVENFERMQKVVLKPNRVTFLSVL-NACS-HGGLVEEGLKFFDKMVEECEVLPD-IKHYGCLIDMLGRAGRLEQAEKVA  247 (331)
Q Consensus       171 ~a~~~~~~m~~~~~~p~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~  247 (331)
                      +|.-+-+..... .+.+..+...+. ..|. ...--++|.++++...+   +.|+ ....+.+...+...|+.+++..++
T Consensus       386 EA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL  461 (564)
T KOG1174|consen  386 EANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLL  461 (564)
T ss_pred             HHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHH
Confidence            777666554332 233444444332 2222 22234677777776653   3454 345566667777788888888888


Q ss_pred             hhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHH
Q 048799          248 SGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYV  295 (331)
Q Consensus       248 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  295 (331)
                      ++.....||....+.|.+.+...+.+++|.+.|..+++.+|.+..+..
T Consensus       462 e~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~sl~  509 (564)
T KOG1174|consen  462 EKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKRTLR  509 (564)
T ss_pred             HHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchHHHH
Confidence            887777788888888888888888888888888888888887744433

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

Probab=99.43  E-value=2.5e-10  Score=84.08  Aligned_cols=206  Identities=11%  Similarity=0.003  Sum_probs=168.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHH
Q 048799           50 SWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDT  129 (331)
Q Consensus        50 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  129 (331)
                      +...|...|.+.|++..|..-+++.++..  +.+..++..+...|.+.|+.+.|.+.|+++++..+.  +..+.|.....
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D--Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~--~GdVLNNYG~F  112 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD--PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN--NGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC--ccchhhhhhHH
Confidence            56677888999999999999999985532  244668888999999999999999999999998655  88899999999


Q ss_pred             HHhcCCHhHHHHHHHHhhhcC---CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHH
Q 048799          130 YAKCGCIFSALKLFEDISVER---KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEE  206 (331)
Q Consensus       130 ~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  206 (331)
                      +|..|++++|...|+++...+   ....+|..+.-+..+.|+.+.|...|++.++.. +-...+...+.....+.|++-.
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            999999999999999997662   246788888888889999999999999988753 2234567778888889999999


Q ss_pred             HHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHH
Q 048799          207 GLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRT  262 (331)
Q Consensus       207 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  262 (331)
                      |..+++.....  ..++..+.-..|+.-.+.|+.+.+.++=..+....|...-|..
T Consensus       192 Ar~~~~~~~~~--~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~e~q~  245 (250)
T COG3063         192 ARLYLERYQQR--GGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSEEYQT  245 (250)
T ss_pred             HHHHHHHHHhc--ccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHh
Confidence            99999998775  3478888888888888899999888877776666665554443

>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=99.40  E-value=1.3e-10  Score=92.52  Aligned_cols=249  Identities=12%  Similarity=0.042  Sum_probs=166.6

Q ss_pred             HHHcCCHHHHHHHHhhCCC--C--CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhH
Q 048799           27 LVKWGELEYARSLFEEMPC--R--NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRN  102 (331)
Q Consensus        27 ~~~~g~~~~A~~~~~~~~~--~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  102 (331)
                      +.-.|++..++.-.+ ...  +  +......+.+++...|+++.++.   ++ ... ..|.......+...+...++-+.
T Consensus        11 ~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei-~~~-~~~~l~av~~la~y~~~~~~~e~   84 (290)
T PF04733_consen   11 QFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVLS---EI-KKS-SSPELQAVRLLAEYLSSPSDKES   84 (290)
T ss_dssp             HHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS--TT-SSCCCHHHHHHHHHHCTSTTHHC
T ss_pred             HHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHHH---Hh-ccC-CChhHHHHHHHHHHHhCccchHH
Confidence            344688888886554 221  1  23345567788888998776543   33 222 25666666666665555455666


Q ss_pred             HHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 048799          103 CQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKV  182 (331)
Q Consensus       103 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  182 (331)
                      +..-++..........+..+.......+...|++++|++++...    .+.......+..|.+.++++.|.+.++.|.+.
T Consensus        85 ~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~----~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~  160 (290)
T PF04733_consen   85 ALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG----GSLELLALAVQILLKMNRPDLAEKELKNMQQI  160 (290)
T ss_dssp             HHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT----TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc----CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            66666555544433324444444556677789999999887653    45666677888899999999999999999874


Q ss_pred             cCCCCHHHHHHHHHHHh----ccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccH
Q 048799          183 VLKPNRVTFLSVLNACS----HGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNV  257 (331)
Q Consensus       183 ~~~p~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~  257 (331)
                        ..|. +...+..++.    ....+.+|..+|+++.+  ...+++.+.+.+.-++...|++++|.+++.++... +.++
T Consensus       161 --~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~  235 (290)
T PF04733_consen  161 --DEDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDP  235 (290)
T ss_dssp             --SCCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHH
T ss_pred             --CCcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCH
Confidence              3443 3333444433    23468999999999876  45678888899999999999999999999998777 4466


Q ss_pred             HHHHHHHHHHhcCCch-hHHHHHHHHHHHhhcCC
Q 048799          258 VVWRTLLGACSFHGNV-EMGERVTRKILEMERGY  290 (331)
Q Consensus       258 ~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~~  290 (331)
                      .+...++.+....|+. +.+.+.+.++....|++
T Consensus       236 d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h  269 (290)
T PF04733_consen  236 DTLANLIVCSLHLGKPTEAAERYLSQLKQSNPNH  269 (290)
T ss_dssp             HHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTS
T ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCCC
Confidence            7777788777777777 66788888888888876

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.

>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=99.39  E-value=1.7e-09  Score=92.54  Aligned_cols=288  Identities=12%  Similarity=0.029  Sum_probs=192.2

Q ss_pred             HHHHHHHcCCHHHHHHHHhhCCC--CC-chhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhc--
Q 048799           23 MITGLVKWGELEYARSLFEEMPC--RN-VVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQN--   97 (331)
Q Consensus        23 l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--   97 (331)
                      ....+...|++++|++.++.-..  .| ..........+.+.|+.++|..+|..++..+  |.+...|..+..+..-.  
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcc
Confidence            44667889999999999988653  34 3456677788999999999999999995532  24444555555555222  


Q ss_pred             ---CchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhH-HHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHH
Q 048799           98 ---GDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFS-ALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAV  173 (331)
Q Consensus        98 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  173 (331)
                         .+.+...++++++.+.-+.. +  +...+.-.+.....+.. +..++..+.. ..-+.+|+.+-..|......+-..
T Consensus        88 ~~~~~~~~~~~~y~~l~~~yp~s-~--~~~rl~L~~~~g~~F~~~~~~yl~~~l~-KgvPslF~~lk~Ly~d~~K~~~i~  163 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKYPRS-D--APRRLPLDFLEGDEFKERLDEYLRPQLR-KGVPSLFSNLKPLYKDPEKAAIIE  163 (517)
T ss_pred             cccccHHHHHHHHHHHHHhCccc-c--chhHhhcccCCHHHHHHHHHHHHHHHHh-cCCchHHHHHHHHHcChhHHHHHH
Confidence               35677788888877664322 1  11112111222122322 2233333332 223456666666676555555555


Q ss_pred             HHHHHHHhc----c----------CCCCH--HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHh
Q 048799          174 ENFERMQKV----V----------LKPNR--VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGR  236 (331)
Q Consensus       174 ~~~~~m~~~----~----------~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~  236 (331)
                      +++......    +          -+|+.  .++..+...|...|++++|++++++.++.   .| .+..|..-.+.|-.
T Consensus       164 ~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h---tPt~~ely~~KarilKh  240 (517)
T PF12569_consen  164 SLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH---TPTLVELYMTKARILKH  240 (517)
T ss_pred             HHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHH
Confidence            666554432    1          12344  24566677788999999999999999975   45 47788888999999


Q ss_pred             cCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCC-c------cH--HHHHHHHhhhcc
Q 048799          237 AGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYG-G------DY--VLMYNILAGVWR  306 (331)
Q Consensus       237 ~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~------~~--~~l~~~~~~~g~  306 (331)
                      .|++.+|.+.++.+... .-|...-+..+..+.+.|++++|.+.+....+.+.+.. .      .|  ...+.+|.+.|+
T Consensus       241 ~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~  320 (517)
T PF12569_consen  241 AGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGD  320 (517)
T ss_pred             CCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999887 44667777778888899999999999988876331111 1      12  346788999999


Q ss_pred             CcchHHHHHHHhh
Q 048799          307 YGDAERLRRVVDE  319 (331)
Q Consensus       307 ~~~a~~~~~~~~~  319 (331)
                      +..|++.+..+.+
T Consensus       321 ~~~ALk~~~~v~k  333 (517)
T PF12569_consen  321 YGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999988877655

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 [], [].

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.39  E-value=3e-09  Score=91.20  Aligned_cols=303  Identities=13%  Similarity=0.055  Sum_probs=192.4

Q ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHH
Q 048799           15 RNLVTWNVMITGLVKWGELEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVF   91 (331)
Q Consensus        15 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~   91 (331)
                      -|...|..+.-++.+.|+++.+.+.|++...   .....|+.+...|...|.-..|+.+++........++|...+...-
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lmas  400 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMAS  400 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHHH
Confidence            3566677777777777777777777776542   2334566666666666666666666665533222222222222222


Q ss_pred             HHHh-hcCchh--------------------------------------------------HHHHHHhhhhhcCCCcchh
Q 048799           92 PAIW-QNGDVR--------------------------------------------------NCQLIHGYGEKRGFNAFHI  120 (331)
Q Consensus        92 ~~~~-~~~~~~--------------------------------------------------~a~~~~~~~~~~~~~~~~~  120 (331)
                      ..|. +.+..+                                                  ++.+.++++++.++.  |+
T Consensus       401 klc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~--dp  478 (799)
T KOG4162|consen  401 KLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT--DP  478 (799)
T ss_pred             HHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC--Cc
Confidence            2221 122222                                                  344445555544333  44


Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHhhhcC--CcHHHHHHHHHHHHccCChHHHHHHHHHHHhc-cC-------------
Q 048799          121 HVSNCLIDTYAKCGCIFSALKLFEDISVER--KNLVSWTSIISGFAMHGMGKEAVENFERMQKV-VL-------------  184 (331)
Q Consensus       121 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~-------------  184 (331)
                      .+...+.--|+..++++.|....++.....  .+...|..+.-.+...+++.+|+.+.+..... |.             
T Consensus       479 ~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~  558 (799)
T KOG4162|consen  479 LVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIEL  558 (799)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhh
Confidence            444445556677777888887777776662  35667777766666677777776665543321 10             


Q ss_pred             ----------------------------------------------C---------------------------------
Q 048799          185 ----------------------------------------------K---------------------------------  185 (331)
Q Consensus       185 ----------------------------------------------~---------------------------------  185 (331)
                                                                    .                                 
T Consensus       559 ~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~  638 (799)
T KOG4162|consen  559 TFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTV  638 (799)
T ss_pred             hcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccc
Confidence                                                          0                                 


Q ss_pred             ---CC------HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-
Q 048799          186 ---PN------RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-  255 (331)
Q Consensus       186 ---p~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-  255 (331)
                         |+      ...|......+.+.+..++|...+.+...  ..+.....|......+...|..++|.+.|..+....| 
T Consensus       639 ~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~  716 (799)
T KOG4162|consen  639 LPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPD  716 (799)
T ss_pred             cCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCC
Confidence               00      00011223334444555555555555543  2233555666666777888999999999998887745 


Q ss_pred             cHHHHHHHHHHHhcCCchhHHHH--HHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          256 NVVVWRTLLGACSFHGNVEMGER--VTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ++.....+..++.+.|+...|..  ++..+.+.+|.++..|..++..+.+.|+.++|.+.|....+..
T Consensus       717 hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  717 HVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             CcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence            56888899999999999988888  9999999999999999999999999999999999999887754

>PF13041 PPR_2: PPR repeat family

Probab=99.39  E-value=1.3e-12  Score=74.75  Aligned_cols=50  Identities=32%  Similarity=0.569  Sum_probs=47.6

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHh
Q 048799          186 PNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGR  236 (331)
Q Consensus       186 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  236 (331)
                      ||..+|+.++.+|++.|++++|.++|++|.+. |++||..||+.++++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~-g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKR-GIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999998 999999999999999874

>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=2.2e-09  Score=85.80  Aligned_cols=297  Identities=11%  Similarity=-0.053  Sum_probs=216.3

Q ss_pred             hHHHHHHHHHHHH--HcCCHHHHHHHHhhCC-----CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHH-H
Q 048799           16 NLVTWNVMITGLV--KWGELEYARSLFEEMP-----CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEIT-I   87 (331)
Q Consensus        16 ~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~   87 (331)
                      +..+....+.+++  -.++...|...+-.+.     +.|+.....+...+...|+.++|+..|++...   +.|+..+ .
T Consensus       193 ~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~---~dpy~i~~M  269 (564)
T KOG1174|consen  193 HFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLC---ANPDNVEAM  269 (564)
T ss_pred             CccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhh---CChhhhhhH
Confidence            3334444454443  3444444444433222     45788889999999999999999999998832   3344322 2


Q ss_pred             HHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHcc
Q 048799           88 LAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMH  166 (331)
Q Consensus        88 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~  166 (331)
                      ..-.-.+...|+.+....+...+......  +...|..-+..+...+++..|+.+-++..+..| +...|-.-...+...
T Consensus       270 D~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~--ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  270 DLYAVLLGQEGGCEQDSALMDYLFAKVKY--TASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHHHhccCHhhHHHHHHHHHhhhhc--chhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhc
Confidence            22233345778888877777766654322  334444455667778899999999999887755 566777777888899


Q ss_pred             CChHHHHHHHHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHH-HHHH-hcCCHHHH
Q 048799          167 GMGKEAVENFERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLI-DMLG-RAGRLEQA  243 (331)
Q Consensus       167 ~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~A  243 (331)
                      +++++|.-.|+....  +.| +...|..|+.+|...|.+.+|.-+-+...+.  ++.+..+...+. ..+. .-..-++|
T Consensus       348 ~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~--~~~sA~~LtL~g~~V~~~dp~~rEKA  423 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL--FQNSARSLTLFGTLVLFPDPRMREKA  423 (564)
T ss_pred             cchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH--hhcchhhhhhhcceeeccCchhHHHH
Confidence            999999999999876  444 6689999999999999999999888777653  444666655553 2222 22335889


Q ss_pred             HHHHhhcccCCcc-HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          244 EKVASGIPSEITN-VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       244 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      .++++......|+ ....+.+...+...|..++++.++++.+...|++ .....|+..+...+.+.+|.+.|......+.
T Consensus       424 Kkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~-~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP  502 (564)
T KOG1174|consen  424 KKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDV-NLHNHLGDIMRAQNEPQKAMEYYYKALRQDP  502 (564)
T ss_pred             HHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhcccc-HHHHHHHHHHHHhhhHHHHHHHHHHHHhcCc
Confidence            9999998888676 4666777888899999999999999999988887 8899999999999999999999887765443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.36  E-value=4.8e-09  Score=81.94  Aligned_cols=299  Identities=12%  Similarity=0.083  Sum_probs=216.7

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHH---HHHHhcCChhHHHHHHHHHHhccCCCCchH-HHHHHH
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGII---DGYTRMNRSNGALALFRRMVACEYTEPSEI-TILAVF   91 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~   91 (331)
                      ++.-..-+...+.-.|++..|+.-|....+-|+..|.++.   ..|...|+..-|+.-|.+.+.   .+||-. .-..-.
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle---lKpDF~~ARiQRg  113 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE---LKPDFMAARIQRG  113 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh---cCccHHHHHHHhc
Confidence            3444445667777889999999999988887777776665   468889999999988888754   567754 333445


Q ss_pred             HHHhhcCchhHHHHHHhhhhhcCCCcc-hhHHH------------HHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHH
Q 048799           92 PAIWQNGDVRNCQLIHGYGEKRGFNAF-HIHVS------------NCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWT  157 (331)
Q Consensus        92 ~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~------------~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~  157 (331)
                      ..+.++|.++.|..=|+..++..+... ...++            ...+..+...|+...|+.....+.+..| +...|.
T Consensus       114 ~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~  193 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQ  193 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHH
Confidence            667899999999999999888754210 11111            2234456667899999999998887766 777888


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhH----HH----
Q 048799          158 SIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHY----GC----  229 (331)
Q Consensus       158 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~~----  229 (331)
                      .-..+|...|++..|+.-++...+... -+..++..+-..+...|+.+.++....+..+   +.||-...    ..    
T Consensus       194 ~Rakc~i~~~e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK---ldpdHK~Cf~~YKklkKv  269 (504)
T KOG0624|consen  194 ARAKCYIAEGEPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECLK---LDPDHKLCFPFYKKLKKV  269 (504)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHHc---cCcchhhHHHHHHHHHHH
Confidence            888899999999999988877765433 3444555566677788888888888777764   45654322    11    


Q ss_pred             ---H--HHHHHhcCCHHHHHHHHhhcccCCcc-----HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHH
Q 048799          230 ---L--IDMLGRAGRLEQAEKVASGIPSEITN-----VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYN  299 (331)
Q Consensus       230 ---l--~~~~~~~g~~~~A~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  299 (331)
                         |  +....+.+++.++....+......|.     ...+..+-.++...|++.+|++...++++.+|++..++..-+.
T Consensus       270 ~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAe  349 (504)
T KOG0624|consen  270 VKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAE  349 (504)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHH
Confidence               1  12234567777777777776666443     2344556667788899999999999999999998888888999


Q ss_pred             HHhhhccCcchHHHHHHHhhcc
Q 048799          300 ILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       300 ~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      +|.....++.|+.-++...+.+
T Consensus       350 A~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  350 AYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHhhhHHHHHHHHHHHHHHhcC
Confidence            9998889999998888876654

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

Probab=99.35  E-value=1.7e-08  Score=84.49  Aligned_cols=300  Identities=11%  Similarity=-0.053  Sum_probs=191.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchh---HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHH
Q 048799           17 LVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVS---WTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAV   90 (331)
Q Consensus        17 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l   90 (331)
                      ...|..+...+...|+.+.+...+....   .++...   .......+...|++++|.+.+++.....  |.+...+.. 
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~-   82 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY--PRDLLALKL-   82 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHH-
Confidence            4567777788888888888766666543   223222   2223345678899999999999985432  233434432 


Q ss_pred             HHHHh----hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHc
Q 048799           91 FPAIW----QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAM  165 (331)
Q Consensus        91 ~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~  165 (331)
                      ...+.    ..+..+.+.+.+...  .+..|........+...+...|++++|...+++.....| +...+..+..++..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~  160 (355)
T cd05804          83 HLGAFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEM  160 (355)
T ss_pred             hHHHHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHH
Confidence            22222    345555555555542  222332455656777889999999999999999988866 46678888899999


Q ss_pred             cCChHHHHHHHHHHHhccC-CCCH--HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhH-H--HHHHHHHhcCC
Q 048799          166 HGMGKEAVENFERMQKVVL-KPNR--VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHY-G--CLIDMLGRAGR  239 (331)
Q Consensus       166 ~~~~~~a~~~~~~m~~~~~-~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~--~l~~~~~~~g~  239 (331)
                      .|++++|+..+++...... .|+.  ..|..+...+...|++++|..++++........+..... +  .++.-+...|.
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            9999999999999876432 1232  345568888999999999999999986431111222211 1  23333344454


Q ss_pred             HHHHHHH---HhhcccCCc---cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC---------CCccHHHHHHHHhhh
Q 048799          240 LEQAEKV---ASGIPSEIT---NVVVWRTLLGACSFHGNVEMGERVTRKILEMERG---------YGGDYVLMYNILAGV  304 (331)
Q Consensus       240 ~~~A~~~---~~~~~~~~p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~  304 (331)
                      ...+.++   ........+   ..........++...|+.+.|..+++.+......         ........+.++...
T Consensus       241 ~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~  320 (355)
T cd05804         241 VDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAE  320 (355)
T ss_pred             CChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHc
Confidence            3333333   111111101   1122234667788999999999999998763211         123344556677889


Q ss_pred             ccCcchHHHHHHHhhcc
Q 048799          305 WRYGDAERLRRVVDERN  321 (331)
Q Consensus       305 g~~~~a~~~~~~~~~~~  321 (331)
                      |++++|.+.+.......
T Consensus       321 g~~~~A~~~L~~al~~a  337 (355)
T cd05804         321 GNYATALELLGPVRDDL  337 (355)
T ss_pred             CCHHHHHHHHHHHHHHH
Confidence            99999999998876643

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.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.29  E-value=2.6e-09  Score=88.06  Aligned_cols=318  Identities=13%  Similarity=0.061  Sum_probs=198.2

Q ss_pred             CccchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CCC-chhHHHHHHHHHhcCChhHHHHHHHHH
Q 048799            1 FLKDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMP--CRN-VVSWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus         1 ~~~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      +++.|+.+|.+..   ++|...|..-..+|.+.|++++|+.=-.+-.  .|+ ...|+....++.-.|++++|+..|.+-
T Consensus        17 d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~G   96 (539)
T KOG0548|consen   17 DFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEEAILAYSEG   96 (539)
T ss_pred             cHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHHHHHHHHHH
Confidence            4567777777644   5677778888888888888888776655544  343 347888888888888888888888876


Q ss_pred             HhccCCCCchHHHHHHHHHHhhcCc---------------------------------------------------hhHH
Q 048799           75 VACEYTEPSEITILAVFPAIWQNGD---------------------------------------------------VRNC  103 (331)
Q Consensus        75 ~~~~~~~~~~~~~~~l~~~~~~~~~---------------------------------------------------~~~a  103 (331)
                      +..  .+.+...+..+..++.....                                                   +..+
T Consensus        97 L~~--d~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d~r~m~a  174 (539)
T KOG0548|consen   97 LEK--DPSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLNDPRLMKA  174 (539)
T ss_pred             hhc--CCchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccccHHHHHH
Confidence            442  23445566666666521100                                                   0000


Q ss_pred             HHHHhhh-----hhcC-------CCcc---------------------hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC
Q 048799          104 QLIHGYG-----EKRG-------FNAF---------------------HIHVSNCLIDTYAKCGCIFSALKLFEDISVER  150 (331)
Q Consensus       104 ~~~~~~~-----~~~~-------~~~~---------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  150 (331)
                      ...+...     ...+       ..|.                     -..-...+++...+..+++.|.+-+.......
T Consensus       175 ~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~  254 (539)
T KOG0548|consen  175 DGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHYAKALELA  254 (539)
T ss_pred             HHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh
Confidence            0000000     0000       0000                     00112234444445555666666666555445


Q ss_pred             CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCC--C----HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcH
Q 048799          151 KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP--N----RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDI  224 (331)
Q Consensus       151 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p--~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  224 (331)
                      .+..-++....+|...|.+..++..-.+..+.|...  +    ...+..+..+|.+.++++.+...|.+.... ...|+.
T Consensus       255 ~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte-~Rt~~~  333 (539)
T KOG0548|consen  255 TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTE-HRTPDL  333 (539)
T ss_pred             hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhh-hcCHHH
Confidence            333334555566777777776666666655544211  1    112223344566677888888888887665 334432


Q ss_pred             hhH-------------------------HHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHH
Q 048799          225 KHY-------------------------GCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGER  278 (331)
Q Consensus       225 ~~~-------------------------~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~  278 (331)
                      ..-                         ..-...+.+.|++..|.+.|.+++.. +.|...|..-.-+|.+.|.+..|++
T Consensus       334 ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~  413 (539)
T KOG0548|consen  334 LSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALK  413 (539)
T ss_pred             HHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHH
Confidence            221                         12234467788899999999988877 4467888888888899999999999


Q ss_pred             HHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          279 VTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       279 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      -.+..++++|+....|..-+.++....++++|.+.|++-.+.+
T Consensus       414 Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  414 DAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            9888888888888888888888888889999988888776654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.28  E-value=4.6e-09  Score=80.53  Aligned_cols=288  Identities=11%  Similarity=0.055  Sum_probs=202.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhCCC--C-CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHH-HHHHHh
Q 048799           20 WNVMITGLVKWGELEYARSLFEEMPC--R-NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILA-VFPAIW   95 (331)
Q Consensus        20 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-l~~~~~   95 (331)
                      +++.+..+.+..++++|++++..-.+  | +....+.|..+|-...++..|-..++.+ ..  ..|...-|.. -...+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL-~q--l~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQL-GQ--LHPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHH-Hh--hChHHHHHHHHHHHHHH
Confidence            55677777889999999999876653  2 5567788888999999999999999998 33  3355444433 345667


Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHH
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVEN  175 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  175 (331)
                      +.+.+..|+++...+.+.. .. -......-.......+++..+..+.++.... .+..+.+.......+.|+++.|.+-
T Consensus        90 ~A~i~ADALrV~~~~~D~~-~L-~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e-n~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDNP-AL-HSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE-NEADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             HhcccHHHHHHHHHhcCCH-HH-HHHHHHHHHHHhcccccCcchHHHHHhccCC-CccchhccchheeeccccHHHHHHH
Confidence            8888999999988887641 11 1111111122334578888888888877421 2344455555666789999999999


Q ss_pred             HHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-------------cHh--------hHHHHHH--
Q 048799          176 FERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-------------DIK--------HYGCLID--  232 (331)
Q Consensus       176 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------------~~~--------~~~~l~~--  232 (331)
                      |+...+-+---....|+.-+ +..+.|+++.|.++..+++++ |++.             |..        ..+.+++  
T Consensus       167 FqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieR-G~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAf  244 (459)
T KOG4340|consen  167 FQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIER-GIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAF  244 (459)
T ss_pred             HHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHh-hhhcCCccCccceeccCchhcccchHHHHHHHHHHHh
Confidence            99888754333455677555 455778999999999998887 5431             111        1233333  


Q ss_pred             -----HHHhcCCHHHHHHHHhhcccC---CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhh
Q 048799          233 -----MLGRAGRLEQAEKVASGIPSE---ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGV  304 (331)
Q Consensus       233 -----~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  304 (331)
                           .+.+.|+++.|.+.+..|...   ..|+.|...+.-.= ..+++.+..+-+.-+++.+|-.+.+|..+...|++.
T Consensus       245 NLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPfP~ETFANlLllyCKN  323 (459)
T KOG4340|consen  245 NLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPFPPETFANLLLLYCKN  323 (459)
T ss_pred             hhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCCChHHHHHHHHHHhhh
Confidence                 356789999999999999877   55677766654332 345677777777788888998888999999999999


Q ss_pred             ccCcchHHHHHH
Q 048799          305 WRYGDAERLRRV  316 (331)
Q Consensus       305 g~~~~a~~~~~~  316 (331)
                      .-++.|-+++.+
T Consensus       324 eyf~lAADvLAE  335 (459)
T KOG4340|consen  324 EYFDLAADVLAE  335 (459)
T ss_pred             HHHhHHHHHHhh
Confidence            999988887754

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

Probab=99.28  E-value=8.2e-10  Score=100.16  Aligned_cols=202  Identities=14%  Similarity=0.041  Sum_probs=126.1

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-C-----CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVE-R-----KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFL  192 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  192 (331)
                      +...|...+......++.++|.++++++... +     .-...|.++++.-..-|.-+...++|+++.+.  .-.-..|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHH
Confidence            4556666666666677777777777666544 1     12344555555555556666666677666652  22234456


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc---cHHHHHHHHHHHhc
Q 048799          193 SVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT---NVVVWRTLLGACSF  269 (331)
Q Consensus       193 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p---~~~~~~~l~~~~~~  269 (331)
                      .|...|.+.+.+++|.++++.|.++++  ....+|...++.+.+.++-+.|..++.++...-|   +.......+..-.+
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            666666677777777777777766533  4556666666667777666777777766665522   34444555555566


Q ss_pred             CCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccccC
Q 048799          270 HGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALK  324 (331)
Q Consensus       270 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  324 (331)
                      .|+.+.+..+|+..+.-.|.....|..++..-.+.|..+.++++|++....++.+
T Consensus      1613 ~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             cCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            6777777777777776666666667777777777777777777777766665543

>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=99.28  E-value=2.1e-09  Score=85.68  Aligned_cols=231  Identities=14%  Similarity=0.094  Sum_probs=161.2

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHh
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIW   95 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~   95 (331)
                      +......+..++...|+++.++.-...-..|.......+...+...++-+.++.-+++.+.......+..........+.
T Consensus        34 ~~e~~~~~~Rs~iAlg~~~~vl~ei~~~~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~  113 (290)
T PF04733_consen   34 KLERDFYQYRSYIALGQYDSVLSEIKKSSSPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILF  113 (290)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHS-TTSSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHcCChhHHHHHhccCCChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHH
Confidence            34455567788999999998777776666677777766665554445666777777665333222234444444456677


Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHH---HHHHHHHccCChHHH
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWT---SIISGFAMHGMGKEA  172 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~a  172 (331)
                      ..|++++|++++...      . +.......+.+|.+.++++.|.+.++.|.+...|....+   +.+..+.-.+.+.+|
T Consensus       114 ~~~~~~~AL~~l~~~------~-~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A  186 (290)
T PF04733_consen  114 HEGDYEEALKLLHKG------G-SLELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDA  186 (290)
T ss_dssp             CCCHHHHHHCCCTTT------T-CHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             HcCCHHHHHHHHHcc------C-cccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHH
Confidence            899999999988764      1 556667788999999999999999999987766654333   333333334579999


Q ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCH-HHHHHHHhhcc
Q 048799          173 VENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL-EQAEKVASGIP  251 (331)
Q Consensus       173 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~  251 (331)
                      ..+|+++.+. ..++..+.+.+..++...|++++|.+++.+..+.  -+-++.+...++-+....|+. +.+.+.+..+.
T Consensus       187 ~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~--~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~  263 (290)
T PF04733_consen  187 FYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEK--DPNDPDTLANLIVCSLHLGKPTEAAERYLSQLK  263 (290)
T ss_dssp             HHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC---CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCH
T ss_pred             HHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--ccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            9999998654 5688899999999999999999999999998753  233677777788777778887 77888888887


Q ss_pred             cCCcc
Q 048799          252 SEITN  256 (331)
Q Consensus       252 ~~~p~  256 (331)
                      ...|+
T Consensus       264 ~~~p~  268 (290)
T PF04733_consen  264 QSNPN  268 (290)
T ss_dssp             HHTTT
T ss_pred             HhCCC
Confidence            66454

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

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

Probab=99.24  E-value=1.7e-09  Score=89.88  Aligned_cols=250  Identities=14%  Similarity=0.048  Sum_probs=194.6

Q ss_pred             HHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCC
Q 048799           56 DGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGC  135 (331)
Q Consensus        56 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  135 (331)
                      .-+.+.|++.+|.-.|+..+.+.  |-+...|..|.......++-..|+..+.++++..+.  +..+.-.|.-.|...|.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqd--P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~--NleaLmaLAVSytNeg~  368 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQD--PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT--NLEALMALAVSYTNEGL  368 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhC--hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc--cHHHHHHHHHHHhhhhh
Confidence            34678999999999999985543  356778999999999999999999999999998554  88999999999999999


Q ss_pred             HhHHHHHHHHhhhcCCcHHHHHHH-------H--HHHHccCChHHHHHHHHHHHh-ccCCCCHHHHHHHHHHHhccCChH
Q 048799          136 IFSALKLFEDISVERKNLVSWTSI-------I--SGFAMHGMGKEAVENFERMQK-VVLKPNRVTFLSVLNACSHGGLVE  205 (331)
Q Consensus       136 ~~~A~~~~~~~~~~~~~~~~~~~l-------~--~~~~~~~~~~~a~~~~~~m~~-~~~~p~~~~~~~l~~~~~~~~~~~  205 (331)
                      -..|+..++.-....|.-. |...       .  ..+.....+....++|-++.. .+..+|......|.-.|--.|+++
T Consensus       369 q~~Al~~L~~Wi~~~p~y~-~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  369 QNQALKMLDKWIRNKPKYV-HLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHHHhCccch-hccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            9999999988755432110 0000       0  122233344556666655544 444577888888888899999999


Q ss_pred             HHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhcCCchhHHHHHHHHH
Q 048799          206 EGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGACSFHGNVEMGERVTRKI  283 (331)
Q Consensus       206 ~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~  283 (331)
                      +|.+.|+.++.   ++| |..+||.|.-.+....+.++|+..|+++.+..|. +.+...|.-+|...|.+++|.+.|-.+
T Consensus       448 raiDcf~~AL~---v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  448 RAVDCFEAALQ---VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             HHHHHHHHHHh---cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHH
Confidence            99999999985   466 7889999999999999999999999999999776 467777899999999999999999999


Q ss_pred             HHhhcC-----C-----CccHHHHHHHHhhhccCcchHHH
Q 048799          284 LEMERG-----Y-----GGDYVLMYNILAGVWRYGDAERL  313 (331)
Q Consensus       284 ~~~~~~-----~-----~~~~~~l~~~~~~~g~~~~a~~~  313 (331)
                      +.+.+.     .     ..+|.+|=.++...++.+-+..+
T Consensus       525 L~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  525 LSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             HHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            986544     1     13677777778878877755443

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

Probab=99.24  E-value=5e-09  Score=91.29  Aligned_cols=216  Identities=12%  Similarity=0.017  Sum_probs=140.2

Q ss_pred             CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC----------------------------CCCchhHHHHHHHHHhcCChh
Q 048799           14 ERNLVTWNVMITGLVKWGELEYARSLFEEMP----------------------------CRNVVSWTGIIDGYTRMNRSN   65 (331)
Q Consensus        14 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----------------------------~~~~~~~~~l~~~~~~~~~~~   65 (331)
                      .|+..||.++|.-||..|+.+.|- +|.-|.                            .|.+.+|..|..+|...||..
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hGDli  100 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHGDLI  100 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhccchH
Confidence            799999999999999999999998 777764                            145568888888888888865


Q ss_pred             H---HHHHHHHHH---hccCCCCchHHH--------------HHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHH
Q 048799           66 G---ALALFRRMV---ACEYTEPSEITI--------------LAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNC  125 (331)
Q Consensus        66 ~---a~~~~~~~~---~~~~~~~~~~~~--------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  125 (331)
                      .   +.+.+..+.   ...|+..-..-+              .+++......|-++.+++++..+.-.....  +...  
T Consensus       101 ~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~~--p~~v--  176 (1088)
T KOG4318|consen  101 LFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWNA--PFQV--  176 (1088)
T ss_pred             HHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccccc--hHHH--
Confidence            4   222122210   111111001111              112222233344444444444333221111  1111  


Q ss_pred             HHHHHHh-cCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCCh
Q 048799          126 LIDTYAK-CGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLV  204 (331)
Q Consensus       126 l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  204 (331)
                      .++-... ...+++-..+.....+ .+++.+|.+++.+-...|+.+.|..++.+|.+.|++.+.+-|..|+.+   .++.
T Consensus       177 fLrqnv~~ntpvekLl~~cksl~e-~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~  252 (1088)
T KOG4318|consen  177 FLRQNVVDNTPVEKLLNMCKSLVE-APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAA  252 (1088)
T ss_pred             HHHHhccCCchHHHHHHHHHHhhc-CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---Cccc
Confidence            1222221 2233343444444333 689999999999999999999999999999999999999888888765   7888


Q ss_pred             HHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC
Q 048799          205 EEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR  239 (331)
Q Consensus       205 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (331)
                      ..++.++.-|.+. |+.|+..|+...+..+...|.
T Consensus       253 q~~e~vlrgmqe~-gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  253 QVFEFVLRGMQEK-GVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             hHHHHHHHHHHHh-cCCCCcchhHHHHHhhhcchh
Confidence            8889999999888 999999999888777777555

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

Probab=99.19  E-value=1.9e-09  Score=91.93  Aligned_cols=222  Identities=11%  Similarity=-0.061  Sum_probs=181.5

Q ss_pred             CchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHH
Q 048799           82 PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIIS  161 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~  161 (331)
                      |-...-..+...+...|-...|..++++.          ..|...+.+|+..|+.++|..+..+-.+.+|++..|..+.+
T Consensus       396 p~Wq~q~~laell~slGitksAl~I~Erl----------emw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGD  465 (777)
T KOG1128|consen  396 PIWQLQRLLAELLLSLGITKSALVIFERL----------EMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGD  465 (777)
T ss_pred             CcchHHHHHHHHHHHcchHHHHHHHHHhH----------HHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhh
Confidence            33334445667778888888888888754          45667888999999999999999888877889999999999


Q ss_pred             HHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHH
Q 048799          162 GFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLE  241 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  241 (331)
                      ......-+++|.++.+..-..       .-..+.....+.++++++.+.|+.-.+.  -+....+|-.+..+..+.+++.
T Consensus       466 v~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~--nplq~~~wf~~G~~ALqlek~q  536 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEI--NPLQLGTWFGLGCAALQLEKEQ  536 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhc--CccchhHHHhccHHHHHHhhhH
Confidence            888888889999998764332       1122222334579999999999987764  2336778888888889999999


Q ss_pred             HHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          242 QAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       242 ~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      .|.+.|.......| +...|+.+-.+|.+.|+-.+|...+.++.+.+-.+...|.+.+....+.|.+++|.+.+.++.+.
T Consensus       537 ~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  537 AAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             HHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            99999999988855 56899999999999999999999999999988888889999999999999999999999998775


Q ss_pred             cc
Q 048799          321 NA  322 (331)
Q Consensus       321 ~~  322 (331)
                      ..
T Consensus       617 ~~  618 (777)
T KOG1128|consen  617 RK  618 (777)
T ss_pred             hh
Confidence            43

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

Probab=99.19  E-value=1.6e-07  Score=78.59  Aligned_cols=269  Identities=13%  Similarity=0.061  Sum_probs=173.3

Q ss_pred             chhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHH-HHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHH
Q 048799           48 VVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEIT-ILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL  126 (331)
Q Consensus        48 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  126 (331)
                      ...|..+...+...|+.+.+...+.+........++... .......+...|++++|..++++..+..+.  +...+.. 
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~--~~~a~~~-   82 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR--DLLALKL-   82 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC--cHHHHHH-
Confidence            346677777788888898887777776443333334322 222344567889999999999999988544  4444442 


Q ss_pred             HHHHH----hcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhcc
Q 048799          127 IDTYA----KCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHG  201 (331)
Q Consensus       127 ~~~~~----~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  201 (331)
                      ...+.    ..+..+.+.+.+.......|+ ......+...+...|++++|.+.+++..+.. +.+...+..+...+...
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~  161 (355)
T cd05804          83 HLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQ  161 (355)
T ss_pred             hHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHc
Confidence            22232    345556666666553223443 3455566678889999999999999998854 33456778888899999


Q ss_pred             CChHHHHHHHHHHHHhcCCCCcH--hhHHHHHHHHHhcCCHHHHHHHHhhcccCCc--c-HHHH-H--HHHHHHhcCCch
Q 048799          202 GLVEEGLKFFDKMVEECEVLPDI--KHYGCLIDMLGRAGRLEQAEKVASGIPSEIT--N-VVVW-R--TLLGACSFHGNV  273 (331)
Q Consensus       202 ~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p--~-~~~~-~--~l~~~~~~~g~~  273 (331)
                      |++++|..++++........|+.  ..|..+...+...|++++|..+++++....|  . .... +  .++.-+...|..
T Consensus       162 g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~  241 (355)
T cd05804         162 GRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHV  241 (355)
T ss_pred             CCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCC
Confidence            99999999999988641112332  3455788889999999999999999764423  1 1111 1  223333444544


Q ss_pred             hHHHHHHHHHHHh---h-cCCCccHH--HHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          274 EMGERVTRKILEM---E-RGYGGDYV--LMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       274 ~~a~~~~~~~~~~---~-~~~~~~~~--~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ..+.+. +.+...   . |.....+.  ..+.++...|+.++|..+++.+....
T Consensus       242 ~~~~~w-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~  294 (355)
T cd05804         242 DVGDRW-EDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRA  294 (355)
T ss_pred             ChHHHH-HHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            433333 222221   1 22222222  46667788899999999999886643

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.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.17  E-value=5.7e-08  Score=76.12  Aligned_cols=284  Identities=12%  Similarity=0.058  Sum_probs=205.7

Q ss_pred             ccchhHHhhhcCCchHHHHHHHH---HHHHHcCCHHHHHHHHhhCC--CCCchh-HHHHHHHHHhcCChhHHHHHHHHHH
Q 048799            2 LKDGSKLFDELPERNLVTWNVMI---TGLVKWGELEYARSLFEEMP--CRNVVS-WTGIIDGYTRMNRSNGALALFRRMV   75 (331)
Q Consensus         2 ~~~A~~~~~~~~~p~~~~~~~l~---~~~~~~g~~~~A~~~~~~~~--~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~   75 (331)
                      +.+|+.-|...++.|+..|.++.   ..|...|+...|+.=+....  +||-.. --.-...+.++|.+++|..-|+.++
T Consensus        54 ~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~Gele~A~~DF~~vl  133 (504)
T KOG0624|consen   54 LSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQGELEQAEADFDQVL  133 (504)
T ss_pred             HHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcccHHHHHHHHHHHH
Confidence            34566666666666666666554   56777888888877777765  455422 2233456889999999999999985


Q ss_pred             hccCCCC-ch----------H--HHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHH
Q 048799           76 ACEYTEP-SE----------I--TILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKL  142 (331)
Q Consensus        76 ~~~~~~~-~~----------~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  142 (331)
                      ......- ..          .  .....+..+...|+...|+.....+++.  .|++...+..-..+|...|+...|+.-
T Consensus       134 ~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi--~~Wda~l~~~Rakc~i~~~e~k~AI~D  211 (504)
T KOG0624|consen  134 QHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI--QPWDASLRQARAKCYIAEGEPKKAIHD  211 (504)
T ss_pred             hcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc--CcchhHHHHHHHHHHHhcCcHHHHHHH
Confidence            4322110 01          1  1223455567789999999999999887  666999999999999999999999998


Q ss_pred             HHHhhhcC-CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHH----HH---------HHHHhccCChHHHH
Q 048799          143 FEDISVER-KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFL----SV---------LNACSHGGLVEEGL  208 (331)
Q Consensus       143 ~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~----~l---------~~~~~~~~~~~~a~  208 (331)
                      ++.+.+.. .+..++.-+-..+...|+.+.++...++.++  +.|+.....    .|         +....+.+++.++.
T Consensus       212 lk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cl  289 (504)
T KOG0624|consen  212 LKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECL  289 (504)
T ss_pred             HHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence            88886663 4667777778888899999999999998877  557764321    11         11233456777777


Q ss_pred             HHHHHHHHhcCCCCc-----HhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHH
Q 048799          209 KFFDKMVEECEVLPD-----IKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRK  282 (331)
Q Consensus       209 ~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (331)
                      +-.+...+.   .|.     ...+..+-.++...|++.+|++...+.....| |..++.--..+|.....++.|+.-|++
T Consensus       290 e~ge~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~  366 (504)
T KOG0624|consen  290 EAGEKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEK  366 (504)
T ss_pred             HHHHHHHhc---CCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            777776654   333     22344556677788999999999999988844 478888888899999999999999999


Q ss_pred             HHHhhcCCCc
Q 048799          283 ILEMERGYGG  292 (331)
Q Consensus       283 ~~~~~~~~~~  292 (331)
                      +.+.++++..
T Consensus       367 A~e~n~sn~~  376 (504)
T KOG0624|consen  367 ALELNESNTR  376 (504)
T ss_pred             HHhcCcccHH
Confidence            9998887743

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

Probab=99.15  E-value=1.9e-07  Score=79.03  Aligned_cols=299  Identities=12%  Similarity=0.090  Sum_probs=182.7

Q ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CC-C----------------------------------chhHHHHHHH
Q 048799           15 RNLVTWNVMITGLVKWGELEYARSLFEEMP--CR-N----------------------------------VVSWTGIIDG   57 (331)
Q Consensus        15 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~----------------------------------~~~~~~l~~~   57 (331)
                      .+.++|..+.-.+...+++++|+..|....  +| |                                  ...|..++.+
T Consensus        73 ~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs  152 (700)
T KOG1156|consen   73 KSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVA  152 (700)
T ss_pred             ccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            355677777777777777888887777654  11 1                                  1235555555


Q ss_pred             HHhcCChhHHHHHHHHHHhccCCCCchHHHHHH------HHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHH
Q 048799           58 YTRMNRSNGALALFRRMVACEYTEPSEITILAV------FPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYA  131 (331)
Q Consensus        58 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  131 (331)
                      +.-.|++..|..+++.........|+...+...      .....+.|..+.|.+.+......-.+  ....-..-...+.
T Consensus       153 ~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~D--kla~~e~ka~l~~  230 (700)
T KOG1156|consen  153 QHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVD--KLAFEETKADLLM  230 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHH--HHHHhhhHHHHHH
Confidence            666777777777777774333234555444332      22334566666666666554433221  2222234456778


Q ss_pred             hcCCHhHHHHHHHHhhhcCCcHHHHHHHH-HHHHccCChHHHH-HHHHHHH-----------------------------
Q 048799          132 KCGCIFSALKLFEDISVERKNLVSWTSII-SGFAMHGMGKEAV-ENFERMQ-----------------------------  180 (331)
Q Consensus       132 ~~g~~~~A~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~-~~~~~m~-----------------------------  180 (331)
                      +.+++++|..++..+....||...|.... .++.+..+.-++. .+|....                             
T Consensus       231 kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdky  310 (700)
T KOG1156|consen  231 KLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKY  310 (700)
T ss_pred             HHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHH
Confidence            88899999999998888888766655443 3333222222222 4444432                             


Q ss_pred             -----hccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhc-----C------------CCCcHhh--HHHHHHHHHh
Q 048799          181 -----KVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEEC-----E------------VLPDIKH--YGCLIDMLGR  236 (331)
Q Consensus       181 -----~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~------------~~~~~~~--~~~l~~~~~~  236 (331)
                           +.|+++   ++..+...|-   +.+.. .++++....+     +            -+|+...  +-.+++.+-+
T Consensus       311 L~~~l~Kg~p~---vf~dl~SLyk---~p~k~-~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~  383 (700)
T KOG1156|consen  311 LRPLLSKGVPS---VFKDLRSLYK---DPEKV-AFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDK  383 (700)
T ss_pred             HHHHhhcCCCc---hhhhhHHHHh---chhHh-HHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHH
Confidence                 222221   1222222221   11111 1333322110     1            1455444  4456788889


Q ss_pred             cCCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHH
Q 048799          237 AGRLEQAEKVASGIPSEITN-VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRR  315 (331)
Q Consensus       237 ~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  315 (331)
                      .|+++.|..+++.+....|+ +..|..-.+.+...|+++.|...++++.+++..+...-...+.-..+.++.++|.++..
T Consensus       384 ~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~s  463 (700)
T KOG1156|consen  384 LGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLS  463 (700)
T ss_pred             cccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHH
Confidence            99999999999999998666 46676667889999999999999999999876553333457777888999999999998


Q ss_pred             HHhhccc
Q 048799          316 VVDERNA  322 (331)
Q Consensus       316 ~~~~~~~  322 (331)
                      .+...|.
T Consensus       464 kFTr~~~  470 (700)
T KOG1156|consen  464 KFTREGF  470 (700)
T ss_pred             Hhhhccc
Confidence            8877664

>PLN02789 farnesyltranstransferase

Probab=99.14  E-value=2.8e-08  Score=80.42  Aligned_cols=122  Identities=12%  Similarity=-0.020  Sum_probs=51.1

Q ss_pred             HHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcC-chhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCC
Q 048799           57 GYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNG-DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGC  135 (331)
Q Consensus        57 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  135 (331)
                      .+...++.++|+.+..+++...  +-+..+|+....++...| ++++++..++++++..+.  +..+|+....++.+.|+
T Consensus        46 ~l~~~e~serAL~lt~~aI~ln--P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk--nyqaW~~R~~~l~~l~~  121 (320)
T PLN02789         46 VYASDERSPRALDLTADVIRLN--PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK--NYQIWHHRRWLAEKLGP  121 (320)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc--chHHhHHHHHHHHHcCc
Confidence            3344445555555555543211  112223333333333333 344555555555444332  33344433333333333


Q ss_pred             H--hHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 048799          136 I--FSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKV  182 (331)
Q Consensus       136 ~--~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  182 (331)
                      .  ++++.+++++....| +..+|+....++...|+++++++.++++++.
T Consensus       122 ~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~  171 (320)
T PLN02789        122 DAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE  171 (320)
T ss_pred             hhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            1  334444444443332 3444444444444444455555555544443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.13  E-value=6.9e-09  Score=81.37  Aligned_cols=184  Identities=10%  Similarity=-0.031  Sum_probs=131.8

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcH----HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCH--HHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNL----VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNR--VTFL  192 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~  192 (331)
                      ....+..++..+...|++++|...|+++....|+.    .++..+..++...|++++|+..++++.+.......  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            56777888999999999999999999998776532    46778888999999999999999999875421111  2455


Q ss_pred             HHHHHHhcc--------CChHHHHHHHHHHHHhcCCCCc-HhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHH
Q 048799          193 SVLNACSHG--------GLVEEGLKFFDKMVEECEVLPD-IKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTL  263 (331)
Q Consensus       193 ~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l  263 (331)
                      .+..++...        |+.++|.+.++.+.+.   .|+ ...+..+....    ......            ......+
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~----~~~~~~------------~~~~~~~  172 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMD----YLRNRL------------AGKELYV  172 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHH----HHHHHH------------HHHHHHH
Confidence            555556544        7788999999998875   343 22332222111    011000            0112245


Q ss_pred             HHHHhcCCchhHHHHHHHHHHHhhcCCC---ccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          264 LGACSFHGNVEMGERVTRKILEMERGYG---GDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       264 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ...+.+.|++++|...++.+.+..|+.+   ..+..++.++...|++++|..+++.+....
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            6678899999999999999998777654   578889999999999999999988886643

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).

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.12  E-value=1e-07  Score=78.92  Aligned_cols=223  Identities=11%  Similarity=0.060  Sum_probs=166.1

Q ss_pred             HHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHH-------H
Q 048799           87 ILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWT-------S  158 (331)
Q Consensus        87 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~-------~  158 (331)
                      ...+.+...+..+++.|++-+...+... .  +...++....+|...|.+.+.........+.... ..-|+       .
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~-~--~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA-T--DITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh-h--hhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHH
Confidence            3456777778888999999999988886 3  7788888899999999998888877776555322 22233       2


Q ss_pred             HHHHHHccCChHHHHHHHHHHHhccCCCCHHHHH-------------------------HHHHHHhccCChHHHHHHHHH
Q 048799          159 IISGFAMHGMGKEAVENFERMQKVVLKPNRVTFL-------------------------SVLNACSHGGLVEEGLKFFDK  213 (331)
Q Consensus       159 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~-------------------------~l~~~~~~~~~~~~a~~~~~~  213 (331)
                      +..+|.+.++++.++..|.+.......|+..+-.                         .=...+.+.|++..|...|.+
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~Yte  383 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTE  383 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHH
Confidence            3446677789999999999877655555433211                         113456688999999999999


Q ss_pred             HHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc
Q 048799          214 MVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG  292 (331)
Q Consensus       214 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  292 (331)
                      ++.. . +-|...|..-.-+|.+.|.+..|++-.+...+..| ....|..=..++....++++|.+.|.+.++.+|++..
T Consensus       384 AIkr-~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e  461 (539)
T KOG0548|consen  384 AIKR-D-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAE  461 (539)
T ss_pred             HHhc-C-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHH
Confidence            9986 3 55889999999999999999999999888888734 4566777777777788999999999999999998866


Q ss_pred             cHHHHHHHHhhhccCcchHHHH
Q 048799          293 DYVLMYNILAGVWRYGDAERLR  314 (331)
Q Consensus       293 ~~~~l~~~~~~~g~~~~a~~~~  314 (331)
                      ....+..++..........++.
T Consensus       462 ~~~~~~rc~~a~~~~~~~ee~~  483 (539)
T KOG0548|consen  462 AIDGYRRCVEAQRGDETPEETK  483 (539)
T ss_pred             HHHHHHHHHHHhhcCCCHHHHH
Confidence            6666666555433333333333

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.11  E-value=1.9e-08  Score=78.90  Aligned_cols=186  Identities=11%  Similarity=-0.018  Sum_probs=132.9

Q ss_pred             CchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCc-chhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-H---HHH
Q 048799           82 PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNA-FHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-L---VSW  156 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~---~~~  156 (331)
                      .....+..+...+...|+++.|...++++.+..+.. ....++..++.++...|++++|...++++.+..|+ .   .++
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            445678888889999999999999999998875532 12356778899999999999999999999877653 2   245


Q ss_pred             HHHHHHHHcc--------CChHHHHHHHHHHHhccCCCCHH-HHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhH
Q 048799          157 TSIISGFAMH--------GMGKEAVENFERMQKVVLKPNRV-TFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHY  227 (331)
Q Consensus       157 ~~l~~~~~~~--------~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  227 (331)
                      ..+..++.+.        |++++|.+.|+++....  |+.. ....+.... .   .      ... ..        ...
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~-~---~------~~~-~~--------~~~  169 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMD-Y---L------RNR-LA--------GKE  169 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHH-H---H------HHH-HH--------HHH
Confidence            5666666654        78999999999998753  5432 222221110 0   0      000 00        111


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcccCCc----cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhc
Q 048799          228 GCLIDMLGRAGRLEQAEKVASGIPSEIT----NVVVWRTLLGACSFHGNVEMGERVTRKILEMER  288 (331)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  288 (331)
                      ..+...+.+.|++.+|...++.+....|    ....+..++.++...|++++|..+++.+....|
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            2456678889999999999998877633    246788888999999999999998888776444

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).

>PLN02789 farnesyltranstransferase

Probab=99.08  E-value=4.4e-07  Score=73.51  Aligned_cols=115  Identities=11%  Similarity=0.017  Sum_probs=47.1

Q ss_pred             chhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcC-CHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCCh--HHHHH
Q 048799           99 DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCG-CIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMG--KEAVE  174 (331)
Q Consensus        99 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~--~~a~~  174 (331)
                      +.++|+.+..++++..+.  +..+|+....++...| ++++++..++++....| +..+|+.....+.+.|+.  ++++.
T Consensus        52 ~serAL~lt~~aI~lnP~--~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~  129 (320)
T PLN02789         52 RSPRALDLTADVIRLNPG--NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELE  129 (320)
T ss_pred             CCHHHHHHHHHHHHHCch--hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHH
Confidence            344444444444444322  3334443434444444 34444444444444333 233344333333333321  33444


Q ss_pred             HHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 048799          175 NFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       175 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  216 (331)
                      +++++.+.. +-|...|+...-++...|+++++++.++++++
T Consensus       130 ~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~  170 (320)
T PLN02789        130 FTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLE  170 (320)
T ss_pred             HHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            444444322 12333444444444444444445554444444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.08  E-value=5.9e-07  Score=84.70  Aligned_cols=299  Identities=11%  Similarity=-0.012  Sum_probs=192.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhCC----CCC---c-----hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCch----H
Q 048799           22 VMITGLVKWGELEYARSLFEEMP----CRN---V-----VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSE----I   85 (331)
Q Consensus        22 ~l~~~~~~~g~~~~A~~~~~~~~----~~~---~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~   85 (331)
                      .....+...|++++|..++....    ..+   .     .....+...+...|++++|...+++...... ..+.    .
T Consensus       414 ~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~  492 (903)
T PRK04841        414 LQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELP-LTWYYSRIV  492 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CccHHHHHH
Confidence            34455667889999888887643    111   1     1122233456678999999999988744221 1121    2


Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhc----CCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-----C---C-c
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKR----GFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-----R---K-N  152 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~---~-~  152 (331)
                      ..+.+...+...|++++|...+.+....    |...........+...+...|++++|...+++....     .   + .
T Consensus       493 a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  572 (903)
T PRK04841        493 ATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMH  572 (903)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHH
Confidence            3455666777899999999998887653    211112345556777888999999999998877543     1   1 1


Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHhcc--CCC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhH-
Q 048799          153 LVSWTSIISGFAMHGMGKEAVENFERMQKVV--LKP--NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHY-  227 (331)
Q Consensus       153 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-  227 (331)
                      ...+..+...+...|++++|...+.+.....  ..+  ....+..+...+...|+.+.|.+.+..+............+ 
T Consensus       573 ~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~  652 (903)
T PRK04841        573 EFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWI  652 (903)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHh
Confidence            2334455566777899999999988875421  112  23344556667778999999999998875431111111111 


Q ss_pred             ----HHHHHHHHhcCCHHHHHHHHhhcccCC-ccH----HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC------CCc
Q 048799          228 ----GCLIDMLGRAGRLEQAEKVASGIPSEI-TNV----VVWRTLLGACSFHGNVEMGERVTRKILEMERG------YGG  292 (331)
Q Consensus       228 ----~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------~~~  292 (331)
                          ...+..+...|+.+.|.+++....... ...    ..+..+..++...|++++|...++++.+....      ...
T Consensus       653 ~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~  732 (903)
T PRK04841        653 ANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNR  732 (903)
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHH
Confidence                112244556899999999987765541 111    12345667788999999999999999874221      123


Q ss_pred             cHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          293 DYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       293 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      +...++.++.+.|+.++|...+.+..+..
T Consensus       733 ~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        733 NLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            45667888999999999999988876643

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.07  E-value=8e-09  Score=73.82  Aligned_cols=123  Identities=8%  Similarity=-0.069  Sum_probs=91.9

Q ss_pred             HHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          174 ENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       174 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      .+|++..+  ..|+.  +..+...+...|++++|...|+.+...  -+.+...+..+..++...|++++|...|+.+...
T Consensus        14 ~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            45555555  33443  445666777888888888888888753  2346777888888888888888888888888877


Q ss_pred             -CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHh
Q 048799          254 -ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILA  302 (331)
Q Consensus       254 -~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  302 (331)
                       +.+...+..+..++...|++++|+..|+.+++..|+++..+.....+..
T Consensus        88 ~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~  137 (144)
T PRK15359         88 DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQI  137 (144)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence             4467888888888888888888888888888888888777766665544

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.07  E-value=3.3e-07  Score=76.85  Aligned_cols=144  Identities=17%  Similarity=0.165  Sum_probs=89.6

Q ss_pred             ChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHH--------HHHHhcCCCCcHhhHHHHHHHHHhcCC
Q 048799          168 MGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFD--------KMVEECEVLPDIKHYGCLIDMLGRAGR  239 (331)
Q Consensus       168 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (331)
                      .+..+.+++...-+....-.......++......|+++.|.+++.        ...+. +..|  .+...+...+.+.++
T Consensus       356 ~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~-~~~P--~~V~aiv~l~~~~~~  432 (652)
T KOG2376|consen  356 KHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEA-KHLP--GTVGAIVALYYKIKD  432 (652)
T ss_pred             HHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhh-ccCh--hHHHHHHHHHHhccC
Confidence            455666666555443222123444556666778888998888888        44433 3333  444556666777777


Q ss_pred             HHHHHHHHhhcccC----Ccc----HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchH
Q 048799          240 LEQAEKVASGIPSE----ITN----VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAE  311 (331)
Q Consensus       240 ~~~A~~~~~~~~~~----~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  311 (331)
                      -+.|..++..+...    .+.    ..++......-.+.|+-++|..+++++.+.+|++..+...++.+|++. +.+.|.
T Consensus       433 ~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~~~l~~lV~a~~~~-d~eka~  511 (652)
T KOG2376|consen  433 NDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPNDTDLLVQLVTAYARL-DPEKAE  511 (652)
T ss_pred             CccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCchHHHHHHHHHHHHhc-CHHHHH
Confidence            66666655555443    122    233333444445679999999999999998888888888888888765 445555


Q ss_pred             HHHH
Q 048799          312 RLRR  315 (331)
Q Consensus       312 ~~~~  315 (331)
                      .+-+
T Consensus       512 ~l~k  515 (652)
T KOG2376|consen  512 SLSK  515 (652)
T ss_pred             HHhh
Confidence            5443

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

Probab=99.07  E-value=2.1e-08  Score=75.65  Aligned_cols=154  Identities=10%  Similarity=0.079  Sum_probs=104.1

Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHH
Q 048799          127 IDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEE  206 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  206 (331)
                      +-.|...|+++......+.+..  |.        ..+...++.++++..+++....+ +.+...|..+...|...|++++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~--~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~   91 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD--PL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDN   91 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC--cc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            3457778887776555433311  11        01223566677777777766543 3566777778888888888888


Q ss_pred             HHHHHHHHHHhcCCCCcHhhHHHHHHHH-HhcCC--HHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHH
Q 048799          207 GLKFFDKMVEECEVLPDIKHYGCLIDML-GRAGR--LEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRK  282 (331)
Q Consensus       207 a~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (331)
                      |...|++..+.  .+.+...+..+..++ ...|+  .++|.++++++....| +...+..+...+...|++++|+..|++
T Consensus        92 A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370         92 ALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888887764  233667777777754 56666  4888888888877734 567777777888888888888888888


Q ss_pred             HHHhhcCCCcc
Q 048799          283 ILEMERGYGGD  293 (331)
Q Consensus       283 ~~~~~~~~~~~  293 (331)
                      +.+..|.+..-
T Consensus       170 aL~l~~~~~~r  180 (198)
T PRK10370        170 VLDLNSPRVNR  180 (198)
T ss_pred             HHhhCCCCccH
Confidence            88877665433

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

Probab=99.06  E-value=1.5e-07  Score=86.05  Aligned_cols=231  Identities=11%  Similarity=0.107  Sum_probs=180.6

Q ss_pred             CchHHHHHHHHHHhhcCchhHHHHHHhhhhhcC-CCc--chhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHH
Q 048799           82 PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRG-FNA--FHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTS  158 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  158 (331)
                      -+...|..-|......++.++|.++.++++..= +..  .-..+|.++++.-..-|.-+...++|+++.+....-..|..
T Consensus      1456 NSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~ 1535 (1710)
T KOG1070|consen 1456 NSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLK 1535 (1710)
T ss_pred             CcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHH
Confidence            445678888888889999999999999887631 111  03467888888888888888999999999766555667889


Q ss_pred             HHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC--cHhhHHHHHHHHHh
Q 048799          159 IISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP--DIKHYGCLIDMLGR  236 (331)
Q Consensus       159 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~  236 (331)
                      |...|.+.+.+++|.++|+.|.+. ..-....|...+..+.++++-+.|..++.++.+.  ++.  ........++.-.+
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhh
Confidence            999999999999999999999875 3356778888999999999999999999998874  333  56677778888889


Q ss_pred             cCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhh--cCCCc-cHHHHHHHHhhhccCcchHH
Q 048799          237 AGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEME--RGYGG-DYVLMYNILAGVWRYGDAER  312 (331)
Q Consensus       237 ~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~-~~~~l~~~~~~~g~~~~a~~  312 (331)
                      .|+.+.+..+|+..... +.....|+.++..-.++|+.+.+..+|+++..+.  |.... .|...+..-.+.|+-+.++.
T Consensus      1613 ~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~ 1692 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEY 1692 (1710)
T ss_pred             cCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHH
Confidence            99999999999998877 4467899999999999999999999999999843  43333 34444544455566555544


Q ss_pred             HHH
Q 048799          313 LRR  315 (331)
Q Consensus       313 ~~~  315 (331)
                      +=.
T Consensus      1693 VKa 1695 (1710)
T KOG1070|consen 1693 VKA 1695 (1710)
T ss_pred             HHH
Confidence            433

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

Probab=99.05  E-value=4.7e-08  Score=73.79  Aligned_cols=162  Identities=15%  Similarity=0.084  Sum_probs=110.4

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC-CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVER-KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                      +..+ ..+...+...|+-+.+..+........ .+....+..+....+.|++..|+..|++.... -++|..+|+.+.-+
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaa  143 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAA  143 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHH
Confidence            4445 556667777777777777766654333 35555666777777777888888777777543 35667777777777


Q ss_pred             HhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHH
Q 048799          198 CSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMG  276 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a  276 (331)
                      |.+.|+++.|..-|.+..+-  .+-+....+.+.-.|.-.|+.+.|..++.......+ +..+-..+..+....|+++.|
T Consensus       144 ldq~Gr~~~Ar~ay~qAl~L--~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A  221 (257)
T COG5010         144 LDQLGRFDEARRAYRQALEL--APNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREA  221 (257)
T ss_pred             HHHccChhHHHHHHHHHHHh--ccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHH
Confidence            77778888887777777753  222556667777777777778887777777766633 566667777777777777777


Q ss_pred             HHHHHHHH
Q 048799          277 ERVTRKIL  284 (331)
Q Consensus       277 ~~~~~~~~  284 (331)
                      ..+...-.
T Consensus       222 ~~i~~~e~  229 (257)
T COG5010         222 EDIAVQEL  229 (257)
T ss_pred             Hhhccccc
Confidence            77665433

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

Probab=99.03  E-value=4.9e-07  Score=81.59  Aligned_cols=237  Identities=11%  Similarity=-0.025  Sum_probs=154.9

Q ss_pred             CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CCCc-hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHH
Q 048799           14 ERNLVTWNVMITGLVKWGELEYARSLFEEMP--CRNV-VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAV   90 (331)
Q Consensus        14 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l   90 (331)
                      +.+...+..|+..+...+++++|.++.+...  .|+. ..|..+...+.+.++...+..+  .+                
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~----------------   89 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL--NL----------------   89 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh--hh----------------
Confidence            3467788899999999999999999988665  2433 3444555567777776655554  22                


Q ss_pred             HHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCCh
Q 048799           91 FPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMG  169 (331)
Q Consensus        91 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~  169 (331)
                      +.......++.-...++..+...+.   +..++..++.+|-+.|+.++|..+|+++.+..| ++.+.|.+...|... +.
T Consensus        90 l~~~~~~~~~~~ve~~~~~i~~~~~---~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL  165 (906)
T PRK14720         90 IDSFSQNLKWAIVEHICDKILLYGE---NKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DK  165 (906)
T ss_pred             hhhcccccchhHHHHHHHHHHhhhh---hhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hH
Confidence            2222233344334444445554432   455777888999999999999999999987765 678888888888888 89


Q ss_pred             HHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhh
Q 048799          170 KEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASG  249 (331)
Q Consensus       170 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  249 (331)
                      ++|++++.+....               +...+++.++.+++.++...  .+-+...+..+.+.....-.       +. 
T Consensus       166 ~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~--~~~d~d~f~~i~~ki~~~~~-------~~-  220 (906)
T PRK14720        166 EKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHY--NSDDFDFFLRIERKVLGHRE-------FT-  220 (906)
T ss_pred             HHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhc--CcccchHHHHHHHHHHhhhc-------cc-
Confidence            9999988887663               44556777777888777753  22233333333322211100       11 


Q ss_pred             cccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHh
Q 048799          250 IPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILA  302 (331)
Q Consensus       250 ~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  302 (331)
                           .-..++..+-..|...++++++..+++.+++.+|.+..+...++..|.
T Consensus       221 -----~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        221 -----RLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             -----hhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence                 123445555566677777778888888888777777677777777665

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

Probab=99.03  E-value=2.4e-08  Score=87.17  Aligned_cols=86  Identities=9%  Similarity=-0.015  Sum_probs=67.8

Q ss_pred             CCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhh-cCCCccHHHHHHHHhhhccCcchHHHHHH
Q 048799          238 GRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEME-RGYGGDYVLMYNILAGVWRYGDAERLRRV  316 (331)
Q Consensus       238 g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  316 (331)
                      ..+++-..+.....+ .|++.++..++.+-...|+.+.|..++.+|.+.. |-.++.|..|+.+   .+...-+..+++.
T Consensus       186 tpvekLl~~cksl~e-~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrg  261 (1088)
T KOG4318|consen  186 TPVEKLLNMCKSLVE-APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRG  261 (1088)
T ss_pred             chHHHHHHHHHHhhc-CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHH
Confidence            335555555555555 5899999999999999999999999999999854 6665555555555   7788888999999


Q ss_pred             HhhccccCCCC
Q 048799          317 VDERNALKFPG  327 (331)
Q Consensus       317 ~~~~~~~~~~~  327 (331)
                      |.+.|+.|.+.
T Consensus       262 mqe~gv~p~se  272 (1088)
T KOG4318|consen  262 MQEKGVQPGSE  272 (1088)
T ss_pred             HHHhcCCCCcc
Confidence            99999988764

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

Probab=99.03  E-value=4.8e-07  Score=76.73  Aligned_cols=129  Identities=16%  Similarity=0.141  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccC-----CCCchHHHHHHHHHH
Q 048799           20 WNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEY-----TEPSEITILAVFPAI   94 (331)
Q Consensus        20 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~l~~~~   94 (331)
                      |...+......|-++.+.++|++..+-++..-+..+..++..+++++|-+.+...+....     -+.+...|..+-...
T Consensus       141 W~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdli  220 (835)
T KOG2047|consen  141 WDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLI  220 (835)
T ss_pred             hHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHH
Confidence            333333344444444455555444444444445555555666666666666655521110     011222233222222


Q ss_pred             hhcCc---hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc
Q 048799           95 WQNGD---VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE  149 (331)
Q Consensus        95 ~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  149 (331)
                      ++..+   --....+++.++..-.+. -...|++|++-|.+.|++++|..+|++....
T Consensus       221 s~~p~~~~slnvdaiiR~gi~rftDq-~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~  277 (835)
T KOG2047|consen  221 SQNPDKVQSLNVDAIIRGGIRRFTDQ-LGFLWCSLADYYIRSGLFEKARDVYEEAIQT  277 (835)
T ss_pred             HhCcchhcccCHHHHHHhhcccCcHH-HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            22211   111222333333222221 2356677777777777777777777666443

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

Probab=99.00  E-value=1.5e-06  Score=73.80  Aligned_cols=289  Identities=12%  Similarity=0.072  Sum_probs=194.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHhhCCCCCc-------hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCC--------
Q 048799           18 VTWNVMITGLVKWGELEYARSLFEEMPCRNV-------VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEP--------   82 (331)
Q Consensus        18 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------   82 (331)
                      ..|..+.+.|-..|+++.|..+|++..+-+-       .+|-.....-.+..+++.|++++++... -+.+|        
T Consensus       388 ~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~-vP~~~~~~~yd~~  466 (835)
T KOG2047|consen  388 TLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATH-VPTNPELEYYDNS  466 (835)
T ss_pred             hHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhc-CCCchhhhhhcCC
Confidence            4578888999999999999999999875332       3455555556677889999999888722 11111        


Q ss_pred             ---------chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc--CC
Q 048799           83 ---------SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE--RK  151 (331)
Q Consensus        83 ---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~  151 (331)
                               +...|...+..--..|-++....+|+++++..+.  ++......+..+-...-++++.++|++-...  -|
T Consensus       467 ~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria--TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p  544 (835)
T KOG2047|consen  467 EPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA--TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWP  544 (835)
T ss_pred             CcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCc
Confidence                     1123444455555667888888999999998776  5555555666677777889999999987665  34


Q ss_pred             cH-HHHHHHHHHHHc---cCChHHHHHHHHHHHhccCCCCHHHHHHHHH--HHhccCChHHHHHHHHHHHHhcCCCCc--
Q 048799          152 NL-VSWTSIISGFAM---HGMGKEAVENFERMQKVVLKPNRVTFLSVLN--ACSHGGLVEEGLKFFDKMVEECEVLPD--  223 (331)
Q Consensus       152 ~~-~~~~~l~~~~~~---~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~--  223 (331)
                      ++ ..|+..+.-+.+   ....+.|..+|++.++ |++|...-+..|+-  .-.+-|....|+.+++++..  ++++.  
T Consensus       545 ~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~  621 (835)
T KOG2047|consen  545 NVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQR  621 (835)
T ss_pred             cHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHH
Confidence            43 467776665543   3478999999999987 67665433322322  22245888899999999876  55553  


Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHH---HHHHHHHhcCCchhHHHHHHHHHHHhh-cC-CCccHHHHH
Q 048799          224 IKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVW---RTLLGACSFHGNVEMGERVTRKILEME-RG-YGGDYVLMY  298 (331)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~-~~~~~~~l~  298 (331)
                      ..+|+..|.--...=-+.....+|+++++.-|+...-   -.+...-.+.|..+.|..+|....+.. |. +...|.+.=
T Consensus       622 l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk  701 (835)
T KOG2047|consen  622 LDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWK  701 (835)
T ss_pred             HHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHH
Confidence            4577777765444444555677777777765654433   333445678899999999999888854 43 334566666


Q ss_pred             HHHhhhccCcchHH
Q 048799          299 NILAGVWRYGDAER  312 (331)
Q Consensus       299 ~~~~~~g~~~~a~~  312 (331)
                      ..-.+.|+-+...+
T Consensus       702 ~FEvrHGnedT~ke  715 (835)
T KOG2047|consen  702 EFEVRHGNEDTYKE  715 (835)
T ss_pred             HHHHhcCCHHHHHH
Confidence            66677777444433

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

Probab=99.00  E-value=7.2e-07  Score=67.54  Aligned_cols=160  Identities=12%  Similarity=0.076  Sum_probs=129.8

Q ss_pred             HHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC-CcHHHHHHHHHHHHcc
Q 048799           88 LAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVER-KNLVSWTSIISGFAMH  166 (331)
Q Consensus        88 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~  166 (331)
                      ..+-..+...|+-+....+..........  +......++....+.|++..|...|+++.... +|..+|+.+..+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~--d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPK--DRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcc--cHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHc
Confidence            66677778888888888887775544332  66677778999999999999999999998774 5789999999999999


Q ss_pred             CChHHHHHHHHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHH
Q 048799          167 GMGKEAVENFERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEK  245 (331)
Q Consensus       167 ~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  245 (331)
                      |+.+.|..-|.+..+.  .| +...++.+.-.+.-.|+++.|..++......  -.-|..+-..+.......|++++|.+
T Consensus       148 Gr~~~Ar~ay~qAl~L--~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~--~~ad~~v~~NLAl~~~~~g~~~~A~~  223 (257)
T COG5010         148 GRFDEARRAYRQALEL--APNEPSIANNLGMSLLLRGDLEDAETLLLPAYLS--PAADSRVRQNLALVVGLQGDFREAED  223 (257)
T ss_pred             cChhHHHHHHHHHHHh--ccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhC--CCCchHHHHHHHHHHhhcCChHHHHh
Confidence            9999999999998874  34 4566788888888899999999999998764  23377788888888899999999999


Q ss_pred             HHhhcccC
Q 048799          246 VASGIPSE  253 (331)
Q Consensus       246 ~~~~~~~~  253 (331)
                      +...-...
T Consensus       224 i~~~e~~~  231 (257)
T COG5010         224 IAVQELLS  231 (257)
T ss_pred             hccccccc
Confidence            87765544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.00  E-value=1.7e-06  Score=68.37  Aligned_cols=52  Identities=8%  Similarity=-0.023  Sum_probs=36.0

Q ss_pred             HHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHH
Q 048799           23 MITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus        23 l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      +..++.+.|++++|...|..+.   .++...+-.|.-++.-.|.+.+|.++-.+.
T Consensus        63 ia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka  117 (557)
T KOG3785|consen   63 IAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKA  117 (557)
T ss_pred             HHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhC
Confidence            4566788899999998888765   245555666666666667777777665554

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.99  E-value=9.2e-09  Score=73.50  Aligned_cols=109  Identities=9%  Similarity=-0.106  Sum_probs=95.5

Q ss_pred             HHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHh
Q 048799          208 LKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEM  286 (331)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  286 (331)
                      +.++++..+.   .|+  .+..+...+...|++++|...|+.+... +.+...|..+..++...|++++|...|+++.+.
T Consensus        13 ~~~~~~al~~---~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         13 EDILKQLLSV---DPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHHc---CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            4566666643   454  3556788899999999999999999888 557899999999999999999999999999999


Q ss_pred             hcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          287 ERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       287 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      +|+++..+..++.++...|+.++|...++...+..
T Consensus        88 ~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359         88 DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999987754

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.99  E-value=4.2e-06  Score=70.47  Aligned_cols=97  Identities=10%  Similarity=-0.101  Sum_probs=66.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHh--------hcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHh----hcCC--
Q 048799          225 KHYGCLIDMLGRAGRLEQAEKVAS--------GIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEM----ERGY--  290 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~--------~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~--  290 (331)
                      .+.-.+++.....|+++.|.+++.        .+.+..-.+.+...++..+.+.++-+.|..++.++...    .+..  
T Consensus       377 ~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~  456 (652)
T KOG2376|consen  377 VVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIA  456 (652)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchH
Confidence            444566677788899999998888        33333334566666777788888888888888888762    1222  


Q ss_pred             -CccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          291 -GGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       291 -~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                       ...+..++..-.+.|+.++|..+++++.+.+
T Consensus       457 l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n  488 (652)
T KOG2376|consen  457 LLSLMREAAEFKLRHGNEEEASSLLEELVKFN  488 (652)
T ss_pred             HHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC
Confidence             1234444555566799999999999987743

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.98  E-value=3.5e-07  Score=72.17  Aligned_cols=130  Identities=10%  Similarity=0.077  Sum_probs=78.4

Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhH-HHHHHHHHh
Q 048799          158 SIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHY-GCLIDMLGR  236 (331)
Q Consensus       158 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~  236 (331)
                      .+.+.+.-..++++++..++.....=...|.+.| .+..+++..|++.+|+++|-++... .++ |..+| ..|.++|.+
T Consensus       364 smAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~-~ik-n~~~Y~s~LArCyi~  440 (557)
T KOG3785|consen  364 SMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGP-EIK-NKILYKSMLARCYIR  440 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcCh-hhh-hhHHHHHHHHHHHHh
Confidence            3444444455566666666655443222233333 3667777778888888888776532 333 44444 445677788


Q ss_pred             cCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          237 AGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       237 ~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      .++++-|..++-++............+.+-|.+.+++--|.+.|+.+..++|..
T Consensus       441 nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~p  494 (557)
T KOG3785|consen  441 NKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTP  494 (557)
T ss_pred             cCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCc
Confidence            888888877777665431122334444566777788877888888777776654

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

Probab=98.98  E-value=6e-07  Score=68.02  Aligned_cols=247  Identities=12%  Similarity=0.047  Sum_probs=128.8

Q ss_pred             HcCCHHHHHHHHhhCC-C-CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHH-
Q 048799           29 KWGELEYARSLFEEMP-C-RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQL-  105 (331)
Q Consensus        29 ~~g~~~~A~~~~~~~~-~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-  105 (331)
                      -.|++..++..-.... . .+...-..+.++|...|.+....+-...-    . .|....+..+.......++.+.-.. 
T Consensus        20 Y~Gnyq~~ine~~~~~~~~~~~e~d~y~~raylAlg~~~~~~~eI~~~----~-~~~lqAvr~~a~~~~~e~~~~~~~~~   94 (299)
T KOG3081|consen   20 YLGNYQQCINEAEKFSSSKTDVELDVYMYRAYLALGQYQIVISEIKEG----K-ATPLQAVRLLAEYLELESNKKSILAS   94 (299)
T ss_pred             HhhHHHHHHHHHHhhccccchhHHHHHHHHHHHHcccccccccccccc----c-CChHHHHHHHHHHhhCcchhHHHHHH
Confidence            3466666555444332 2 23333444556666666665544333221    1 2333344444444433444333333 


Q ss_pred             HHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCC
Q 048799          106 IHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLK  185 (331)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  185 (331)
                      +.+.+....... +......-+..|++.|++++|++.....    .+......=+..+.+..+.+-|.+.+++|.+-   
T Consensus        95 l~E~~a~~~~~s-n~i~~l~aa~i~~~~~~~deAl~~~~~~----~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---  166 (299)
T KOG3081|consen   95 LYELVADSTDGS-NLIDLLLAAIIYMHDGDFDEALKALHLG----ENLEAAALNVQILLKMHRFDLAEKELKKMQQI---  166 (299)
T ss_pred             HHHHHHhhccch-hHHHHHHhhHHhhcCCChHHHHHHHhcc----chHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---
Confidence            333333333322 3233333445667777777777776652    22233333334455566677777777777652   


Q ss_pred             CCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHH
Q 048799          186 PNRVTFLSVLNACSH----GGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVW  260 (331)
Q Consensus       186 p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~  260 (331)
                      .+..|.+.|..++.+    .+.+.+|.-+|++|.+  ..+|+..+.+...-++...|++++|..+++.+..+ ..++.+.
T Consensus       167 ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL  244 (299)
T KOG3081|consen  167 DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETL  244 (299)
T ss_pred             chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHH
Confidence            344555555554442    3456777777777764  35667777777777777777777777777777666 3445555


Q ss_pred             HHHHHHHhcCCch-hHHHHHHHHHHHhhcCC
Q 048799          261 RTLLGACSFHGNV-EMGERVTRKILEMERGY  290 (331)
Q Consensus       261 ~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~~  290 (331)
                      ..++-+-...|.. +-..+.+.++....|.+
T Consensus       245 ~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h  275 (299)
T KOG3081|consen  245 ANLIVLALHLGKDAEVTERNLSQLKLSHPEH  275 (299)
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHhcCCcc
Confidence            5554444444443 33445555555555554

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

Probab=98.98  E-value=1.2e-07  Score=81.37  Aligned_cols=186  Identities=13%  Similarity=0.098  Sum_probs=156.4

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNAC  198 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  198 (331)
                      -...-..+...+...|-...|..+|++.       ..|.-+|.+|+..|+..+|..+..+..+  -+|++..|..+.+..
T Consensus       397 ~Wq~q~~laell~slGitksAl~I~Erl-------emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~  467 (777)
T KOG1128|consen  397 IWQLQRLLAELLLSLGITKSALVIFERL-------EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVL  467 (777)
T ss_pred             cchHHHHHHHHHHHcchHHHHHHHHHhH-------HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhc
Confidence            4455567888999999999999999986       5688888999999999999999988777  568999999888887


Q ss_pred             hccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHH
Q 048799          199 SHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGE  277 (331)
Q Consensus       199 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~  277 (331)
                      ....-+++|.++.+....+        .-..+.....+.++++++.+.|+.-.+. +....+|-.+..+..+.++++.|.
T Consensus       468 ~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  468 HDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             cChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHH
Confidence            7777788888888765432        2222223334579999999999987777 446789999999999999999999


Q ss_pred             HHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          278 RVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       278 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      +.|.....++|++...|+++..+|.+.|+..+|...+++..+.+
T Consensus       540 ~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  540 KAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            99999999999999999999999999999999999999988766

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

Probab=98.98  E-value=8.3e-08  Score=72.43  Aligned_cols=117  Identities=9%  Similarity=0.027  Sum_probs=58.8

Q ss_pred             cCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHH-HhcCC--Hh
Q 048799           61 MNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTY-AKCGC--IF  137 (331)
Q Consensus        61 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~  137 (331)
                      .++.+++...++..+..+  +.|...|..+...+...|+++.|...|+++.+..+.  +..++..+..++ ...|+  .+
T Consensus        52 ~~~~~~~i~~l~~~L~~~--P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~--~~~~~~~lA~aL~~~~g~~~~~  127 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE--NAELYAALATVLYYQAGQHMTP  127 (198)
T ss_pred             chhHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHhcCCCCcH
Confidence            344444554454442221  244445555555555555555555555555555433  444555555442 34444  35


Q ss_pred             HHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          138 SALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       138 ~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      +|.+++++.....| +..++..+...+.+.|++++|+..++++.+
T Consensus       128 ~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~  172 (198)
T PRK10370        128 QTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLD  172 (198)
T ss_pred             HHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            55555555555444 344555555555555555555555555544

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

Probab=98.98  E-value=1.3e-06  Score=66.20  Aligned_cols=246  Identities=10%  Similarity=0.005  Sum_probs=163.4

Q ss_pred             HHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCC
Q 048799           56 DGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGC  135 (331)
Q Consensus        56 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  135 (331)
                      +-+.-.|.+..++..-... .  +.+.+...-.-+.++|...|++.....-..   ... .+ .......+......-++
T Consensus        16 Rn~fY~Gnyq~~ine~~~~-~--~~~~~~e~d~y~~raylAlg~~~~~~~eI~---~~~-~~-~lqAvr~~a~~~~~e~~   87 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKF-S--SSKTDVELDVYMYRAYLALGQYQIVISEIK---EGK-AT-PLQAVRLLAEYLELESN   87 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhh-c--cccchhHHHHHHHHHHHHcccccccccccc---ccc-CC-hHHHHHHHHHHhhCcch
Confidence            4455567787777666554 2  222444455556777877777655443322   222 33 44444444444444555


Q ss_pred             HhHHHH-HHHHhhhcCC--cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHH
Q 048799          136 IFSALK-LFEDISVERK--NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFD  212 (331)
Q Consensus       136 ~~~A~~-~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  212 (331)
                      .++-+. +.+.+.....  +......-...|+..+++++|++......      +......=+..+.+..+++-|.+.++
T Consensus        88 ~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk  161 (299)
T KOG3081|consen   88 KKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELK  161 (299)
T ss_pred             hHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            554443 3444433322  22333333456889999999999987622      22222223344567788999999999


Q ss_pred             HHHHhcCCCCcHhhHHHHHHHHHh----cCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhh
Q 048799          213 KMVEECEVLPDIKHYGCLIDMLGR----AGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEME  287 (331)
Q Consensus       213 ~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  287 (331)
                      +|.+-    .+..+.+.|.+++.+    .+.+.+|.-+|+++.++ .|++.+.+....++...|++++|..+++.++..+
T Consensus       162 ~mq~i----ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  162 KMQQI----DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD  237 (299)
T ss_pred             HHHcc----chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            99763    356677777777654    46789999999999997 8899999999999999999999999999999999


Q ss_pred             cCCCccHHHHHHHHhhhccCcchH-HHHHHHhh
Q 048799          288 RGYGGDYVLMYNILAGVWRYGDAE-RLRRVVDE  319 (331)
Q Consensus       288 ~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~~~~  319 (331)
                      ++++.+...++..-...|...++. +.+.+.+.
T Consensus       238 ~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  238 AKDPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            999888888888888888775543 44444433

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

Probab=98.97  E-value=4.6e-07  Score=80.65  Aligned_cols=238  Identities=13%  Similarity=0.075  Sum_probs=165.2

Q ss_pred             CCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhh
Q 048799           31 GELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYG  110 (331)
Q Consensus        31 g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  110 (331)
                      +++|+|.+.-++..  .+..|..+..+-.+.|.+.+|++-|-+.       .|+..|..++....+.|.+++-..++..+
T Consensus      1089 ~~ldRA~efAe~~n--~p~vWsqlakAQL~~~~v~dAieSyika-------dDps~y~eVi~~a~~~~~~edLv~yL~Ma 1159 (1666)
T KOG0985|consen 1089 GSLDRAYEFAERCN--EPAVWSQLAKAQLQGGLVKDAIESYIKA-------DDPSNYLEVIDVASRTGKYEDLVKYLLMA 1159 (1666)
T ss_pred             hhHHHHHHHHHhhC--ChHHHHHHHHHHHhcCchHHHHHHHHhc-------CCcHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            44444444444443  3456899999999999999999888665       56778999999999999999999999888


Q ss_pred             hhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHH
Q 048799          111 EKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVT  190 (331)
Q Consensus       111 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  190 (331)
                      .+...+| ..  =+.|+-+|++.+++.+.+++..     .|+......+..-|...|.++.|.-+|....         -
T Consensus      1160 Rkk~~E~-~i--d~eLi~AyAkt~rl~elE~fi~-----gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vS---------N 1222 (1666)
T KOG0985|consen 1160 RKKVREP-YI--DSELIFAYAKTNRLTELEEFIA-----GPNVANIQQVGDRCFEEKMYEAAKLLYSNVS---------N 1222 (1666)
T ss_pred             HHhhcCc-cc--hHHHHHHHHHhchHHHHHHHhc-----CCCchhHHHHhHHHhhhhhhHHHHHHHHHhh---------h
Confidence            8876665 33  3578889999999888776653     6777777778888888888888877775432         3


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcC
Q 048799          191 FLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFH  270 (331)
Q Consensus       191 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~  270 (331)
                      |..|...+...|++..|.+.-+++       .+..+|..+-.+|...+.+.-|.-.=-.+.   ....-..-++.-|-..
T Consensus      1223 ~a~La~TLV~LgeyQ~AVD~aRKA-------ns~ktWK~VcfaCvd~~EFrlAQiCGL~ii---vhadeLeeli~~Yq~r 1292 (1666)
T KOG0985|consen 1223 FAKLASTLVYLGEYQGAVDAARKA-------NSTKTWKEVCFACVDKEEFRLAQICGLNII---VHADELEELIEYYQDR 1292 (1666)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhc-------cchhHHHHHHHHHhchhhhhHHHhcCceEE---EehHhHHHHHHHHHhc
Confidence            666666677777777776544333       255677777666766666555433211111   2344455667777777


Q ss_pred             CchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhh
Q 048799          271 GNVEMGERVTRKILEMERGYGGDYVLMYNILAGV  304 (331)
Q Consensus       271 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  304 (331)
                      |.+++.+.+++..+.+...+...|..|+..|.+.
T Consensus      1293 GyFeElIsl~Ea~LGLERAHMgmfTELaiLYsky 1326 (1666)
T KOG0985|consen 1293 GYFEELISLLEAGLGLERAHMGMFTELAILYSKY 1326 (1666)
T ss_pred             CcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhc
Confidence            7777777777777766666656666666666654

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

Probab=98.97  E-value=4.7e-07  Score=76.74  Aligned_cols=298  Identities=12%  Similarity=0.027  Sum_probs=174.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhCCCC---CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHh
Q 048799           19 TWNVMITGLVKWGELEYARSLFEEMPCR---NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIW   95 (331)
Q Consensus        19 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~   95 (331)
                      .|..++..| ..+++...+.+.+.+.+.   ...+.....-.+...|+-++|....+..++ + -.-+.+.|..+.-.+.
T Consensus        10 lF~~~lk~y-E~kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr-~-d~~S~vCwHv~gl~~R   86 (700)
T KOG1156|consen   10 LFRRALKCY-ETKQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLR-N-DLKSHVCWHVLGLLQR   86 (700)
T ss_pred             HHHHHHHHH-HHHHHHhHHHHHHHHHHhCCccchhHHhccchhhcccchHHHHHHHHHHhc-c-CcccchhHHHHHHHHh
Confidence            344444444 456666666665555432   223444444456677888888887776632 2 2355667777777777


Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHH
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVE  174 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~  174 (331)
                      ..+++++|+..|..+...+.+  |...+.-+.-.-.+.|+++.....-.+..+..| ....|..++.++.-.|++..|..
T Consensus        87 ~dK~Y~eaiKcy~nAl~~~~d--N~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~  164 (700)
T KOG1156|consen   87 SDKKYDEAIKCYRNALKIEKD--NLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALE  164 (700)
T ss_pred             hhhhHHHHHHHHHHHHhcCCC--cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            777888888888888777554  777777777777777787777777766666655 35567777777777888888888


Q ss_pred             HHHHHHhcc-CCCCHHHHHHHHH------HHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHH
Q 048799          175 NFERMQKVV-LKPNRVTFLSVLN------ACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVA  247 (331)
Q Consensus       175 ~~~~m~~~~-~~p~~~~~~~l~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  247 (331)
                      +++...+.. -.|+...|.....      ...+.|..+.|.+.+..-...  +......-..-...+.+.|++++|..++
T Consensus       165 il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y  242 (700)
T KOG1156|consen  165 ILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVY  242 (700)
T ss_pred             HHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHH
Confidence            887776653 3466655543332      233566667776666655432  2222223334455677788888888888


Q ss_pred             hhcccCCccHHHHHH-HHHHHhcCCchhHHH-HHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcccc
Q 048799          248 SGIPSEITNVVVWRT-LLGACSFHGNVEMGE-RVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNAL  323 (331)
Q Consensus       248 ~~~~~~~p~~~~~~~-l~~~~~~~g~~~~a~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  323 (331)
                      ..+....||..-|.. +..++.+..+.-++. .+|....+.-|........-...+....-.+....++..+.++|++
T Consensus       243 ~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p  320 (700)
T KOG1156|consen  243 RRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVP  320 (700)
T ss_pred             HHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCC
Confidence            887777565544443 344443222323333 5555555444443222222222222222333344555556666654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.95  E-value=8e-08  Score=85.04  Aligned_cols=161  Identities=12%  Similarity=0.039  Sum_probs=108.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHH
Q 048799           18 VTWNVMITGLVKWGELEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAI   94 (331)
Q Consensus        18 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~   94 (331)
                      ..|..|...|+...+..+|...|+..-+   .+...+..+...|+...+++.|..+.-..-+......-...|..+.-.+
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccc
Confidence            5688888888888888888888888764   3455677888888999999888887443311111111122333344456


Q ss_pred             hhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHH-HHHHHHHHHHccCChHHHH
Q 048799           95 WQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLV-SWTSIISGFAMHGMGKEAV  173 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~  173 (331)
                      ...++..+|..-|+-.....+.  |...|..++.+|.++|++..|.++|.++...+|+.. .-.-....-+..|.+++++
T Consensus       573 Lea~n~h~aV~~fQsALR~dPk--D~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeal  650 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALRTDPK--DYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEAL  650 (1238)
T ss_pred             cCccchhhHHHHHHHHhcCCch--hHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHH
Confidence            6778888888888877776443  888888888888888888888888888876666432 2112222345567777777


Q ss_pred             HHHHHHH
Q 048799          174 ENFERMQ  180 (331)
Q Consensus       174 ~~~~~m~  180 (331)
                      ..+....
T Consensus       651 d~l~~ii  657 (1238)
T KOG1127|consen  651 DALGLII  657 (1238)
T ss_pred             HHHHHHH
Confidence            7666554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.94  E-value=4.1e-06  Score=79.12  Aligned_cols=294  Identities=14%  Similarity=0.050  Sum_probs=184.7

Q ss_pred             HHHHcCCHHHHHHHHhhCCC----CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCC-----CCch--HHHHHHHHHH
Q 048799           26 GLVKWGELEYARSLFEEMPC----RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYT-----EPSE--ITILAVFPAI   94 (331)
Q Consensus        26 ~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~--~~~~~l~~~~   94 (331)
                      .....|+++.+..+++.++.    .+..........+...|+++++...+.........     .+..  .....+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            44556788887777777641    22333344455567789999999988876322111     1111  1222233455


Q ss_pred             hhcCchhHHHHHHhhhhhcCCCcch----hHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-----CCc--HHHHHHHHHHH
Q 048799           95 WQNGDVRNCQLIHGYGEKRGFNAFH----IHVSNCLIDTYAKCGCIFSALKLFEDISVE-----RKN--LVSWTSIISGF  163 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~--~~~~~~l~~~~  163 (331)
                      ...|++++|...+++..+..... +    ....+.+...+...|++++|...+++....     .+.  ..++..+...+
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~-~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~  541 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLT-WYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEIL  541 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHH
Confidence            67899999999999877642221 2    134456677788899999999999887643     111  23455666778


Q ss_pred             HccCChHHHHHHHHHHHhc----cCC--C-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcC-CCC--cHhhHHHHHHH
Q 048799          164 AMHGMGKEAVENFERMQKV----VLK--P-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECE-VLP--DIKHYGCLIDM  233 (331)
Q Consensus       164 ~~~~~~~~a~~~~~~m~~~----~~~--p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~--~~~~~~~l~~~  233 (331)
                      ...|++++|...+++....    +..  + ....+..+...+...|++++|...+.+...... ..+  ....+..+...
T Consensus       542 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  621 (903)
T PRK04841        542 FAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKI  621 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHH
Confidence            8899999999998876552    211  1 223344555667778999999999888765311 112  23344556667


Q ss_pred             HHhcCCHHHHHHHHhhcccC---CccHHHH-----HHHHHHHhcCCchhHHHHHHHHHHHhhcCCCcc----HHHHHHHH
Q 048799          234 LGRAGRLEQAEKVASGIPSE---ITNVVVW-----RTLLGACSFHGNVEMGERVTRKILEMERGYGGD----YVLMYNIL  301 (331)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~---~p~~~~~-----~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~l~~~~  301 (331)
                      +...|+.++|.+.+..+...   ......+     ...+..+...|+.+.|...+.......+.....    ...++.++
T Consensus       622 ~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~  701 (903)
T PRK04841        622 SLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQ  701 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHH
Confidence            88899999999888877432   1111111     111233455788888888877655422221111    34677788


Q ss_pred             hhhccCcchHHHHHHHhhc
Q 048799          302 AGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       302 ~~~g~~~~a~~~~~~~~~~  320 (331)
                      ...|++++|...+++....
T Consensus       702 ~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        702 ILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            8999999999999887654

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.93  E-value=3.2e-07  Score=81.77  Aligned_cols=134  Identities=10%  Similarity=0.053  Sum_probs=106.5

Q ss_pred             CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHH
Q 048799          151 KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNR-VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGC  229 (331)
Q Consensus       151 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  229 (331)
                      .++..+..|.....+.|++++|..+++...+  ..|+. .....+...+.+.+++++|...+++....  -+-+......
T Consensus        84 ~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~  159 (694)
T PRK15179         84 HTELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILL  159 (694)
T ss_pred             ccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHH
Confidence            3577888888888888999999999988887  45654 45666777888889999999888888863  2335667777


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhc
Q 048799          230 LIDMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGACSFHGNVEMGERVTRKILEMER  288 (331)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  288 (331)
                      +..++.+.|++++|..+|+++....|+ ..++..+..++...|+.++|...|+++.+...
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~  219 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIG  219 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhC
Confidence            788888899999999999988866444 68888888888888999999999999887543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.89  E-value=6.2e-06  Score=71.59  Aligned_cols=255  Identities=13%  Similarity=0.044  Sum_probs=166.7

Q ss_pred             HHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhh
Q 048799           33 LEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGY  109 (331)
Q Consensus        33 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  109 (331)
                      ..++++.+++..+   .|..+...+.--|+..++.+.|.+..++...- +...+...|..+..++...+++.+|+.+.+.
T Consensus       460 h~kslqale~av~~d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l-~~~~~~~~whLLALvlSa~kr~~~Al~vvd~  538 (799)
T KOG4162|consen  460 HKKSLQALEEAVQFDPTDPLVIFYLALQYAEQRQLTSALDYAREALAL-NRGDSAKAWHLLALVLSAQKRLKEALDVVDA  538 (799)
T ss_pred             HHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHh-cCCccHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            4456666666642   23333333444467777888888888877443 2346677777777777888888888887776


Q ss_pred             hhhcCCC-c-----------------chhHHHHHHHHHHHh-----------------------cCCHhHHHHHHHHhhh
Q 048799          110 GEKRGFN-A-----------------FHIHVSNCLIDTYAK-----------------------CGCIFSALKLFEDISV  148 (331)
Q Consensus       110 ~~~~~~~-~-----------------~~~~~~~~l~~~~~~-----------------------~g~~~~A~~~~~~~~~  148 (331)
                      ....-.. .                 ....++..++..+-.                       .++..+|.+....+..
T Consensus       539 al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~  618 (799)
T KOG4162|consen  539 ALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSS  618 (799)
T ss_pred             HHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHH
Confidence            5543211 0                 011122222222210                       0011111111111100


Q ss_pred             -----------------c----CCc------HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhcc
Q 048799          149 -----------------E----RKN------LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHG  201 (331)
Q Consensus       149 -----------------~----~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  201 (331)
                                       .    .|+      ...|......+.+.+..++|...+.+.... .+.....|......+...
T Consensus       619 l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~  697 (799)
T KOG4162|consen  619 LVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVK  697 (799)
T ss_pred             HHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHH
Confidence                             0    111      122445566777888888888777776553 234556677777778889


Q ss_pred             CChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHH--HHhhcccC-CccHHHHHHHHHHHhcCCchhHHH
Q 048799          202 GLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEK--VASGIPSE-ITNVVVWRTLLGACSFHGNVEMGE  277 (331)
Q Consensus       202 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~  277 (331)
                      |..++|.+.|.....   +.| ++....++..++.+.|+..-|..  ++..+.+. +.+...|..+...+.+.|+.+.|.
T Consensus       698 ~~~~EA~~af~~Al~---ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aa  774 (799)
T KOG4162|consen  698 GQLEEAKEAFLVALA---LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAA  774 (799)
T ss_pred             HhhHHHHHHHHHHHh---cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHH
Confidence            999999999998874   455 67788999999999999888888  99988887 557899999999999999999999


Q ss_pred             HHHHHHHHhhcCCCc
Q 048799          278 RVTRKILEMERGYGG  292 (331)
Q Consensus       278 ~~~~~~~~~~~~~~~  292 (331)
                      +.|..+.++.+.+|.
T Consensus       775 ecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  775 ECFQAALQLEESNPV  789 (799)
T ss_pred             HHHHHHHhhccCCCc
Confidence            999999998776653

>PF12854 PPR_1: PPR repeat

Probab=98.88  E-value=2.6e-09  Score=54.94  Aligned_cols=32  Identities=31%  Similarity=0.508  Sum_probs=16.2

Q ss_pred             CCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhc
Q 048799          219 EVLPDIKHYGCLIDMLGRAGRLEQAEKVASGI  250 (331)
Q Consensus       219 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (331)
                      |+.||..+|+.||.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            44455555555555555555555555555444

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

Probab=98.86  E-value=2.7e-05  Score=65.14  Aligned_cols=118  Identities=14%  Similarity=0.073  Sum_probs=90.2

Q ss_pred             hHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC--Cc-cHHHHHHHHHHHhcCCchhHHHHHH
Q 048799          204 VEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE--IT-NVVVWRTLLGACSFHGNVEMGERVT  280 (331)
Q Consensus       204 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p-~~~~~~~l~~~~~~~g~~~~a~~~~  280 (331)
                      .+....+++++.......|+ -+|..++..-.+..-++.|..+|.++.+.  .+ ++.++.+++.-++. ++.+-|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHH
Confidence            45555666666655344443 35666777777888899999999999887  33 56677777776654 6889999999


Q ss_pred             HHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcccc
Q 048799          281 RKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNAL  323 (331)
Q Consensus       281 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  323 (331)
                      +..++..++.+..-...+..+...++-..+..+|++..+.++.
T Consensus       425 eLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~  467 (656)
T KOG1914|consen  425 ELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLS  467 (656)
T ss_pred             HHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCC
Confidence            9999988888777777888899999999999999999887544

>PF12854 PPR_1: PPR repeat

Probab=98.85  E-value=6.5e-09  Score=53.46  Aligned_cols=34  Identities=26%  Similarity=0.540  Sum_probs=30.7

Q ss_pred             ccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 048799          182 VVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMV  215 (331)
Q Consensus       182 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  215 (331)
                      .|+.||..||++||.+||+.|++++|.++|++|.
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4788999999999999999999999999999873

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.84  E-value=2e-06  Score=75.22  Aligned_cols=206  Identities=14%  Similarity=0.076  Sum_probs=96.1

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCCC------------CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMPC------------RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS   83 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   83 (331)
                      +...|..+...|.+..++|-|.-.+..|..            .+..+-.-..-.....|..++|..+|++. ++      
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLAieLgMlEeA~~lYr~c-kR------  828 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLAIELGMLEEALILYRQC-KR------  828 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHHHHHhhHHHHHHHHHHH-HH------
Confidence            334566666666666666655555555541            01011111222233455566666666555 21      


Q ss_pred             hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc--------------
Q 048799           84 EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE--------------  149 (331)
Q Consensus        84 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------------  149 (331)
                         |..+-..|-..|.|++|.++-+.--...    -..+|......+-..++.+.|++.|++....              
T Consensus       829 ---~DLlNKlyQs~g~w~eA~eiAE~~DRiH----Lr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~  901 (1416)
T KOG3617|consen  829 ---YDLLNKLYQSQGMWSEAFEIAETKDRIH----LRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQ  901 (1416)
T ss_pred             ---HHHHHHHHHhcccHHHHHHHHhhcccee----hhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHH
Confidence               1223334445566666665543211111    1234444555555566666666666543110              


Q ss_pred             -------CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC
Q 048799          150 -------RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP  222 (331)
Q Consensus       150 -------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  222 (331)
                             ..+...|.-....+-..|+.+.|+.+|....+         |..+++..|-+|+.++|-++-++-       -
T Consensus       902 ~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es-------g  965 (1416)
T KOG3617|consen  902 IEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES-------G  965 (1416)
T ss_pred             HHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc-------c
Confidence                   11112222223333344555555555544432         334444455555555554443322       1


Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcc
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIP  251 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  251 (331)
                      |......|.+.|-..|++.+|..+|.++.
T Consensus       966 d~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  966 DKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             cHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            33444456666666677777766666554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.83  E-value=3.3e-06  Score=63.65  Aligned_cols=165  Identities=15%  Similarity=0.094  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHH-HHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhc
Q 048799          122 VSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSW-TSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSH  200 (331)
Q Consensus       122 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  200 (331)
                      ++..++-+....|+.+-|...++++...-|.+.-. ..-.-.+-..|++++|+++|+.+.+.. +.|..++..=+...-.
T Consensus        54 l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka  132 (289)
T KOG3060|consen   54 LYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKA  132 (289)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHH
Confidence            33444445555666666666666655443322111 111112333566666666666666544 2334444444444444


Q ss_pred             cCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhc---CCchhHH
Q 048799          201 GGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSF---HGNVEMG  276 (331)
Q Consensus       201 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~---~g~~~~a  276 (331)
                      .|+.-+|++-+....+  .+..|...|.-+...|...|++++|.-.++++.-..| ++..+..+...+.-   ..+.+.+
T Consensus       133 ~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~a  210 (289)
T KOG3060|consen  133 QGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELA  210 (289)
T ss_pred             cCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHH
Confidence            5555566666666655  3445666666666666666666666666666665533 34444455444332   2345566


Q ss_pred             HHHHHHHHHhhcC
Q 048799          277 ERVTRKILEMERG  289 (331)
Q Consensus       277 ~~~~~~~~~~~~~  289 (331)
                      .++|.++++++|.
T Consensus       211 rkyy~~alkl~~~  223 (289)
T KOG3060|consen  211 RKYYERALKLNPK  223 (289)
T ss_pred             HHHHHHHHHhChH
Confidence            6666666666663

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.83  E-value=1.5e-06  Score=77.54  Aligned_cols=129  Identities=11%  Similarity=0.053  Sum_probs=67.6

Q ss_pred             chhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc-hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHH
Q 048799           48 VVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS-EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL  126 (331)
Q Consensus        48 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  126 (331)
                      +..+..|.....+.|.+++|..+++....   ..|+ ......+..++.+.+++++|...+++.....+.  +......+
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~--~~~~~~~~  160 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS--SAREILLE  160 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC--CHHHHHHH
Confidence            44455555555555555555555555522   2222 334444555555555555555555555555433  44555555


Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          127 IDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      ..++.+.|++++|..+|+++....|+ ..++..+..++...|+.++|...|++..+
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555555544332 44555555555555555555555555544

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

Probab=98.82  E-value=5e-06  Score=68.56  Aligned_cols=145  Identities=16%  Similarity=0.125  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCC-HHHHHHHHHHHh
Q 048799          122 VSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN-RVTFLSVLNACS  199 (331)
Q Consensus       122 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~  199 (331)
                      ........+...|++++|+..++.+....|+ +..+......+...++.++|.+.++++..  ..|+ ......+..++.
T Consensus       308 a~YG~A~~~~~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~--l~P~~~~l~~~~a~all  385 (484)
T COG4783         308 AQYGRALQTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALA--LDPNSPLLQLNLAQALL  385 (484)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh--cCCCccHHHHHHHHHHH
Confidence            3334455566677777777777777766664 44444555677777777777777777766  3455 344455666777


Q ss_pred             ccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHH
Q 048799          200 HGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERV  279 (331)
Q Consensus       200 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  279 (331)
                      +.|++.+|+.+++....  ..+-|+..|..|.++|...|+..++.....+...                ..|+++.|...
T Consensus       386 ~~g~~~eai~~L~~~~~--~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~----------------~~G~~~~A~~~  447 (484)
T COG4783         386 KGGKPQEAIRILNRYLF--NDPEDPNGWDLLAQAYAELGNRAEALLARAEGYA----------------LAGRLEQAIIF  447 (484)
T ss_pred             hcCChHHHHHHHHHHhh--cCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHH----------------hCCCHHHHHHH
Confidence            77777777777777665  3455677777777777777777777666555432                34666666666


Q ss_pred             HHHHHHh
Q 048799          280 TRKILEM  286 (331)
Q Consensus       280 ~~~~~~~  286 (331)
                      +..+.+.
T Consensus       448 l~~A~~~  454 (484)
T COG4783         448 LMRASQQ  454 (484)
T ss_pred             HHHHHHh
Confidence            6666663

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

Probab=98.81  E-value=4.6e-07  Score=81.76  Aligned_cols=207  Identities=8%  Similarity=-0.061  Sum_probs=140.5

Q ss_pred             CchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHH
Q 048799           82 PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIIS  161 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~  161 (331)
                      .+...+..|+..+...+++++|.++.+...+..+.  ....|..++..+...++.+.+..+               .++.
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~--~i~~yy~~G~l~~q~~~~~~~~lv---------------~~l~   91 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKK--SISALYISGILSLSRRPLNDSNLL---------------NLID   91 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCc--ceehHHHHHHHHHhhcchhhhhhh---------------hhhh
Confidence            34557777888888888888888888877766444  455555555566666665554444               2233


Q ss_pred             HHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHH
Q 048799          162 GFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLE  241 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  241 (331)
                      ......++.-+..+...|...  .-+...+..+..+|-+.|+.++|..+++++.+. . +-|+.+.|.+...|... +++
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~-D-~~n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKA-D-RDNPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             hcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhc-C-cccHHHHHHHHHHHHHh-hHH
Confidence            333344443333444444442  234457778888999999999999999999875 3 44788889999999888 999


Q ss_pred             HHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCcc--------------------HHHHHHHH
Q 048799          242 QAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGD--------------------YVLMYNIL  301 (331)
Q Consensus       242 ~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--------------------~~~l~~~~  301 (331)
                      +|.+++.++...             +...+++..+.++|.++.+.+|++...                    +..+-..|
T Consensus       167 KA~~m~~KAV~~-------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y  233 (906)
T PRK14720        167 KAITYLKKAIYR-------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPY  233 (906)
T ss_pred             HHHHHHHHHHHH-------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHH
Confidence            999988887643             445556667777777777666655333                    33344566


Q ss_pred             hhhccCcchHHHHHHHhhcccc
Q 048799          302 AGVWRYGDAERLRRVVDERNAL  323 (331)
Q Consensus       302 ~~~g~~~~a~~~~~~~~~~~~~  323 (331)
                      ...++|+++..+++.+.+....
T Consensus       234 ~~~~~~~~~i~iLK~iL~~~~~  255 (906)
T PRK14720        234 KALEDWDEVIYILKKILEHDNK  255 (906)
T ss_pred             hhhhhhhHHHHHHHHHHhcCCc
Confidence            7778899999999998876543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.81  E-value=3.6e-06  Score=72.95  Aligned_cols=136  Identities=17%  Similarity=0.182  Sum_probs=74.4

Q ss_pred             HHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHH
Q 048799          128 DTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEG  207 (331)
Q Consensus       128 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  207 (331)
                      .+-.....|.+|+.+++.+........-|..+...|...|+++.|.++|-+.-         .++-.|..|.+.|++++|
T Consensus       740 eaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da  810 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDA  810 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHH
Confidence            33444556666666666554443333445556666777777777777664421         134455566777777777


Q ss_pred             HHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHH
Q 048799          208 LKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRK  282 (331)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (331)
                      .++-.+..   |.......|..-.+-+-+.|++.+|.++|-.+..  |+.     -|..|-+.|..+..+++..+
T Consensus       811 ~kla~e~~---~~e~t~~~yiakaedldehgkf~eaeqlyiti~~--p~~-----aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  811 FKLAEECH---GPEATISLYIAKAEDLDEHGKFAEAEQLYITIGE--PDK-----AIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HHHHHHhc---CchhHHHHHHHhHHhHHhhcchhhhhheeEEccC--chH-----HHHHHHhhCcchHHHHHHHH
Confidence            66655443   3333445555555556666666666666655443  222     23445555555555444443

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

Probab=98.77  E-value=1.9e-06  Score=70.93  Aligned_cols=126  Identities=15%  Similarity=0.056  Sum_probs=100.1

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHHH
Q 048799          189 VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGAC  267 (331)
Q Consensus       189 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~  267 (331)
                      .-|..-+ .+...|.+++|+..++.++..  .+-|........+.+.+.|+.++|.+.++++....|+ ....-.+..++
T Consensus       308 a~YG~A~-~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~al  384 (484)
T COG4783         308 AQYGRAL-QTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQAL  384 (484)
T ss_pred             HHHHHHH-HHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHH
Confidence            3344444 344678899999999998864  3446666677788899999999999999999888666 56777788889


Q ss_pred             hcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHH
Q 048799          268 SFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVV  317 (331)
Q Consensus       268 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  317 (331)
                      .+.|++.+|+.+++.....+|+++..|..|+.+|...|+..++.....+.
T Consensus       385 l~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         385 LKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            99999999999999999888999999999999998888877777665544

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.76  E-value=1e-06  Score=78.34  Aligned_cols=307  Identities=13%  Similarity=-0.020  Sum_probs=160.0

Q ss_pred             cchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCC-----chhHHHHHHHHHhcCChhHHHHHHHHH
Q 048799            3 KDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMPCRN-----VVSWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus         3 ~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      ..|.+.|+..-   ..+..++....+.|++..+++.|..+.-...+.+     ...|....-.|.+.++...|+.-|+..
T Consensus       509 ~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsA  588 (1238)
T KOG1127|consen  509 KRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSA  588 (1238)
T ss_pred             HHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHH
Confidence            45777777655   3466778888899999999999988843332211     112333444466667777777777766


Q ss_pred             HhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC---
Q 048799           75 VACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK---  151 (331)
Q Consensus        75 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---  151 (331)
                      .+.  -|.|...|..++.+|.+.|.+..|.++|.++....+.  +.....-..-..+..|.+.+|+..+........   
T Consensus       589 LR~--dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~--s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~  664 (1238)
T KOG1127|consen  589 LRT--DPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPL--SKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLER  664 (1238)
T ss_pred             hcC--CchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcH--hHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            332  1245556777777777777777777777776666443  222222333445556666666666554432200   


Q ss_pred             -----cHHHHHHHHHHHHccCChHHHHHHHHH------------------------------------------------
Q 048799          152 -----NLVSWTSIISGFAMHGMGKEAVENFER------------------------------------------------  178 (331)
Q Consensus       152 -----~~~~~~~l~~~~~~~~~~~~a~~~~~~------------------------------------------------  178 (331)
                           -..++..+...+.-.|-..++...+++                                                
T Consensus       665 ~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~  744 (1238)
T KOG1127|consen  665 TGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSK  744 (1238)
T ss_pred             HhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHH
Confidence                 011111111111111111111111111                                                


Q ss_pred             -HHhccCCC--------------------CHHHHHHHHHHHhc--------cCChHHHHHHHHHHHHhcCCCCcHhhHHH
Q 048799          179 -MQKVVLKP--------------------NRVTFLSVLNACSH--------GGLVEEGLKFFDKMVEECEVLPDIKHYGC  229 (331)
Q Consensus       179 -m~~~~~~p--------------------~~~~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  229 (331)
                       ....+.-|                    +..+|..|+..|.+        ..+...|...+.+.++.  ..-+..+|+.
T Consensus       745 q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L--~ann~~~Wna  822 (1238)
T KOG1127|consen  745 QLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSL--CANNEGLWNA  822 (1238)
T ss_pred             HHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHH--hhccHHHHHH
Confidence             11111111                    11112222221111        11123445555554432  1123444554


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCc
Q 048799          230 LIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYG  308 (331)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  308 (331)
                      |.-. ...|++.-|...|-..... +....+|..+...+.+..+++.|...|.....++|.+...|..........|+.-
T Consensus       823 LGVl-sg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii  901 (1238)
T KOG1127|consen  823 LGVL-SGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRII  901 (1238)
T ss_pred             HHHh-hccchhhhhhhhhhhhhhccccchhheeccceeEEecccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHH
Confidence            4433 4456666666666555544 3345666666666777777777777777777777777666766666666666666


Q ss_pred             chHHHHHH
Q 048799          309 DAERLRRV  316 (331)
Q Consensus       309 ~a~~~~~~  316 (331)
                      +...+|..
T Consensus       902 ~~~~lfaH  909 (1238)
T KOG1127|consen  902 ERLILFAH  909 (1238)
T ss_pred             HHHHHHHh
Confidence            66666554

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.73  E-value=1.1e-06  Score=76.08  Aligned_cols=193  Identities=12%  Similarity=0.119  Sum_probs=124.4

Q ss_pred             HHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHh
Q 048799           58 YTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIF  137 (331)
Q Consensus        58 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  137 (331)
                      +...|+++.|+..|-+. .         .....+.+....++|.+|+.+++.+.....   ....|..+...|...|+++
T Consensus       716 l~~~~q~daainhfiea-~---------~~~kaieaai~akew~kai~ildniqdqk~---~s~yy~~iadhyan~~dfe  782 (1636)
T KOG3616|consen  716 LEQIGQLDAAINHFIEA-N---------CLIKAIEAAIGAKEWKKAISILDNIQDQKT---ASGYYGEIADHYANKGDFE  782 (1636)
T ss_pred             HHHHHhHHHHHHHHHHh-h---------hHHHHHHHHhhhhhhhhhHhHHHHhhhhcc---ccccchHHHHHhccchhHH
Confidence            34445555555555443 1         122234455667788888888888877644   3456677888899999999


Q ss_pred             HHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          138 SALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       138 ~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      .|.++|.+.       ..++-.|..|.+.|+|++|.++-.+..  |...+...|..-..-.-+.|++.+|+++|-.+.  
T Consensus       783 ~ae~lf~e~-------~~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~--  851 (1636)
T KOG3616|consen  783 IAEELFTEA-------DLFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG--  851 (1636)
T ss_pred             HHHHHHHhc-------chhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc--
Confidence            999998765       245667788899999999988876653  344455566666666677788888877765442  


Q ss_pred             cCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHH
Q 048799          218 CEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKI  283 (331)
Q Consensus       218 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  283 (331)
                         .|+     .-|++|-+.|..++..++..+-... .-..|...+..-+-..|+...|+.-|-++
T Consensus       852 ---~p~-----~aiqmydk~~~~ddmirlv~k~h~d-~l~dt~~~f~~e~e~~g~lkaae~~flea  908 (1636)
T KOG3616|consen  852 ---EPD-----KAIQMYDKHGLDDDMIRLVEKHHGD-HLHDTHKHFAKELEAEGDLKAAEEHFLEA  908 (1636)
T ss_pred             ---Cch-----HHHHHHHhhCcchHHHHHHHHhChh-hhhHHHHHHHHHHHhccChhHHHHHHHhh
Confidence               233     2356677777777777776655432 11244555555566666666666655554

>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=98.73  E-value=3.6e-07  Score=75.53  Aligned_cols=123  Identities=11%  Similarity=0.028  Sum_probs=95.4

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhc
Q 048799          191 FLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSF  269 (331)
Q Consensus       191 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~  269 (331)
                      ...|+..+...++++.|..+++++.+.   .|+  ....+++.+...++-.+|.+++.+.....| +......-...+.+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            445666666778888888888888765   244  444577777778888888888888876633 55666666677888


Q ss_pred             CCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHh
Q 048799          270 HGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVD  318 (331)
Q Consensus       270 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  318 (331)
                      .++++.|.++.+++.+..|++..+|..|+.+|.+.|+++.|+-.++.+.
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            8888888888888888888888888888888888888888888887775

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

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

Probab=98.73  E-value=1.4e-07  Score=66.96  Aligned_cols=114  Identities=11%  Similarity=0.005  Sum_probs=89.7

Q ss_pred             HHHHHHhccCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          175 NFERMQKVVLKPN-RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       175 ~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      .|+++..  ..|+ ......+...+...|++++|.+.++.+...  .+.+...+..+...+...|++++|..+++.+...
T Consensus         5 ~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4556555  3343 345666777788899999999999988764  2447788888888999999999999999988766


Q ss_pred             -CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc
Q 048799          254 -ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG  292 (331)
Q Consensus       254 -~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  292 (331)
                       +.+...+..+..++...|+++.|...++.+.+..|++..
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence             445778888888899999999999999999998887744

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

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

Probab=98.72  E-value=8.1e-07  Score=63.04  Aligned_cols=115  Identities=16%  Similarity=0.054  Sum_probs=77.5

Q ss_pred             HHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCC
Q 048799          142 LFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEV  220 (331)
Q Consensus       142 ~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  220 (331)
                      .|+++...+| +......+...+...|++++|.+.|+.+...+ +.+...+..+...+...|++++|...++...+.  .
T Consensus         5 ~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~   81 (135)
T TIGR02552         5 TLKDLLGLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL--D   81 (135)
T ss_pred             hHHHHHcCChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--C
Confidence            4455554544 34455666667777788888888887776643 235566667777777778888888888777653  2


Q ss_pred             CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHH
Q 048799          221 LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVV  259 (331)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  259 (331)
                      +.+...+..+...+...|++++|...|+......|+...
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence            445666777777777888888888888777766454433

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

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

Probab=98.71  E-value=1.4e-06  Score=62.54  Aligned_cols=117  Identities=13%  Similarity=0.052  Sum_probs=53.0

Q ss_pred             cCChhHHHHHHHHHHhccCCC-CchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcch--hHHHHHHHHHHHhcCCHh
Q 048799           61 MNRSNGALALFRRMVACEYTE-PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFH--IHVSNCLIDTYAKCGCIF  137 (331)
Q Consensus        61 ~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~  137 (331)
                      .++...+...++.+....+-. ........+...+...|++++|...|+.+......+ .  ..+...|..++...|+++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~-~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDP-ELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCH-HHHHHHHHHHHHHHHHcCCHH
Confidence            455555555555553221110 001222233444555555555555555555544222 1  123333455555555555


Q ss_pred             HHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHH
Q 048799          138 SALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFER  178 (331)
Q Consensus       138 ~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  178 (331)
                      +|+..++...........+......|...|++++|...|++
T Consensus       103 ~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  103 EALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55555544332223334444455555555555555555543

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

Probab=98.66  E-value=4e-06  Score=60.15  Aligned_cols=125  Identities=16%  Similarity=0.152  Sum_probs=61.1

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhccCCCC---HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc--HhhHHHH
Q 048799          156 WTSIISGFAMHGMGKEAVENFERMQKVVLKPN---RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD--IKHYGCL  230 (331)
Q Consensus       156 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l  230 (331)
                      |..++..+ ..++...+...++.+..... .+   ......+...+...|++++|...|+.+... ...|+  ......+
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~~-~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDYP-SSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCC-CChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHH
Confidence            33344433 25555555555555554321 11   122223344455556666666666666554 21111  1123334


Q ss_pred             HHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHH
Q 048799          231 IDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKI  283 (331)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  283 (331)
                      ...+...|++++|...++........+..+......+...|+.++|...|+++
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            55555566666666666554333333444555555666666666666666543

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.65  E-value=2.4e-07  Score=65.33  Aligned_cols=96  Identities=7%  Similarity=-0.107  Sum_probs=65.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh
Q 048799          225 KHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG  303 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  303 (331)
                      ...-.+...+...|++++|.++|+.+... +-+..-|..|..++-..|++++|+..|..+..++|+++..+..++.++..
T Consensus        36 ~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~  115 (157)
T PRK15363         36 NTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHH
Confidence            33444555566777777777777766655 33456666677777777777777777777777777777777777777777


Q ss_pred             hccCcchHHHHHHHhhc
Q 048799          304 VWRYGDAERLRRVVDER  320 (331)
Q Consensus       304 ~g~~~~a~~~~~~~~~~  320 (331)
                      .|+.+.|.+.|+.....
T Consensus       116 lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        116 CDNVCYAIKALKAVVRI  132 (157)
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            77777777777765543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.64  E-value=2.1e-06  Score=66.35  Aligned_cols=197  Identities=12%  Similarity=0.048  Sum_probs=124.3

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHH-HHHHHhcc
Q 048799          124 NCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLS-VLNACSHG  201 (331)
Q Consensus       124 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-l~~~~~~~  201 (331)
                      ++.+..+.+..++..|++++..-.+..| +......+..+|....++..|-..++++-.  ..|...-|.. -...+.+.
T Consensus        14 taviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q--l~P~~~qYrlY~AQSLY~A   91 (459)
T KOG4340|consen   14 TAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQ--LHPELEQYRLYQAQSLYKA   91 (459)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hChHHHHHHHHHHHHHHHh
Confidence            3444455666677777777666555544 555566666667777777777777777655  3354444432 23345566


Q ss_pred             CChHHHHHHHHHHHHhcCCCCcHhhHHHHHH--HHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHH
Q 048799          202 GLVEEGLKFFDKMVEECEVLPDIKHYGCLID--MLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERV  279 (331)
Q Consensus       202 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  279 (331)
                      +.+.+|.++...|...    |+...-..-++  .....+++..+..+.+..... .+..+.........+.|+++.|.+-
T Consensus        92 ~i~ADALrV~~~~~D~----~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e-n~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   92 CIYADALRVAFLLLDN----PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE-NEADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             cccHHHHHHHHHhcCC----HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC-CccchhccchheeeccccHHHHHHH
Confidence            6777777777666431    22221111111  223467777777777776642 2455555555666788888888888


Q ss_pred             HHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccccCCCC
Q 048799          280 TRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKFPG  327 (331)
Q Consensus       280 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  327 (331)
                      |+.+.+...-.+..-..++.+..+.|+++.|+++..++.++|++.-|.
T Consensus       167 FqaAlqvsGyqpllAYniALaHy~~~qyasALk~iSEIieRG~r~HPE  214 (459)
T KOG4340|consen  167 FQAALQVSGYQPLLAYNLALAHYSSRQYASALKHISEIIERGIRQHPE  214 (459)
T ss_pred             HHHHHhhcCCCchhHHHHHHHHHhhhhHHHHHHHHHHHHHhhhhcCCc
Confidence            888888665555566667777777888888888888888888876664

>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=98.63  E-value=1.9e-06  Score=71.32  Aligned_cols=123  Identities=9%  Similarity=0.047  Sum_probs=95.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHH
Q 048799           51 WTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTY  130 (331)
Q Consensus        51 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  130 (331)
                      -..|+..+...++++.|+.+|+++.. ..  |+  ....+++.+...++-.+|.+++++.++..+.  +..........+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~-~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~--d~~LL~~Qa~fL  244 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRE-RD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQ--DSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHh-cC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC--CHHHHHHHHHHH
Confidence            34556666677889999999998833 22  44  3445777777778888888888888876443  677777778888


Q ss_pred             HhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHH
Q 048799          131 AKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQ  180 (331)
Q Consensus       131 ~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~  180 (331)
                      .+.++++.|+.+.+++....|+ -.+|..|..+|...|+++.|+..++.+-
T Consensus       245 l~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            8999999999999999888775 4589999999999999999998887663

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

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.59  E-value=9.9e-05  Score=65.50  Aligned_cols=227  Identities=12%  Similarity=0.061  Sum_probs=118.0

Q ss_pred             HhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhH
Q 048799           59 TRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFS  138 (331)
Q Consensus        59 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  138 (331)
                      ...+++.+|++...++.++.+-.+-...+.+  -...+.|+.++|..+++.....+..  |..+...+-.+|.+.|+.++
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn~~~a~vLka--Lsl~r~gk~~ea~~~Le~~~~~~~~--D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPNALYAKVLKA--LSLFRLGKGDEALKLLEALYGLKGT--DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcHHHHHHHH--HHHHHhcCchhHHHHHhhhccCCCC--chHHHHHHHHHHHHHhhhhH
Confidence            3456666677666666443322221112211  1234667777777666655554443  56666666677777777777


Q ss_pred             HHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccC----------ChHHHH
Q 048799          139 ALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGG----------LVEEGL  208 (331)
Q Consensus       139 A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~----------~~~~a~  208 (331)
                      |..+|+++....|+......+..+|.+.+.+.+-.+.--+|-+ ..+-+...|-.+++.+...-          -..-|.
T Consensus        96 ~~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~  174 (932)
T KOG2053|consen   96 AVHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALAE  174 (932)
T ss_pred             HHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHHH
Confidence            7777777766666655555555566665554433222222222 13334444444444433221          123355


Q ss_pred             HHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhh-cccCCc--cHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          209 KFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASG-IPSEIT--NVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      +.++.+.+..|.--+..-.......+...|++++|.+++.. ..+..+  +...-+.-+..+...+++.+..++..++.+
T Consensus       175 ~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~  254 (932)
T KOG2053|consen  175 KMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLE  254 (932)
T ss_pred             HHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHH
Confidence            56666665522111111112222334566777777777733 222211  233333445566677777777777777777


Q ss_pred             hhcCC
Q 048799          286 MERGY  290 (331)
Q Consensus       286 ~~~~~  290 (331)
                      .++++
T Consensus       255 k~~Dd  259 (932)
T KOG2053|consen  255 KGNDD  259 (932)
T ss_pred             hCCcc
Confidence            66665

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.58  E-value=1.4e-05  Score=60.44  Aligned_cols=183  Identities=11%  Similarity=0.099  Sum_probs=134.7

Q ss_pred             CHhHHHHHHHHhhhc------CCcH-HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHH-HHHHhccCChHH
Q 048799          135 CIFSALKLFEDISVE------RKNL-VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSV-LNACSHGGLVEE  206 (331)
Q Consensus       135 ~~~~A~~~~~~~~~~------~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-~~~~~~~~~~~~  206 (331)
                      +.++..+++.++...      +++. ..|..++-+....|+.+-|...++++... + |.+.-...| .-.+-..|++++
T Consensus        27 nseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   27 NSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             CHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhchhh
Confidence            345555555555432      2332 33555555666789999999999998765 3 443222222 223456799999


Q ss_pred             HHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          207 GLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       207 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      |+++++...+. . +.|..++..=+-..-..|+.-+|.+-+....+. ..|...|..+...|...|++++|.-++++++=
T Consensus       105 A~e~y~~lL~d-d-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLED-D-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhcc-C-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            99999999985 3 557778877777777889888999988888777 66899999999999999999999999999999


Q ss_pred             hhcCCCccHHHHHHHHhhhc---cCcchHHHHHHHhhcc
Q 048799          286 MERGYGGDYVLMYNILAGVW---RYGDAERLRRVVDERN  321 (331)
Q Consensus       286 ~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~  321 (331)
                      ..|-++..+..++..+...|   +..-+.+++++..+..
T Consensus       183 ~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  183 IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            99998777888888876665   4556777777766644

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

Probab=98.58  E-value=0.00032  Score=63.41  Aligned_cols=142  Identities=19%  Similarity=0.275  Sum_probs=102.8

Q ss_pred             cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHH
Q 048799          152 NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLI  231 (331)
Q Consensus       152 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  231 (331)
                      .+..|..+..+-.+.|...+|++-|-+.      -|+..|..++....+.|.+++-.+++.-++++ .-.|..  -+.|+
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~i--d~eLi 1173 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYI--DSELI 1173 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccc--hHHHH
Confidence            4567888888888888888888877543      35667888999999999999999988888776 555544  35788


Q ss_pred             HHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchH
Q 048799          232 DMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAE  311 (331)
Q Consensus       232 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  311 (331)
                      -+|.+.+++.+.++++..     |+......+.+-|...|.++.|.-+|...        +.|..|+..+...|.+..|.
T Consensus      1174 ~AyAkt~rl~elE~fi~g-----pN~A~i~~vGdrcf~~~~y~aAkl~y~~v--------SN~a~La~TLV~LgeyQ~AV 1240 (1666)
T KOG0985|consen 1174 FAYAKTNRLTELEEFIAG-----PNVANIQQVGDRCFEEKMYEAAKLLYSNV--------SNFAKLASTLVYLGEYQGAV 1240 (1666)
T ss_pred             HHHHHhchHHHHHHHhcC-----CCchhHHHHhHHHhhhhhhHHHHHHHHHh--------hhHHHHHHHHHHHHHHHHHH
Confidence            889999998887766543     56666677777777777777776666543        34566666666666666665


Q ss_pred             HHHH
Q 048799          312 RLRR  315 (331)
Q Consensus       312 ~~~~  315 (331)
                      +.-+
T Consensus      1241 D~aR 1244 (1666)
T KOG0985|consen 1241 DAAR 1244 (1666)
T ss_pred             HHhh
Confidence            5433

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.53  E-value=1.9e-05  Score=69.39  Aligned_cols=242  Identities=12%  Similarity=0.094  Sum_probs=149.9

Q ss_pred             hHHHHHHHHH--HHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCC--------CCchH
Q 048799           16 NLVTWNVMIT--GLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYT--------EPSEI   85 (331)
Q Consensus        16 ~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------~~~~~   85 (331)
                      |..|--.+++  .|..-|+.|.|.+-.+.++  +...|..+.+.|.+.++.+-|.-.+-.|....|.        .|+ .
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e  801 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-E  801 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-c
Confidence            5566666653  4677899999988887765  4457999999999998888877776666221221        222 1


Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHc
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAM  165 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~  165 (331)
                      +=..+.-.....|.+++|..+|++....          ..|=+.|-..|.|++|.++-+.--. -.-..||.....-+-.
T Consensus       802 ~eakvAvLAieLgMlEeA~~lYr~ckR~----------DLlNKlyQs~g~w~eA~eiAE~~DR-iHLr~Tyy~yA~~Lea  870 (1416)
T KOG3617|consen  802 DEAKVAVLAIELGMLEEALILYRQCKRY----------DLLNKLYQSQGMWSEAFEIAETKDR-IHLRNTYYNYAKYLEA  870 (1416)
T ss_pred             hhhHHHHHHHHHhhHHHHHHHHHHHHHH----------HHHHHHHHhcccHHHHHHHHhhccc-eehhhhHHHHHHHHHh
Confidence            1112222334778999999999887643          3355677888999999988664311 1123567677777777


Q ss_pred             cCChHHHHHHHHHHHh----------cc---------CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhh
Q 048799          166 HGMGKEAVENFERMQK----------VV---------LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKH  226 (331)
Q Consensus       166 ~~~~~~a~~~~~~m~~----------~~---------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  226 (331)
                      .++.+.|++.|++...          ..         -..|...|......+...|+++.|+.+|..+..          
T Consensus       871 r~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D----------  940 (1416)
T KOG3617|consen  871 RRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD----------  940 (1416)
T ss_pred             hccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh----------
Confidence            8889999988876321          11         011333344444444556666666666665543          


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      |-++++..|-.|+.++|-++-++-.    |....-.+.+.|-..|++.+|...|.++..
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            2234455556666666666655543    334444566666666777777776666653

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.49  E-value=4.7e-06  Score=57.56  Aligned_cols=101  Identities=10%  Similarity=0.061  Sum_probs=54.3

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc----HHHHHHHHH
Q 048799          191 FLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN----VVVWRTLLG  265 (331)
Q Consensus       191 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~  265 (331)
                      +..++..+.+.|++++|.+.|..+.+...-.+ ....+..+..++.+.|+++.|.+.++.+....|+    ...+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            34444555556666666666666654311001 1234444555666666666666666655543222    344555555


Q ss_pred             HHhcCCchhHHHHHHHHHHHhhcCCC
Q 048799          266 ACSFHGNVEMGERVTRKILEMERGYG  291 (331)
Q Consensus       266 ~~~~~g~~~~a~~~~~~~~~~~~~~~  291 (331)
                      ++...|+.++|.+.++++.+..|++.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~p~~~  110 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKRYPGSS  110 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHHCcCCh
Confidence            66666666666666666666666553

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.47  E-value=2.8e-06  Score=58.71  Aligned_cols=98  Identities=11%  Similarity=-0.032  Sum_probs=83.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc----HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC---CccHHHH
Q 048799          225 KHYGCLIDMLGRAGRLEQAEKVASGIPSEITN----VVVWRTLLGACSFHGNVEMGERVTRKILEMERGY---GGDYVLM  297 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~l  297 (331)
                      .++..++..+.+.|++++|.+.|..+....|+    ...+..+..++.+.|+++.|...++.+.+..|++   +..+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            45667788899999999999999999876343    3567778999999999999999999999988875   3467888


Q ss_pred             HHHHhhhccCcchHHHHHHHhhccc
Q 048799          298 YNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       298 ~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      +.++.+.|+.++|.+.++.+.+...
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~p  107 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRYP  107 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHCc
Confidence            9999999999999999999988653

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.46  E-value=1.4e-06  Score=57.29  Aligned_cols=92  Identities=16%  Similarity=0.045  Sum_probs=52.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhcc
Q 048799          228 GCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWR  306 (331)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  306 (331)
                      ..++..+...|++++|...++.+... +.+...+..+...+...|++++|.+.++.+.+..|.+...+..++..+...|+
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGK   83 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHh
Confidence            34444555556666666666655544 22334455555555566666666666666666555555555566666666666


Q ss_pred             CcchHHHHHHHhh
Q 048799          307 YGDAERLRRVVDE  319 (331)
Q Consensus       307 ~~~a~~~~~~~~~  319 (331)
                      +++|...++...+
T Consensus        84 ~~~a~~~~~~~~~   96 (100)
T cd00189          84 YEEALEAYEKALE   96 (100)
T ss_pred             HHHHHHHHHHHHc
Confidence            6666666655543

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

Probab=98.43  E-value=1.2e-06  Score=56.27  Aligned_cols=82  Identities=15%  Similarity=0.180  Sum_probs=39.5

Q ss_pred             cCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHH
Q 048799           61 MNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSAL  140 (331)
Q Consensus        61 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  140 (331)
                      +|+++.|+.+++++.......++...+..+..++.+.|++++|..++++ .+.+..  +......++.++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~--~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS--NPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC--HHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC--CHHHHHHHHHHHHHhCCHHHHH
Confidence            3556666666666633322112333444455556666666666666655 222211  3333334455566666666666


Q ss_pred             HHHHH
Q 048799          141 KLFED  145 (331)
Q Consensus       141 ~~~~~  145 (331)
                      +.|++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            55543

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

Probab=98.43  E-value=1.8e-07  Score=60.11  Aligned_cols=81  Identities=19%  Similarity=0.158  Sum_probs=46.7

Q ss_pred             cCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHH
Q 048799          201 GGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERV  279 (331)
Q Consensus       201 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~  279 (331)
                      .|+++.|+.+++++.+.....++...+..+..+|.+.|++++|..+++. ... ..+......+..++.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            4667777777777766511112344444466777777777777777766 222 22334444456667777777777777


Q ss_pred             HHH
Q 048799          280 TRK  282 (331)
Q Consensus       280 ~~~  282 (331)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            665

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.42  E-value=1.1e-05  Score=65.18  Aligned_cols=155  Identities=11%  Similarity=0.003  Sum_probs=87.2

Q ss_pred             HHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHH--HHhccCChHHHHHHHHHHHHhcCCCCcHhhH------------
Q 048799          162 GFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLN--ACSHGGLVEEGLKFFDKMVEECEVLPDIKHY------------  227 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~------------  227 (331)
                      ++...|++++|.+.--..++..  ++ ..+...++  ++-..++.+.|...|++.+..   .|+-..-            
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld--~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~l---dpdh~~sk~~~~~~k~le~  251 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD--AT-NAEALYVRGLCLYYNDNADKAINHFQQALRL---DPDHQKSKSASMMPKKLEV  251 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc--cc-hhHHHHhcccccccccchHHHHHHHhhhhcc---ChhhhhHHhHhhhHHHHHH
Confidence            4455666666666554444421  11 11222222  223455666666666665532   3332111            


Q ss_pred             -HHHHHHHHhcCCHHHHHHHHhhcccC-----CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHH
Q 048799          228 -GCLIDMLGRAGRLEQAEKVASGIPSE-----ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL  301 (331)
Q Consensus       228 -~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  301 (331)
                       ..=..-..+.|++..|.+.|.+.+..     .|+...|.....+..+.|+..+|+.-.+.+.+++|.....+..-+.++
T Consensus       252 ~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~  331 (486)
T KOG0550|consen  252 KKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCH  331 (486)
T ss_pred             HHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHH
Confidence             11122234667777777777776665     334455655566666777777777777777777776666666666777


Q ss_pred             hhhccCcchHHHHHHHhhccc
Q 048799          302 AGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       302 ~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      ...++|++|.+-++...+...
T Consensus       332 l~le~~e~AV~d~~~a~q~~~  352 (486)
T KOG0550|consen  332 LALEKWEEAVEDYEKAMQLEK  352 (486)
T ss_pred             HHHHHHHHHHHHHHHHHhhcc
Confidence            777777777777766655443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.41  E-value=0.00011  Score=59.15  Aligned_cols=133  Identities=16%  Similarity=0.124  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHHhc-CCHhHHHHHHHHhhhc----C-C--cHHHHHHHHHHHHccCChHHHHHHHHHHHhccC-----CCC
Q 048799          121 HVSNCLIDTYAKC-GCIFSALKLFEDISVE----R-K--NLVSWTSIISGFAMHGMGKEAVENFERMQKVVL-----KPN  187 (331)
Q Consensus       121 ~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~----~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-----~p~  187 (331)
                      ..+..+...|... |++++|.+.|+++...    + +  -...+..+...+.+.|++++|+++|++......     ..+
T Consensus       115 ~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~  194 (282)
T PF14938_consen  115 KCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYS  194 (282)
T ss_dssp             HHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchh
Confidence            3445555666666 6777777766666443    1 1  123345555666677777777777766654321     111


Q ss_pred             HH-HHHHHHHHHhccCChHHHHHHHHHHHHh-cCCCCc--HhhHHHHHHHHHh--cCCHHHHHHHHhhcccC
Q 048799          188 RV-TFLSVLNACSHGGLVEEGLKFFDKMVEE-CEVLPD--IKHYGCLIDMLGR--AGRLEQAEKVASGIPSE  253 (331)
Q Consensus       188 ~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~--~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~  253 (331)
                      .. .|...+-++...|+...|.+.+++.... +++..+  ......|+.++-.  ...+.+|..-|+.+...
T Consensus       195 ~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~l  266 (282)
T PF14938_consen  195 AKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRL  266 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS--
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCcc
Confidence            11 2223333455566677777776666532 122221  2344455555532  23455566666665543

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.40  E-value=3.2e-05  Score=54.72  Aligned_cols=103  Identities=11%  Similarity=0.075  Sum_probs=78.7

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                      +......+...+...|++++|.++|+.+....| +..-|..|..++-..|++++|+..|....... +-++..+..+..+
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c  112 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            444555677778888888888888888876666 56677788888888888888888888887754 2456777778888


Q ss_pred             HhccCChHHHHHHHHHHHHhcCCCC
Q 048799          198 CSHGGLVEEGLKFFDKMVEECEVLP  222 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~~~~~~  222 (331)
                      +...|+.+.|.+.|+..+...+-.|
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~~~~~~~  137 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVRICGEVS  137 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHHHhccCh
Confidence            8888888888888888877644333

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.40  E-value=4e-06  Score=64.91  Aligned_cols=90  Identities=17%  Similarity=0.081  Sum_probs=46.4

Q ss_pred             ccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhcCCchhHHHH
Q 048799          200 HGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGACSFHGNVEMGER  278 (331)
Q Consensus       200 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~  278 (331)
                      +.+++++|+..|.++++-  .+-|...|..-..+|++.|.++.|.+-.+.++...|+ ..+|..|..+|...|++++|++
T Consensus        93 ~~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~~  170 (304)
T KOG0553|consen   93 KNKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAIE  170 (304)
T ss_pred             HhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHHH
Confidence            445555555555555531  1224444444455555555555555555555544222 3455555555555555555555


Q ss_pred             HHHHHHHhhcCCC
Q 048799          279 VTRKILEMERGYG  291 (331)
Q Consensus       279 ~~~~~~~~~~~~~  291 (331)
                      .|+++++++|++.
T Consensus       171 aykKaLeldP~Ne  183 (304)
T KOG0553|consen  171 AYKKALELDPDNE  183 (304)
T ss_pred             HHHhhhccCCCcH
Confidence            5555555555553

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.39  E-value=6.6e-07  Score=46.63  Aligned_cols=33  Identities=27%  Similarity=0.546  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhccCCCC
Q 048799          155 SWTSIISGFAMHGMGKEAVENFERMQKVVLKPN  187 (331)
Q Consensus       155 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  187 (331)
                      +||.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            577777777777777777777777777777776

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

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.37  E-value=8.1e-05  Score=53.72  Aligned_cols=132  Identities=12%  Similarity=0.032  Sum_probs=89.4

Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc---cHHHH
Q 048799          184 LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT---NVVVW  260 (331)
Q Consensus       184 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p---~~~~~  260 (331)
                      ..|+...-..|..+..+.|+..+|...|++.... -+.-|..+...+.++....+++..|...++++.+..|   ++.+.
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            3466666666777777778888888888777664 4445677777777777777888888777777665522   23344


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHH
Q 048799          261 RTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVV  317 (331)
Q Consensus       261 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  317 (331)
                      ..+...+...|++..|+..|+.+....|+. ..-......+.++|+.+++..-+..+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg~-~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPGP-QARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCCH-HHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            456677777788888888888777766664 55555667777777776665444433

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.37  E-value=5.4e-05  Score=60.94  Aligned_cols=160  Identities=13%  Similarity=0.064  Sum_probs=77.7

Q ss_pred             HHHHhhcCchhHHHHHHhhhhhc----CCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-----CCc--HHHHHHH
Q 048799           91 FPAIWQNGDVRNCQLIHGYGEKR----GFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-----RKN--LVSWTSI  159 (331)
Q Consensus        91 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~--~~~~~~l  159 (331)
                      ...|-..+++++|.+.|.+..+.    +........|.....+|.+. ++++|...++++...     .++  ...+..+
T Consensus        42 a~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~l  120 (282)
T PF14938_consen   42 ANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKCLKEL  120 (282)
T ss_dssp             HHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            33444455555555555444221    11110122333333333333 566666655555432     111  2345555


Q ss_pred             HHHHHcc-CChHHHHHHHHHHHhc----cCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCC-----CcHh-h
Q 048799          160 ISGFAMH-GMGKEAVENFERMQKV----VLKPN--RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVL-----PDIK-H  226 (331)
Q Consensus       160 ~~~~~~~-~~~~~a~~~~~~m~~~----~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~-~  226 (331)
                      ...|... |++++|++.|++....    | .+.  ..++..+...+.+.|++++|.++|+++... ...     .+.. .
T Consensus       121 A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~-~l~~~l~~~~~~~~  198 (282)
T PF14938_consen  121 AEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKK-CLENNLLKYSAKEY  198 (282)
T ss_dssp             HHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHT-CCCHCTTGHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH-hhcccccchhHHHH
Confidence            5666666 7777777777776542    1 111  234556666777777777777777777654 211     1111 1


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      +...+-++...|++..|.+.+++....
T Consensus       199 ~l~a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  199 FLKAILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            222233455567777777777776544

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

Probab=98.37  E-value=1.1e-05  Score=67.10  Aligned_cols=103  Identities=9%  Similarity=-0.026  Sum_probs=69.0

Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchh
Q 048799          196 NACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVE  274 (331)
Q Consensus       196 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~  274 (331)
                      ..+...|++++|+..|+++++.  .+.+...|..+..+|...|++++|...++++....| +...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHH
Confidence            3445667777777777777653  223556666667777777777777777777766633 4566777777777777777


Q ss_pred             HHHHHHHHHHHhhcCCCccHHHHHHH
Q 048799          275 MGERVTRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       275 ~a~~~~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      +|...|+++++++|+++.....+..+
T Consensus        88 eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         88 TAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            77777777777777775555444443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.36  E-value=8.8e-07  Score=45.81  Aligned_cols=33  Identities=21%  Similarity=0.413  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHhccCCC
Q 048799          154 VSWTSIISGFAMHGMGKEAVENFERMQKVVLKP  186 (331)
Q Consensus       154 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p  186 (331)
                      .+|+.++.+|++.|+++.|.++|+.|.+.|+.|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            356666666666666666666666666666555

>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=98.36  E-value=6.1e-06  Score=54.17  Aligned_cols=89  Identities=21%  Similarity=0.119  Sum_probs=38.6

Q ss_pred             HHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCch
Q 048799          195 LNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNV  273 (331)
Q Consensus       195 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~  273 (331)
                      ...+...|++++|...++.+.+.  .+.+...+..+...+...|++++|.+.++..... +.+...+..+...+...|++
T Consensus         7 a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (100)
T cd00189           7 GNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKY   84 (100)
T ss_pred             HHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhH
Confidence            33344444444444444444432  1112233444444444444455555444444333 22223444444444455555


Q ss_pred             hHHHHHHHHHHH
Q 048799          274 EMGERVTRKILE  285 (331)
Q Consensus       274 ~~a~~~~~~~~~  285 (331)
                      +.|...+..+.+
T Consensus        85 ~~a~~~~~~~~~   96 (100)
T cd00189          85 EEALEAYEKALE   96 (100)
T ss_pred             HHHHHHHHHHHc
Confidence            555555544443

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

Probab=98.35  E-value=2.5e-05  Score=62.62  Aligned_cols=132  Identities=14%  Similarity=0.164  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH-HhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHH
Q 048799          155 SWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA-CSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDM  233 (331)
Q Consensus       155 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  233 (331)
                      +|..++....+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|.++|+...+.  ++.+...|...++.
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 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHH
Confidence            45555555555555666666666655332 1122222222222 22234455566666666553  33355555566666


Q ss_pred             HHhcCCHHHHHHHHhhcccCCcc----HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          234 LGRAGRLEQAEKVASGIPSEITN----VVVWRTLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      +...|+.+.|..+|++.....|.    ...|...+.--.+.|+.+.+.++.+++.+..|.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~  139 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPE  139 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTT
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhh
Confidence            66666666666666666555222    235666666666666666666666666655444

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

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

Probab=98.33  E-value=1.8e-05  Score=65.69  Aligned_cols=94  Identities=7%  Similarity=-0.145  Sum_probs=58.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcC
Q 048799           55 IDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCG  134 (331)
Q Consensus        55 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  134 (331)
                      ...+...|++++|+..|++++...  +.+...|..+..++...|++++|+..++++++..+.  +...|..+..+|...|
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~--P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~--~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD--PNNAELYADRAQANIKLGNFTEAVADANKAIELDPS--LAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC--CHHHHHHHHHHHHHhC
Confidence            344556677777777777664322  234555666666666677777777777776666433  5556666666677777


Q ss_pred             CHhHHHHHHHHhhhcCCc
Q 048799          135 CIFSALKLFEDISVERKN  152 (331)
Q Consensus       135 ~~~~A~~~~~~~~~~~~~  152 (331)
                      ++++|...|+++....|+
T Consensus        85 ~~~eA~~~~~~al~l~P~  102 (356)
T PLN03088         85 EYQTAKAALEKGASLAPG  102 (356)
T ss_pred             CHHHHHHHHHHHHHhCCC
Confidence            777777777766665554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=98.33  E-value=6.7e-06  Score=66.47  Aligned_cols=260  Identities=11%  Similarity=0.007  Sum_probs=123.7

Q ss_pred             HHHHcCCHHHHHHHHhhCCCCCc-------hhHHHHHHHHHhcCChhHHHHHHHHHH---hccC-CCCchHHHHHHHHHH
Q 048799           26 GLVKWGELEYARSLFEEMPCRNV-------VSWTGIIDGYTRMNRSNGALALFRRMV---ACEY-TEPSEITILAVFPAI   94 (331)
Q Consensus        26 ~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~-~~~~~~~~~~l~~~~   94 (331)
                      -+++.|+....+.+|+...+...       ..|..|.++|.-.+++++|++.-..=+   +.-| ..-...+...|.+.+
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtl  105 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTL  105 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchh
Confidence            36677777777777776653221       235555555656666666666432210   0000 011122333445555


Q ss_pred             hhcCchhHHHHHHhh----hhhcCCCcchhHHHHHHHHHHHhcCC--------------------HhHHHHHHHHhhhc-
Q 048799           95 WQNGDVRNCQLIHGY----GEKRGFNAFHIHVSNCLIDTYAKCGC--------------------IFSALKLFEDISVE-  149 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~----~~~~~~~~~~~~~~~~l~~~~~~~g~--------------------~~~A~~~~~~~~~~-  149 (331)
                      --.|.+++|.-...+    ..+.|.......++..|...|...|+                    ++.|.++|.+=.+. 
T Consensus       106 Kv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~  185 (639)
T KOG1130|consen  106 KVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELS  185 (639)
T ss_pred             hhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence            555666666554433    23333332234455556666655442                    12222333221111 


Q ss_pred             ------CCcHHHHHHHHHHHHccCChHHHHHHHHHH----HhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHh-
Q 048799          150 ------RKNLVSWTSIISGFAMHGMGKEAVENFERM----QKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEE-  217 (331)
Q Consensus       150 ------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m----~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  217 (331)
                            .....+|..|...|.-.|+++.|+..-+.-    .+.|-.. -...+..|..++.-.|+++.|.+.|+..... 
T Consensus       186 ~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LA  265 (639)
T KOG1130|consen  186 EKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLA  265 (639)
T ss_pred             HHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHH
Confidence                  011233445555555556666666543321    1222111 2234555666666666666666666553321 


Q ss_pred             --cCC-CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-------CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          218 --CEV-LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-------ITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       218 --~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                        .|- .....+..+|...|.-..++++|+.++.+-...       .-....+.+|..+|...|..++|+.+.+..++
T Consensus       266 ielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  266 IELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence              011 112334445555555555666665555442211       22345556666666666666666666666665

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.32  E-value=1.2e-06  Score=53.89  Aligned_cols=65  Identities=15%  Similarity=0.081  Sum_probs=48.2

Q ss_pred             cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhc-cCcchHHHHHHHhhc
Q 048799          256 NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVW-RYGDAERLRRVVDER  320 (331)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~  320 (331)
                      ++..|..+...+...|++++|+..|+++++.+|+++..+..++.++...| ++++|++.+++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            35567777777777777777777777777777777777777777777777 677777777776553

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.30  E-value=5.6e-05  Score=56.01  Aligned_cols=86  Identities=12%  Similarity=-0.058  Sum_probs=47.0

Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcc-hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHH
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAF-HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGF  163 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  163 (331)
                      .+..+...+...|++++|...|+++++....++ ....+..++.++.+.|++++|...++++....| +...+..+...+
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~  116 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            344455555556666666666666555433321 134555666666666666666666666655544 344455555555


Q ss_pred             HccCChHH
Q 048799          164 AMHGMGKE  171 (331)
Q Consensus       164 ~~~~~~~~  171 (331)
                      ...|+...
T Consensus       117 ~~~g~~~~  124 (172)
T PRK02603        117 HKRGEKAE  124 (172)
T ss_pred             HHcCChHh
Confidence            55555433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.28  E-value=0.00036  Score=54.64  Aligned_cols=182  Identities=10%  Similarity=0.029  Sum_probs=107.9

Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcH-HH---HHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHH
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDISVERKNL-VS---WTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVL  195 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~---~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~  195 (331)
                      ..........+...|++++|.+.|+++....|+. ..   .-.++.++.+.+++++|+..+++..+....-...-+...+
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~  111 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYM  111 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHH
Confidence            3333345666777888888888888887765543 22   2345567788888888888888887753222222233333


Q ss_pred             HHHhc--cC---------------C---hHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc
Q 048799          196 NACSH--GG---------------L---VEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT  255 (331)
Q Consensus       196 ~~~~~--~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  255 (331)
                      .+.+.  .+               +   ...|...|+.+++.   -|+.             .-..+|..-+..+...  
T Consensus       112 ~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~---yP~S-------------~ya~~A~~rl~~l~~~--  173 (243)
T PRK10866        112 RGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG---YPNS-------------QYTTDATKRLVFLKDR--  173 (243)
T ss_pred             HHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH---CcCC-------------hhHHHHHHHHHHHHHH--
Confidence            33221  11               1   23455566666654   2322             1133333333333221  


Q ss_pred             cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc---cHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          256 NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG---DYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      -...-..+..-|.+.|.+..|..-++.+++.-|+++.   ....+..+|...|..++|.+....+..
T Consensus       174 la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        174 LAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             HHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence            1111123556678888999999999999887776643   455677888889999988887776543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.28  E-value=3.4e-06  Score=51.17  Aligned_cols=61  Identities=16%  Similarity=0.131  Sum_probs=40.9

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          230 LIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      +...+.+.|++++|...|+.+....| +...+..+..++...|++++|...|+++++..|++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~   64 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDN   64 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            34556677777777777777776644 45666677777777777777777777777766665

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.28  E-value=0.00011  Score=54.47  Aligned_cols=88  Identities=13%  Similarity=0.020  Sum_probs=61.6

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc----HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN----LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSV  194 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  194 (331)
                      ....+..++..+...|++++|...|+++....|+    ...+..+...+.+.|++++|+..+++..... +-+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            5556777888888888888888888888755332    3567777888888888888888888877642 1234555566


Q ss_pred             HHHHhccCChHHH
Q 048799          195 LNACSHGGLVEEG  207 (331)
Q Consensus       195 ~~~~~~~~~~~~a  207 (331)
                      ...+...|+...+
T Consensus       113 g~~~~~~g~~~~a  125 (172)
T PRK02603        113 AVIYHKRGEKAEE  125 (172)
T ss_pred             HHHHHHcCChHhH
Confidence            6666666664333

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.27  E-value=3.3e-05  Score=57.03  Aligned_cols=62  Identities=6%  Similarity=-0.116  Sum_probs=26.3

Q ss_pred             HHHHHHHhhcCchhHHHHHHhhhhhcCCCcc-hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc
Q 048799           88 LAVFPAIWQNGDVRNCQLIHGYGEKRGFNAF-HIHVSNCLIDTYAKCGCIFSALKLFEDISVE  149 (331)
Q Consensus        88 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  149 (331)
                      ..+...+...|++++|...+++++.....+. ...++..+..++...|++++|+..++++...
T Consensus        39 ~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         39 YRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3333444444444444444444443322210 1223444444445555555555555444433

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.24  E-value=1.9e-06  Score=44.79  Aligned_cols=33  Identities=33%  Similarity=0.575  Sum_probs=25.6

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc
Q 048799           50 SWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS   83 (331)
Q Consensus        50 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   83 (331)
                      +||.++.+|++.|++++|.++|++| ...|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M-~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEM-LERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHH-HHcCCCCC
Confidence            6788888888888888888888888 56677776

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.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.24  E-value=7.6e-05  Score=64.85  Aligned_cols=140  Identities=12%  Similarity=0.018  Sum_probs=99.4

Q ss_pred             CcHHHHHHHHHHHH--ccC---ChHHHHHHHHHHHhccCCCCH-HHHHHHHHHHhcc--------CChHHHHHHHHHHHH
Q 048799          151 KNLVSWTSIISGFA--MHG---MGKEAVENFERMQKVVLKPNR-VTFLSVLNACSHG--------GLVEEGLKFFDKMVE  216 (331)
Q Consensus       151 ~~~~~~~~l~~~~~--~~~---~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~  216 (331)
                      .+..+|..++.+..  ..+   +.+.|+.+|++..+  ..|+- ..+..+..++...        .+...+.+...+...
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            46788888887643  322   37799999999988  45663 3344333333221        123344444444333


Q ss_pred             hcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc
Q 048799          217 ECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG  292 (331)
Q Consensus       217 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  292 (331)
                      ....+.+...|..+.-.....|++++|...++++....|+...|..+...+...|+.++|.+.++++.+++|.++.
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            2123345677877777777789999999999999988788889999999999999999999999999999998854

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

Probab=98.22  E-value=6.2e-05  Score=60.38  Aligned_cols=141  Identities=16%  Similarity=0.079  Sum_probs=89.4

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHH-HhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHH
Q 048799           49 VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPA-IWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLI  127 (331)
Q Consensus        49 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  127 (331)
                      .+|-.+++..-+.+..+.|..+|.+......  .+...|...... +...++.+.|..+|+...+.-..  +...|...+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~--~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~--~~~~~~~Y~   77 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKR--CTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPS--DPDFWLEYL   77 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC--S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT---HHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCC--CHHHHHHHH
Confidence            3567777777777778888888888742222  233444444443 23356666688888887776322  677777788


Q ss_pred             HHHHhcCCHhHHHHHHHHhhhcCCcH----HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHH
Q 048799          128 DTYAKCGCIFSALKLFEDISVERKNL----VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVL  195 (331)
Q Consensus       128 ~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~  195 (331)
                      +.+.+.|+.+.|..+|++....-+..    ..|...+..=.+.|+.+.+.++.+++.+.  .|+...+..++
T Consensus        78 ~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~  147 (280)
T PF05843_consen   78 DFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFS  147 (280)
T ss_dssp             HHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHH
Confidence            88888888888888888887663333    47888888777788888888888777663  34433333333

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.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.21  E-value=0.00059  Score=49.41  Aligned_cols=126  Identities=13%  Similarity=0.011  Sum_probs=76.2

Q ss_pred             CCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC---cHHHHH
Q 048799           81 EPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK---NLVSWT  157 (331)
Q Consensus        81 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~  157 (331)
                      .|+...-..|..++.+.|+..+|...|++....-.-. |......+.++....++...|...++.+-+.+|   ++.+..
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~-d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAH-DAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCC-CHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            4565556666677777777777777777766554444 666666667777777777777777776655433   234445


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHH
Q 048799          158 SIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLK  209 (331)
Q Consensus       158 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  209 (331)
                      .+...+...|.+.+|..-|+.....  -|+...-......+.++|+.+++..
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHH
Confidence            5566666777777777777776663  3444333333333455565554443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.19  E-value=9.5e-05  Score=54.56  Aligned_cols=63  Identities=13%  Similarity=0.192  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHhccCCC--CHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 048799          154 VSWTSIISGFAMHGMGKEAVENFERMQKVVLKP--NRVTFLSVLNACSHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       154 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  216 (331)
                      ..|..+...+...|++++|+..|++.......|  ...++..+...+...|++++|...+++..+
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344455555555566666666665554432111  123445555555555555555555555553

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.18  E-value=7.8e-06  Score=50.24  Aligned_cols=66  Identities=17%  Similarity=0.043  Sum_probs=50.6

Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCC-chhHHHHHHHHHHHhhc
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHG-NVEMGERVTRKILEMER  288 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~  288 (331)
                      +...|..+...+...|++++|...|.++....| +...|..+..++...| ++++|++.++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            455677777778888888888888888777733 5677777888888888 68888888888887766

...

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.17  E-value=4.8e-06  Score=42.93  Aligned_cols=33  Identities=36%  Similarity=0.670  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC
Q 048799          189 VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP  222 (331)
Q Consensus       189 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  222 (331)
                      .+|+.++.+|++.|+++.|.++|+.|.+. |++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~-gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQ-GVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCC
Confidence            58999999999999999999999999988 8887

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

Probab=98.16  E-value=5.7e-05  Score=49.71  Aligned_cols=79  Identities=10%  Similarity=0.160  Sum_probs=61.2

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhccC-CCCHHHHHHHHHHHhccC--------ChHHHHHHHHHHHHhcCCCCcHhhH
Q 048799          157 TSIISGFAMHGMGKEAVENFERMQKVVL-KPNRVTFLSVLNACSHGG--------LVEEGLKFFDKMVEECEVLPDIKHY  227 (331)
Q Consensus       157 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~  227 (331)
                      ...|..+...+++.....+|+.++..|+ .|+..+|+.++.+.++..        ++-..+.+|+.|... +++|+..+|
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~etY  107 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDETY  107 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHHHH
Confidence            3445556666888888888988888888 888888988888876543        244567788888887 888888888


Q ss_pred             HHHHHHHHh
Q 048799          228 GCLIDMLGR  236 (331)
Q Consensus       228 ~~l~~~~~~  236 (331)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            888877754

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 [, , ].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.15  E-value=3.5e-05  Score=60.11  Aligned_cols=107  Identities=13%  Similarity=0.008  Sum_probs=74.2

Q ss_pred             CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcC---CchhHHHHHHHHHHHhhcCCCccHHH
Q 048799          221 LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFH---GNVEMGERVTRKILEMERGYGGDYVL  296 (331)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~~~~~~~~~~  296 (331)
                      +-|...|-.|...|...|+...|..-|.++... .+++..+..+..++..+   ....++..+++++++.+|.++.....
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            336777777777777777777777777777766 45566666666554322   23456777777777777777777777


Q ss_pred             HHHHHhhhccCcchHHHHHHHhhccccCCCC
Q 048799          297 MYNILAGVWRYGDAERLRRVVDERNALKFPG  327 (331)
Q Consensus       297 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  327 (331)
                      |+..+...|++.+|...++.|.+......|.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~~r  263 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADDPR  263 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCCch
Confidence            7777777777777777777777765544443

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

Probab=98.14  E-value=1.6e-05  Score=48.72  Aligned_cols=59  Identities=17%  Similarity=0.147  Sum_probs=34.9

Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHH
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSW  156 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  156 (331)
                      ..|++++|+++|+++.+..+.  +..++..++.+|.+.|++++|..+++++....|+...|
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~--~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~   61 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPD--NPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEY   61 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTT--SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHH
T ss_pred             hccCHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHH
Confidence            456666666666666665443  55555566666666666666666666666555553333

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.12  E-value=0.00028  Score=61.44  Aligned_cols=67  Identities=12%  Similarity=-0.017  Sum_probs=39.2

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc
Q 048799          187 NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN  256 (331)
Q Consensus       187 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  256 (331)
                      +...|..+.......|++++|...++++.+.   .|+...|..+...+...|+.++|...++++....|.
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L---~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~  485 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDL---EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPG  485 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            3345555544444556666666666666643   345566666666666666666666666666555343

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=98.12  E-value=0.00018  Score=58.53  Aligned_cols=262  Identities=12%  Similarity=-0.013  Sum_probs=162.7

Q ss_pred             HHHhcCChhHHHHHHHHHHhccCCCCc----hHHHHHHHHHHhhcCchhHHHHHHhhh----hhcCCCcchhHHHHHHHH
Q 048799           57 GYTRMNRSNGALALFRRMVACEYTEPS----EITILAVFPAIWQNGDVRNCQLIHGYG----EKRGFNAFHIHVSNCLID  128 (331)
Q Consensus        57 ~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~~l~~  128 (331)
                      -+++.|+....+.+|+..+. -|. .|    +.+|..|.++|.-.+++++|+++...=    ...|...-.......|.+
T Consensus        26 RLck~gdcraGv~ff~aA~q-vGT-eDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQ-VGT-EDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHhccchhhhHHHHHHHHH-hcc-hHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            37888888888888888843 332 22    345677778888888888888865421    111211113334456777


Q ss_pred             HHHhcCCHhHHHHHHHHhhhc-------CCcHHHHHHHHHHHHccC--------------------ChHHHHHHHHHHH-
Q 048799          129 TYAKCGCIFSALKLFEDISVE-------RKNLVSWTSIISGFAMHG--------------------MGKEAVENFERMQ-  180 (331)
Q Consensus       129 ~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~~~l~~~~~~~~--------------------~~~~a~~~~~~m~-  180 (331)
                      .+--.|.+++|.-...+-...       -....++..+...|...|                    .++.|.++|.+-. 
T Consensus       104 tlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~  183 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLE  183 (639)
T ss_pred             hhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHH
Confidence            777778888877654332221       123345555666665444                    1334455554322 


Q ss_pred             ---hccCC-CCHHHHHHHHHHHhccCChHHHHHHHHHHH---HhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhccc
Q 048799          181 ---KVVLK-PNRVTFLSVLNACSHGGLVEEGLKFFDKMV---EECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPS  252 (331)
Q Consensus       181 ---~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  252 (331)
                         +.|-. .--..|..|...|.-.|+++.|+...+.-.   +.+|-.. .-..+..+..++.-.|+++.|.+.|+....
T Consensus       184 l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~  263 (639)
T KOG1130|consen  184 LSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLN  263 (639)
T ss_pred             HHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHH
Confidence               11211 123467788888888888888887665432   2234333 335677788888888888888888776433


Q ss_pred             C-------CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHh----h--cCCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          253 E-------ITNVVVWRTLLGACSFHGNVEMGERVTRKILEM----E--RGYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       253 ~-------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      .       .......-+|.+.|.-..++++|+.++.+-+.+    +  ......+..|+.++...|..++|+.+.+.-.+
T Consensus       264 LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  264 LAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            3       334556667888888888888888887776542    2  22335677888888888888888877766544


Q ss_pred             c
Q 048799          320 R  320 (331)
Q Consensus       320 ~  320 (331)
                      .
T Consensus       344 ~  344 (639)
T KOG1130|consen  344 S  344 (639)
T ss_pred             H
Confidence            3

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.10  E-value=0.0026  Score=49.87  Aligned_cols=53  Identities=6%  Similarity=0.006  Sum_probs=25.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcccCCc----cHHHHHHHHHHHhcCCchhHHHHHHHH
Q 048799          230 LIDMLGRAGRLEQAEKVASGIPSEIT----NVVVWRTLLGACSFHGNVEMGERVTRK  282 (331)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (331)
                      +...|.+.|.+..|..=++.+.+..|    .......++.+|...|..++|.+....
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~  237 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKI  237 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            34445555555555555555544422    223444455555555555555554443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=98.10  E-value=0.00046  Score=52.58  Aligned_cols=168  Identities=13%  Similarity=0.050  Sum_probs=80.5

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHhhhcCCc----HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHh-
Q 048799          125 CLIDTYAKCGCIFSALKLFEDISVERKN----LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACS-  199 (331)
Q Consensus       125 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~-  199 (331)
                      ..+..+...|++.+|...|+.+...-|+    ..+...++.++.+.|+++.|...+++.++.-......-+...+.+.+ 
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~   89 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSY   89 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHH
Confidence            4455555666666666666666554221    23344455566666666666666666555321111111111111111 


Q ss_pred             ------------ccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHH
Q 048799          200 ------------HGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGAC  267 (331)
Q Consensus       200 ------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~  267 (331)
                                  ..+...+|...|+.+++.                |=......+|.+.+..+...  -...-..+..-|
T Consensus        90 ~~~~~~~~~~~~D~~~~~~A~~~~~~li~~----------------yP~S~y~~~A~~~l~~l~~~--la~~e~~ia~~Y  151 (203)
T PF13525_consen   90 YKQIPGILRSDRDQTSTRKAIEEFEELIKR----------------YPNSEYAEEAKKRLAELRNR--LAEHELYIARFY  151 (203)
T ss_dssp             HHHHHHHH-TT---HHHHHHHHHHHHHHHH-----------------TTSTTHHHHHHHHHHHHHH--HHHHHHHHHHHH
T ss_pred             HHhCccchhcccChHHHHHHHHHHHHHHHH----------------CcCchHHHHHHHHHHHHHHH--HHHHHHHHHHHH
Confidence                        112233444445544443                22223334444443333322  111112245667


Q ss_pred             hcCCchhHHHHHHHHHHHhhcCCCc---cHHHHHHHHhhhccCcch
Q 048799          268 SFHGNVEMGERVTRKILEMERGYGG---DYVLMYNILAGVWRYGDA  310 (331)
Q Consensus       268 ~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~a  310 (331)
                      .+.|.+..|..-++.+++.-|+++.   ....++.++.+.|..+.+
T Consensus       152 ~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  152 YKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            7888888888888888887777643   345566777777776633

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

Probab=98.08  E-value=5.3e-06  Score=41.74  Aligned_cols=29  Identities=34%  Similarity=0.568  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 048799          155 SWTSIISGFAMHGMGKEAVENFERMQKVV  183 (331)
Q Consensus       155 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  183 (331)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            46666666666666666666666666554

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.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.07  E-value=3e-05  Score=46.96  Aligned_cols=55  Identities=18%  Similarity=0.081  Sum_probs=24.1

Q ss_pred             HHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc
Q 048799           93 AIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE  149 (331)
Q Consensus        93 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  149 (331)
                      .+...|++++|...|+++++..+.  +..++..+..++...|++++|...|+++.+.
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~P~--~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQDPD--NPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCSTT--HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            334444444444444444444322  4444444444444444444444444444433

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.06  E-value=9.6e-05  Score=57.51  Aligned_cols=97  Identities=15%  Similarity=0.103  Sum_probs=67.2

Q ss_pred             HHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHH
Q 048799           93 AIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKE  171 (331)
Q Consensus        93 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  171 (331)
                      -+.+.+++.+|+..|.++++..+.  +...|..-..+|.+.|.++.|.+-.+......| ...+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P~--nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDPT--NAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCC--cchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            345667777777777777776433  667777777777777777777777777766655 35677777777777777777


Q ss_pred             HHHHHHHHHhccCCCCHHHHHH
Q 048799          172 AVENFERMQKVVLKPNRVTFLS  193 (331)
Q Consensus       172 a~~~~~~m~~~~~~p~~~~~~~  193 (331)
                      |++.|++.+.  +.|+-.+|-.
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~  187 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKS  187 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHH
Confidence            7777777666  5566655543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=98.04  E-value=0.0019  Score=49.27  Aligned_cols=173  Identities=14%  Similarity=0.085  Sum_probs=73.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhccCCCC-chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcch-hHHHHHHHHHHH
Q 048799           54 IIDGYTRMNRSNGALALFRRMVACEYTEP-SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFH-IHVSNCLIDTYA  131 (331)
Q Consensus        54 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~  131 (331)
                      ....+...|++.+|...|+++.....-.| .......++.++.+.|+++.|...+++.++.-+..+. ..++..++.++.
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~   90 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHH
Confidence            34445566666666666666633221111 1223444555666666666666666666554333211 111111111111


Q ss_pred             hc-----------CCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhc
Q 048799          132 KC-----------GCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSH  200 (331)
Q Consensus       132 ~~-----------g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  200 (331)
                      ..           +...+|..             .+..++.-|=.+.-..+|...+..+...   .-.. -..+...|.+
T Consensus        91 ~~~~~~~~~~~D~~~~~~A~~-------------~~~~li~~yP~S~y~~~A~~~l~~l~~~---la~~-e~~ia~~Y~~  153 (203)
T PF13525_consen   91 KQIPGILRSDRDQTSTRKAIE-------------EFEELIKRYPNSEYAEEAKKRLAELRNR---LAEH-ELYIARFYYK  153 (203)
T ss_dssp             HHHHHHH-TT---HHHHHHHH-------------HHHHHHHH-TTSTTHHHHHHHHHHHHHH---HHHH-HHHHHHHHHC
T ss_pred             HhCccchhcccChHHHHHHHH-------------HHHHHHHHCcCchHHHHHHHHHHHHHHH---HHHH-HHHHHHHHHH
Confidence            11           00111222             2333333333444444444444333221   0011 1124555667


Q ss_pred             cCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHH
Q 048799          201 GGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQA  243 (331)
Q Consensus       201 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A  243 (331)
                      .|.+..|..-++.+++.+.-.+ .......++.+|.+.|..+.|
T Consensus       154 ~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  154 RGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             TT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             cccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            7777777777777766522221 123445556666666666543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.04  E-value=0.00039  Score=47.48  Aligned_cols=93  Identities=17%  Similarity=0.121  Sum_probs=50.8

Q ss_pred             HHHHHHccCChHHHHHHHHHHHhccCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHH
Q 048799          159 IISGFAMHGMGKEAVENFERMQKVVLKPN--RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLG  235 (331)
Q Consensus       159 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~  235 (331)
                      +..++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..++++....+.-.+ +......+.-++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            34455566677777777776666654433  23444555666666777777777766665411100 1222222334556


Q ss_pred             hcCCHHHHHHHHhhcc
Q 048799          236 RAGRLEQAEKVASGIP  251 (331)
Q Consensus       236 ~~g~~~~A~~~~~~~~  251 (331)
                      ..|+.++|..++-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            6667666666665444

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=98.02  E-value=0.0049  Score=50.19  Aligned_cols=283  Identities=14%  Similarity=0.132  Sum_probs=186.9

Q ss_pred             HHHHHHHHHH--HcCCHHHHHHHHhhCC---CCCchhHHHHHHH--HHhcCChhHHHHHHHHHHhccCCCCchHHHH---
Q 048799           19 TWNVMITGLV--KWGELEYARSLFEEMP---CRNVVSWTGIIDG--YTRMNRSNGALALFRRMVACEYTEPSEITIL---   88 (331)
Q Consensus        19 ~~~~l~~~~~--~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---   88 (331)
                      .|..|-.++.  -.|+-..|.++-.+..   ..|....-.|+.+  -.-.|+++.|.+-|+.|.      .|+.|-.   
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl------~dPEtRllGL  157 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAML------DDPETRLLGL  157 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHh------cChHHHHHhH
Confidence            4666655543  4688888888877654   3455555555544  345799999999999993      2333333   


Q ss_pred             -HHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc---CCcHH--HHHHHHHH
Q 048799           89 -AVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE---RKNLV--SWTSIISG  162 (331)
Q Consensus        89 -~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~--~~~~l~~~  162 (331)
                       .|.-..-+.|+.+.|.++-+..-...+.  -...+..++...+..|+|+.|+++.+.-...   .++..  .-..|+.+
T Consensus       158 RgLyleAqr~GareaAr~yAe~Aa~~Ap~--l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtA  235 (531)
T COG3898         158 RGLYLEAQRLGAREAARHYAERAAEKAPQ--LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTA  235 (531)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhhccC--CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHH
Confidence             3333445789999999998888777554  5678889999999999999999999876544   33322  12223322


Q ss_pred             H---HccCChHHHHHHHHHHHhccCCCCHHH-HHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC
Q 048799          163 F---AMHGMGKEAVENFERMQKVVLKPNRVT-FLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG  238 (331)
Q Consensus       163 ~---~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  238 (331)
                      -   .-..+...|...-.+..+  +.|+..- -..-..++.+.|+..++-.+++.+.+.   .|.+.++...+  +.+.|
T Consensus       236 kA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~lY~--~ar~g  308 (531)
T COG3898         236 KAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIALLYV--RARSG  308 (531)
T ss_pred             HHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHHHHH--HhcCC
Confidence            1   123356677766655544  5565432 223456688899999999999999875   55555544333  45556


Q ss_pred             CHHHH--H--HHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh-hccCcchHHH
Q 048799          239 RLEQA--E--KVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG-VWRYGDAERL  313 (331)
Q Consensus       239 ~~~~A--~--~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a~~~  313 (331)
                      +....  .  +-+..|..  .+......+..+-...|++..|..-.+.+....|.. ..|..+...-.. .|+-+++...
T Consensus       309 dta~dRlkRa~~L~slk~--nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pre-s~~lLlAdIeeAetGDqg~vR~w  385 (531)
T COG3898         309 DTALDRLKRAKKLESLKP--NNAESSLAVAEAALDAGEFSAARAKAEAAAREAPRE-SAYLLLADIEEAETGDQGKVRQW  385 (531)
T ss_pred             CcHHHHHHHHHHHHhcCc--cchHHHHHHHHHHHhccchHHHHHHHHHHhhhCchh-hHHHHHHHHHhhccCchHHHHHH
Confidence            54322  1  12333333  256777777888888999999988888888877876 777777776654 4888888777


Q ss_pred             HHHHhh
Q 048799          314 RRVVDE  319 (331)
Q Consensus       314 ~~~~~~  319 (331)
                      +.+-.+
T Consensus       386 lAqav~  391 (531)
T COG3898         386 LAQAVK  391 (531)
T ss_pred             HHHHhc
Confidence            766544

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

Probab=98.00  E-value=0.00016  Score=60.59  Aligned_cols=116  Identities=14%  Similarity=0.038  Sum_probs=54.3

Q ss_pred             CchHHHHHHHHHHhhcCchhHHHHHHhhhhhcC--CCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc--CCcHHHHH
Q 048799           82 PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRG--FNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE--RKNLVSWT  157 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~  157 (331)
                      .+......+++.+....+++.+..++.+.....  ... -+.+..++++.|.+.|..++++.++..=...  -||..++|
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~-~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYL-LPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccc-cCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            344444445555555555555555555444331  111 1223335555555555555555555433222  24555555


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Q 048799          158 SIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNAC  198 (331)
Q Consensus       158 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  198 (331)
                      .++..+.+.|++..|.++...|...+...+..|+..-+.+|
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~  183 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSC  183 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHH
Confidence            55555555555555555555554444444444444333333

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 [].

>PRK15331 chaperone protein SicA; Provisional

Probab=97.97  E-value=7.4e-05  Score=53.20  Aligned_cols=84  Identities=12%  Similarity=0.027  Sum_probs=40.3

Q ss_pred             HhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHH
Q 048799          235 GRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERL  313 (331)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  313 (331)
                      ...|++++|..+|+-+... .-+..-|..|..++...+++++|+..|..+..+.++++..+...+..+...|+.+.|...
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~~~  127 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKARQC  127 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHHHHH
Confidence            3445555555555444332 223334444444444455555555555555544444444455555555555555555555


Q ss_pred             HHHHh
Q 048799          314 RRVVD  318 (331)
Q Consensus       314 ~~~~~  318 (331)
                      |+...
T Consensus       128 f~~a~  132 (165)
T PRK15331        128 FELVN  132 (165)
T ss_pred             HHHHH
Confidence            44443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.97  E-value=0.012  Score=52.90  Aligned_cols=222  Identities=11%  Similarity=0.079  Sum_probs=135.9

Q ss_pred             HHcCCHHHHHHHHhhCCC--CCchhHHHHHHH--HHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHH
Q 048799           28 VKWGELEYARSLFEEMPC--RNVVSWTGIIDG--YTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNC  103 (331)
Q Consensus        28 ~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  103 (331)
                      ...+++..|..-..++.+  ||.. |...+.+  +.+.|+.++|..+++.. ...+. .|..|...+-.+|...++.++|
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~-~~~~~-~D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPNAL-YAKVLKALSLFRLGKGDEALKLLEAL-YGLKG-TDDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcH-HHHHHHHHHHHHhcCchhHHHHHhhh-ccCCC-CchHHHHHHHHHHHHHhhhhHH
Confidence            356777778777777653  4432 3333333  57889999999888876 43332 3777888888899999999999


Q ss_pred             HHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHcc-CC---------hHHH
Q 048799          104 QLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMH-GM---------GKEA  172 (331)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~-~~---------~~~a  172 (331)
                      ..+|+++.+..  | +......+..+|.+.+.+.+-.+.--++-+.-| +...+=.+++...+. ..         ..-|
T Consensus        97 ~~~Ye~~~~~~--P-~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   97 VHLYERANQKY--P-SEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHHhhC--C-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            99999988874  4 455566777888888877655544444433333 333322333333221 11         1234


Q ss_pred             HHHHHHHHhcc-CCCCHHHHHHHHHHHhccCChHHHHHHHHH-HHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhc
Q 048799          173 VENFERMQKVV-LKPNRVTFLSVLNACSHGGLVEEGLKFFDK-MVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGI  250 (331)
Q Consensus       173 ~~~~~~m~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (331)
                      .+.++.+.+.+ ..-+..-...-...+...|++++|.+++.. ..+. -..-+...-+.-+..+...+++.+..++-.++
T Consensus       174 ~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~-l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  174 EKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEK-LTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHh-ccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            44555555443 111222222223344567889999998843 3332 33334555556677888889998888888887


Q ss_pred             ccCCcc
Q 048799          251 PSEITN  256 (331)
Q Consensus       251 ~~~~p~  256 (331)
                      ....+|
T Consensus       253 l~k~~D  258 (932)
T KOG2053|consen  253 LEKGND  258 (932)
T ss_pred             HHhCCc
Confidence            776444

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

Probab=97.94  E-value=0.0095  Score=50.63  Aligned_cols=185  Identities=8%  Similarity=0.011  Sum_probs=133.0

Q ss_pred             hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcC---CHhHHHHHHHHhhhcC--CcHHHHHHHHHHHHccCChHHHHH
Q 048799          100 VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCG---CIFSALKLFEDISVER--KNLVSWTSIISGFAMHGMGKEAVE  174 (331)
Q Consensus       100 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~  174 (331)
                      .+++..+++..+..-... +..+|..+...--..-   ..+.....++++....  .-..+|-.++..-.+..-.+.|..
T Consensus       309 t~e~~~~yEr~I~~l~~~-~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~  387 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKE-NKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARK  387 (656)
T ss_pred             HHHHHHHHHHHHHHHHHH-HHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHH
Confidence            345556666655543333 4444444333222222   2556666777665542  223567778888888888999999


Q ss_pred             HHHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          175 NFERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       175 ~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      +|.++.+.+..+ .....++++..+| .++.+-|.++|+.=.+.+|-  ++.--...++-+...|+-..|..+|++....
T Consensus       388 iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf~d--~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s  464 (656)
T KOG1914|consen  388 IFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKFGD--SPEYVLKYLDFLSHLNDDNNARALFERVLTS  464 (656)
T ss_pred             HHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhcCC--ChHHHHHHHHHHHHhCcchhHHHHHHHHHhc
Confidence            999999988777 6778888888776 58899999999987775333  3444566778888999999999999998877


Q ss_pred             --Cc--cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhc
Q 048799          254 --IT--NVVVWRTLLGACSFHGNVEMGERVTRKILEMER  288 (331)
Q Consensus       254 --~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  288 (331)
                        .|  ....|..++.--..-|+...+.++-++....-|
T Consensus       465 ~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~  503 (656)
T KOG1914|consen  465 VLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFP  503 (656)
T ss_pred             cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcc
Confidence              33  358899999999999999999999888877555

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.94  E-value=0.001  Score=45.47  Aligned_cols=88  Identities=18%  Similarity=0.025  Sum_probs=40.5

Q ss_pred             HHhhcCchhHHHHHHhhhhhcCCCcch-hHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc---H-HHHHHHHHHHHccC
Q 048799           93 AIWQNGDVRNCQLIHGYGEKRGFNAFH-IHVSNCLIDTYAKCGCIFSALKLFEDISVERKN---L-VSWTSIISGFAMHG  167 (331)
Q Consensus        93 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~-~~~~~l~~~~~~~~  167 (331)
                      ++-..|+.++|+.+|++.+..|....+ ...+..+...+...|++++|..++++.....|+   . .....+.-++...|
T Consensus        10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~g   89 (120)
T PF12688_consen   10 AHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNLG   89 (120)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHCC
Confidence            334445555555555555554443211 223444555555555555555555555444332   1 11111222444555


Q ss_pred             ChHHHHHHHHHHH
Q 048799          168 MGKEAVENFERMQ  180 (331)
Q Consensus       168 ~~~~a~~~~~~m~  180 (331)
                      +.++|++.+-...
T Consensus        90 r~~eAl~~~l~~l  102 (120)
T PF12688_consen   90 RPKEALEWLLEAL  102 (120)
T ss_pred             CHHHHHHHHHHHH
Confidence            5555555554433

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.94  E-value=2.6e-05  Score=48.53  Aligned_cols=55  Identities=16%  Similarity=0.032  Sum_probs=30.3

Q ss_pred             HHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          266 ACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       266 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      .|.+.+++++|.++++.+++.+|+++..+...+.++...|++++|...++...+.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            3445555555555555555555555555555555555555555555555555443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.93  E-value=0.002  Score=49.49  Aligned_cols=134  Identities=9%  Similarity=-0.006  Sum_probs=94.1

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHH-----
Q 048799          156 WTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCL-----  230 (331)
Q Consensus       156 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-----  230 (331)
                      .+.++..+.-.|.+.-...++++.++...+.++.....|++.-.+.|+.+.|...|+...+. .-+.+....+.+     
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~-~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHhhh
Confidence            44556666667788888888888888666667777788888888889999998888877665 333344333333     


Q ss_pred             HHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          231 IDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      ...|.-.+++..|...+.++... ..++...|.-.-+..-.|+..+|.+..+.+.+..|..
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~  319 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRH  319 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence            33456677888888888887776 3345555554445555688888888888888877764

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.93  E-value=0.0017  Score=53.02  Aligned_cols=273  Identities=12%  Similarity=-0.030  Sum_probs=158.6

Q ss_pred             HHHHHHHHHcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhc
Q 048799           21 NVMITGLVKWGELEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQN   97 (331)
Q Consensus        21 ~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   97 (331)
                      ......+.+..++..|+..+....+   .++.-|..-+..+...|++++|+--.+.-++...  -.+....-.-+++...
T Consensus        53 k~~gn~~yk~k~Y~nal~~yt~Ai~~~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd--~~~k~~~r~~~c~~a~  130 (486)
T KOG0550|consen   53 KEEGNAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRFEEALGDARQSVRLKD--GFSKGQLREGQCHLAL  130 (486)
T ss_pred             HhhcchHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhHhhcccchhhheecCC--Cccccccchhhhhhhh
Confidence            3445566677778888887776552   3445566666667777777777766654422111  1112233333333333


Q ss_pred             CchhHHHHHHh---------------hhhhcCCCcchhHHHHHH-HHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHH
Q 048799           98 GDVRNCQLIHG---------------YGEKRGFNAFHIHVSNCL-IDTYAKCGCIFSALKLFEDISVERK-NLVSWTSII  160 (331)
Q Consensus        98 ~~~~~a~~~~~---------------~~~~~~~~~~~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~  160 (331)
                      ++..+|.+.++               ........++.-..+-.| ..++.-.|++++|...--.+.+.++ +....-.-.
T Consensus       131 ~~~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~n~~al~vrg  210 (486)
T KOG0550|consen  131 SDLIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDATNAEALYVRG  210 (486)
T ss_pred             HHHHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccchhHHHHhcc
Confidence            33333333222               222221111122222222 4567778899988888776665543 333222222


Q ss_pred             HHHHccCChHHHHHHHHHHHhccCCCCHHHHHHH-------------HHHHhccCChHHHHHHHHHHHHh--cCCCCcHh
Q 048799          161 SGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSV-------------LNACSHGGLVEEGLKFFDKMVEE--CEVLPDIK  225 (331)
Q Consensus       161 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-------------~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~  225 (331)
                      .++...++.+.+...|++.+..  .|+...-...             .+-..+.|++..|.+.|.+.+..  .+..|+..
T Consensus       211 ~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~nak  288 (486)
T KOG0550|consen  211 LCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAK  288 (486)
T ss_pred             cccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHH
Confidence            3455678889999999888774  3654332211             12344778899999999888742  02333455


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcccCCccH---HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHH
Q 048799          226 HYGCLIDMLGRAGRLEQAEKVASGIPSEITNV---VVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      .|........+.|+..+|+.-.+.+...  |+   ..+..-..++...+++++|.+-++++.+...+ ......+..+
T Consensus       289 lY~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra~c~l~le~~e~AV~d~~~a~q~~~s-~e~r~~l~~A  363 (486)
T KOG0550|consen  289 LYGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQLEKD-CEIRRTLREA  363 (486)
T ss_pred             HHHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc-cchHHHHHHH
Confidence            6666666778889999999988888876  43   33333345666778999999999998886554 3444444443

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

Probab=97.92  E-value=0.00014  Score=60.88  Aligned_cols=118  Identities=8%  Similarity=0.021  Sum_probs=96.6

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC----CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVER----KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSV  194 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  194 (331)
                      +......+++......+++.+..++.+....+    .-..+..+++..|.+.|..+.++.+++.=...|+=||..|++.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            55566777888888888999999988886552    12345669999999999999999999988889999999999999


Q ss_pred             HHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhc
Q 048799          195 LNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRA  237 (331)
Q Consensus       195 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  237 (331)
                      +..+.+.|++..|.++...|..+ ....+..++..-+.+|.+.
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQ-e~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQ-EEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHh-hccCCchHHHHHHHHHHHh
Confidence            99999999999999999998877 6666777766666666554

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 [].

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

Probab=97.91  E-value=8.5e-05  Score=45.38  Aligned_cols=60  Identities=12%  Similarity=0.187  Sum_probs=36.5

Q ss_pred             ccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHH
Q 048799          200 HGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWR  261 (331)
Q Consensus       200 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  261 (331)
                      ..|++++|.++|+++.+.  .+-+...+..++.+|.+.|++++|.++++++....|+...|.
T Consensus         3 ~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~   62 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQ   62 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHH
T ss_pred             hccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHH
Confidence            456677777777776654  222556666666777777777777777777666655533333

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.90  E-value=0.00027  Score=55.79  Aligned_cols=102  Identities=8%  Similarity=0.055  Sum_probs=69.5

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc----cHHHHHHHH
Q 048799          190 TFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT----NVVVWRTLL  264 (331)
Q Consensus       190 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~l~  264 (331)
                      .|...+..+.+.|++++|...|+.+.+.+.-.+ ....+..+...|...|++++|...|+.+....|    ....+..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            455444444556788888888888876521111 124666777778888888888888888776533    245566666


Q ss_pred             HHHhcCCchhHHHHHHHHHHHhhcCCC
Q 048799          265 GACSFHGNVEMGERVTRKILEMERGYG  291 (331)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~~~~~~~~~~  291 (331)
                      .++...|+.+.|.+.|+.+++..|++.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            777788888888888888888777753

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.85  E-value=0.00048  Score=53.95  Aligned_cols=101  Identities=10%  Similarity=-0.040  Sum_probs=76.3

Q ss_pred             CCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcC---CHhHHHHHHHHhhhcCC-cHHHH
Q 048799           81 EPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCG---CIFSALKLFEDISVERK-NLVSW  156 (331)
Q Consensus        81 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~-~~~~~  156 (331)
                      +-|...|-.|..+|...|+.+.|...|....+...+  ++..+..+..++....   ...++..+|+++...+| ++.+.
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 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD--NPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            456778888888888888888888888888877544  6777777777765543   35677888888887766 56666


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhcc
Q 048799          157 TSIISGFAMHGMGKEAVENFERMQKVV  183 (331)
Q Consensus       157 ~~l~~~~~~~~~~~~a~~~~~~m~~~~  183 (331)
                      ..+...+...|++.+|...++.|.+..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            667777888888888888888888753

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.85  E-value=0.011  Score=48.34  Aligned_cols=107  Identities=17%  Similarity=0.198  Sum_probs=73.5

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhc
Q 048799          190 TFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSF  269 (331)
Q Consensus       190 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~  269 (331)
                      +.+..+.-+...|+...|.++-.+.    .+ |+-..|..-+.+|+..+++++-.++...  .  .++..|..++.+|.+
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~F----kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s--k--KsPIGyepFv~~~~~  249 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEF----KV-PDKRFWWLKIKALAENKDWDELEKFAKS--K--KSPIGYEPFVEACLK  249 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHc----CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC--C--CCCCChHHHHHHHHH
Confidence            4444555566677777666654433    33 6777888888888888888887776543  2  245677888888888


Q ss_pred             CCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHH
Q 048799          270 HGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLR  314 (331)
Q Consensus       270 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  314 (331)
                      .|+..+|..+..++        . +..-+..|.++|.+.+|.+.-
T Consensus       250 ~~~~~eA~~yI~k~--------~-~~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  250 YGNKKEASKYIPKI--------P-DEERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             CCCHHHHHHHHHhC--------C-hHHHHHHHHHCCCHHHHHHHH
Confidence            88888888777762        1 255666777777777776553

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

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.83  E-value=0.00013  Score=57.58  Aligned_cols=98  Identities=9%  Similarity=-0.022  Sum_probs=79.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc----HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCC---ccHHHH
Q 048799          225 KHYGCLIDMLGRAGRLEQAEKVASGIPSEITN----VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYG---GDYVLM  297 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l  297 (331)
                      ..|..-...+.+.|++++|...|+.+....|+    +..+..+..+|...|++++|...|+.+.+..|+++   ..+..+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            34555555556789999999999999888554    35777889999999999999999999999878754   455667


Q ss_pred             HHHHhhhccCcchHHHHHHHhhccc
Q 048799          298 YNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       298 ~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      +.++...|+.++|...++.+.+...
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~yP  248 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKKYP  248 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            8889999999999999999877543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.81  E-value=0.014  Score=48.59  Aligned_cols=69  Identities=16%  Similarity=0.300  Sum_probs=54.6

Q ss_pred             HHhhhcC--CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCc---hhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048799            7 KLFDELP--ERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNV---VSWTGIIDGYTRMNRSNGALALFRRMV   75 (331)
Q Consensus         7 ~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~   75 (331)
                      ++=+++.  +.|+.+|-.|+.-+...|.+++..+++++|..|-+   .+|..-+.+-...+++..+..+|.+.+
T Consensus        30 rLRerIkdNPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL  103 (660)
T COG5107          30 RLRERIKDNPTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCL  103 (660)
T ss_pred             HHHHHhhcCchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHH
Confidence            4445555  34788999999999999999999999999997754   467777777667778888888887773

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

Probab=97.80  E-value=3.4e-05  Score=38.69  Aligned_cols=28  Identities=36%  Similarity=0.558  Sum_probs=22.9

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          190 TFLSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       190 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      ||+.++++|++.|++++|.++|++|.+.
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~   29 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRER   29 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHC
Confidence            6788888888888888888888888765

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.

>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=97.80  E-value=0.00052  Score=51.20  Aligned_cols=99  Identities=17%  Similarity=0.330  Sum_probs=68.6

Q ss_pred             HHHHHHhhhcCCcHHHHHHHHHHHHc-----cCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhcc-------------
Q 048799          140 LKLFEDISVERKNLVSWTSIISGFAM-----HGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHG-------------  201 (331)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-------------  201 (331)
                      ...|+.......+-.+|..++..|.+     .|..+=....++.|.+.|+.-|..+|+.|++.+=+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            34455444445566677777776653     356666667778888888888888888888766532             


Q ss_pred             ---CChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC
Q 048799          202 ---GLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR  239 (331)
Q Consensus       202 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (331)
                         .+-+-|++++++|... |+-||..++..+++.+.+.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~~-gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENN-GVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHhccccH
Confidence               2235678888888777 888888888888888866554

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

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.77  E-value=0.0045  Score=47.64  Aligned_cols=126  Identities=12%  Similarity=-0.031  Sum_probs=58.4

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC--CccH-----HHHHHHHHH
Q 048799          194 VLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE--ITNV-----VVWRTLLGA  266 (331)
Q Consensus       194 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~-----~~~~~l~~~  266 (331)
                      ++.++...|.+.-....+.+.++. .-+.++.....|++.-.+.|+.+.|...|++..+.  ..+.     .........
T Consensus       183 ~~~~llG~kEy~iS~d~~~~vi~~-~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i  261 (366)
T KOG2796|consen  183 MANCLLGMKEYVLSVDAYHSVIKY-YPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFL  261 (366)
T ss_pred             HHHHHhcchhhhhhHHHHHHHHHh-CCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhh
Confidence            444444445555555555555543 33334455555555555555555555555543322  1111     111222223


Q ss_pred             HhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          267 CSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       267 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      |..++++..|...+.++.+.+|.++...++-+.++.-.|+..+|.+.++.|.+.
T Consensus       262 ~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  262 HLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             eecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            444455555555555555555555444444444444455555555555555443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.77  E-value=0.015  Score=47.57  Aligned_cols=273  Identities=10%  Similarity=0.028  Sum_probs=150.4

Q ss_pred             CHHHHHHHHhhCCCCCchhHHHHHHHHH--hcCChhHHHHHHHHHHhccCCCCchHHHHHHHHH--HhhcCchhHHHHHH
Q 048799           32 ELEYARSLFEEMPCRNVVSWTGIIDGYT--RMNRSNGALALFRRMVACEYTEPSEITILAVFPA--IWQNGDVRNCQLIH  107 (331)
Q Consensus        32 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~  107 (331)
                      ....+.+.|..-++  -..|..|-.++.  -.|+-..|.++-.+. . .-+..|......++.+  -.-.|+.+.|.+-|
T Consensus        68 sP~t~~Ryfr~rKR--drgyqALStGliAagAGda~lARkmt~~~-~-~llssDqepLIhlLeAQaal~eG~~~~Ar~kf  143 (531)
T COG3898          68 SPYTARRYFRERKR--DRGYQALSTGLIAAGAGDASLARKMTARA-S-KLLSSDQEPLIHLLEAQAALLEGDYEDARKKF  143 (531)
T ss_pred             CcHHHHHHHHHHHh--hhHHHHHhhhhhhhccCchHHHHHHHHHH-H-hhhhccchHHHHHHHHHHHHhcCchHHHHHHH
Confidence            34455566655432  224555555543  456666776666554 1 1133444444444443  34568888888888


Q ss_pred             hhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhcc-CC
Q 048799          108 GYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVV-LK  185 (331)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~  185 (331)
                      +-|......  -.--...|.-.--+.|+.+.|..+-++.-..-|. .-.+...+...+..|+|+.|+++++.-.... +.
T Consensus       144 eAMl~dPEt--RllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie  221 (531)
T COG3898         144 EAMLDDPET--RLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIE  221 (531)
T ss_pred             HHHhcChHH--HHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhc
Confidence            888753111  0111112222233567788888777777666554 4567777888888888888888887665443 33


Q ss_pred             CCHH--HHHHHHHHHh---ccCChHHHHHHHHHHHHhcCCCCcHhhH-HHHHHHHHhcCCHHHHHHHHhhcccCCccHHH
Q 048799          186 PNRV--TFLSVLNACS---HGGLVEEGLKFFDKMVEECEVLPDIKHY-GCLIDMLGRAGRLEQAEKVASGIPSEITNVVV  259 (331)
Q Consensus       186 p~~~--~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  259 (331)
                      ++..  .-..|+.+-.   -.-+...|...-.+..   .+.|+..-- ..-..++.+.|++.++-.+++.+-+..|++.+
T Consensus       222 ~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~---KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i  298 (531)
T COG3898         222 KDVAERSRAVLLTAKAMSLLDADPASARDDALEAN---KLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI  298 (531)
T ss_pred             hhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHh---hcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH
Confidence            4432  1222222211   1233455555444443   345554322 22346678888888888888888777677766


Q ss_pred             HHHHHHHHhcCCchhHH-HHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHH
Q 048799          260 WRTLLGACSFHGNVEMG-ERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRR  315 (331)
Q Consensus       260 ~~~l~~~~~~~g~~~~a-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  315 (331)
                      +...+.  .+.|+.... .+-.+++.++.|++......+..+-...|++..|..--+
T Consensus       299 a~lY~~--ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Ae  353 (531)
T COG3898         299 ALLYVR--ARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAE  353 (531)
T ss_pred             HHHHHH--hcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHH
Confidence            643332  344443211 222333334667777777777777777777666654433

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.75  E-value=0.01  Score=48.92  Aligned_cols=169  Identities=15%  Similarity=0.099  Sum_probs=105.9

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC----C-cHHHHHHHHHHHHc---cCChHHHHHHHHHHHhccCCCCHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVER----K-NLVSWTSIISGFAM---HGMGKEAVENFERMQKVVLKPNRVT  190 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~-~~~~~~~l~~~~~~---~~~~~~a~~~~~~m~~~~~~p~~~~  190 (331)
                      +..+...++-+|....+++...++.+.+...+    + ....-....-++.+   .|+.++|++++..+......+++.|
T Consensus       140 s~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~  219 (374)
T PF13281_consen  140 SPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDT  219 (374)
T ss_pred             ChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHH
Confidence            34444566667888899999999998886552    1 11222233445556   7889999999988666666778888


Q ss_pred             HHHHHHHHhc---------cCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHH----HHHHHH---hhcc-cC
Q 048799          191 FLSVLNACSH---------GGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLE----QAEKVA---SGIP-SE  253 (331)
Q Consensus       191 ~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~----~A~~~~---~~~~-~~  253 (331)
                      |..+...|-.         ....++|...|.+.-+   +.|+...--.++..+.-.|...    +..++-   ..+. ..
T Consensus       220 ~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe---~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~k  296 (374)
T PF13281_consen  220 LGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFE---IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRK  296 (374)
T ss_pred             HHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHc---CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhh
Confidence            8877776532         2236677777776553   3455443333333333344321    222222   1111 11


Q ss_pred             -----CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          254 -----ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       254 -----~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                           ..+-..+.+++.+..-.|++++|.+.++++.+..|..
T Consensus       297 g~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  297 GSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             ccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence                 3455667778888999999999999999999877654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.74  E-value=0.011  Score=51.81  Aligned_cols=191  Identities=15%  Similarity=0.036  Sum_probs=110.3

Q ss_pred             HHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHH------HHHHHhhcCchhHHHHH
Q 048799           33 LEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILA------VFPAIWQNGDVRNCQLI  106 (331)
Q Consensus        33 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~------l~~~~~~~~~~~~a~~~  106 (331)
                      +++|.+..+.  .|.+..|..|.......-.++-|...|-+...-.|++.-...-..      -...-.--|++++|+++
T Consensus       679 ledA~qfiEd--nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~  756 (1189)
T KOG2041|consen  679 LEDAIQFIED--NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKL  756 (1189)
T ss_pred             hHHHHHHHhc--CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhh
Confidence            4455555544  466677888888777777788888777766322333211110000      01112234778888888


Q ss_pred             HhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC---CcHHHHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 048799          107 HGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVER---KNLVSWTSIISGFAMHGMGKEAVENFERMQKVV  183 (331)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  183 (331)
                      |-.+-.+          ...+..+.+.|+|-...++++.-....   .-..+|+.+...+.....|++|.+.|..-..  
T Consensus       757 yld~drr----------DLAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~--  824 (1189)
T KOG2041|consen  757 YLDADRR----------DLAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD--  824 (1189)
T ss_pred             hhccchh----------hhhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc--
Confidence            7665443          235677888889888888877543222   2246788888888888888888888865322  


Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhc
Q 048799          184 LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGI  250 (331)
Q Consensus       184 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (331)
                             -...+.++.+..++++-+.+...+      +.+....-.+.+++.+.|.-++|.+.+-+-
T Consensus       825 -------~e~~~ecly~le~f~~LE~la~~L------pe~s~llp~~a~mf~svGMC~qAV~a~Lr~  878 (1189)
T KOG2041|consen  825 -------TENQIECLYRLELFGELEVLARTL------PEDSELLPVMADMFTSVGMCDQAVEAYLRR  878 (1189)
T ss_pred             -------hHhHHHHHHHHHhhhhHHHHHHhc------CcccchHHHHHHHHHhhchHHHHHHHHHhc
Confidence                   122445555555555444433322      334444555566666666666666555443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.74  E-value=0.00011  Score=45.58  Aligned_cols=61  Identities=13%  Similarity=0.041  Sum_probs=45.2

Q ss_pred             HHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc
Q 048799          232 DMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG  292 (331)
Q Consensus       232 ~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  292 (331)
                      ..|.+.+++++|.++++.+... +.++..|.....++...|++++|.+.++.+.+..|+++.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~   64 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPD   64 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHH
Confidence            4567778888888888877777 335566777777788888888888888888887776643

>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=97.69  E-value=0.002  Score=46.27  Aligned_cols=69  Identities=19%  Similarity=0.290  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHH-----hccCCCCHHH
Q 048799          122 VSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQ-----KVVLKPNRVT  190 (331)
Q Consensus       122 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~-----~~~~~p~~~~  190 (331)
                      +...++..+...|++++|..+.+.+....| +...|..+|.+|...|+...|++.|+++.     +.|+.|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            344555666666777777777766666555 45566667777777777777776666553     2356665554

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

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

Probab=97.68  E-value=0.0011  Score=43.87  Aligned_cols=80  Identities=13%  Similarity=0.012  Sum_probs=53.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhccCC-CCchHHHHHHHHHHhhcC--------chhHHHHHHhhhhhcCCCcchhH
Q 048799           51 WTGIIDGYTRMNRSNGALALFRRMVACEYT-EPSEITILAVFPAIWQNG--------DVRNCQLIHGYGEKRGFNAFHIH  121 (331)
Q Consensus        51 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~  121 (331)
                      ....|..+...+++...-.+|+.+ +++|+ .|+..+|+.++.+.++..        ..-..+.+|+.++..+..| +..
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqsl-kRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP-~~e  105 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSL-KRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKP-NDE  105 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHH-HhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCC-cHH
Confidence            344555566668888888888888 66777 788888888887765443        2334455666666666666 666


Q ss_pred             HHHHHHHHHHh
Q 048799          122 VSNCLIDTYAK  132 (331)
Q Consensus       122 ~~~~l~~~~~~  132 (331)
                      +|+.++..+.+
T Consensus       106 tYnivl~~Llk  116 (120)
T PF08579_consen  106 TYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHH
Confidence            66666655543

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 [, , ].

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.65  E-value=0.01  Score=51.60  Aligned_cols=89  Identities=8%  Similarity=-0.047  Sum_probs=44.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCcc----------H
Q 048799          225 KHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGD----------Y  294 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----------~  294 (331)
                      .+...+...+.+...+.-|.++|..+-..       ..+++.....+++++|..+.++.-+..|+.-..          |
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~gD~-------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrF  820 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMGDL-------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRF  820 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhccH-------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhH
Confidence            33344444444455555555555555432       234455555566666665555554443332111          1


Q ss_pred             HHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          295 VLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       295 ~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      ...-.+|.+.|+..+|.++++++...
T Consensus       821 eEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  821 EEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            12223566666666666666665443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.57  E-value=0.00011  Score=40.29  Aligned_cols=42  Identities=19%  Similarity=0.309  Sum_probs=35.9

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHH
Q 048799          258 VVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYN  299 (331)
Q Consensus       258 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  299 (331)
                      .++..+...|...|++++|+++|+++++..|+++..+..++.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467788899999999999999999999999999887776653

>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=97.56  E-value=0.00026  Score=44.61  Aligned_cols=60  Identities=17%  Similarity=0.111  Sum_probs=27.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcccC-------Ccc-HHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          226 HYGCLIDMLGRAGRLEQAEKVASGIPSE-------ITN-VVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      +++.+...|...|++++|...|+++...       .|+ ..++..+..++...|++++|++.++++.+
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3344444444444444444444443322       111 33444555555555555555555555544

...

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.54  E-value=0.00029  Score=58.61  Aligned_cols=99  Identities=12%  Similarity=-0.019  Sum_probs=73.3

Q ss_pred             CcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccH----HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHH
Q 048799          222 PDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNV----VVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLM  297 (331)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  297 (331)
                      .+...++.+..+|...|++++|...|+++.+..|+.    .+|..+..+|...|+.++|+..++++++..+   ..|..+
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALelsn---~~f~~i  149 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDYN---LKFSTI  149 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc---hhHHHH
Confidence            367788999999999999999999999988886663    3589999999999999999999999998621   223221


Q ss_pred             HH--HHhhhccCcchHHHHHHHhhcccc
Q 048799          298 YN--ILAGVWRYGDAERLRRVVDERNAL  323 (331)
Q Consensus       298 ~~--~~~~~g~~~~a~~~~~~~~~~~~~  323 (331)
                      ..  .+....+..+..++++...+-|.+
T Consensus       150 ~~DpdL~plR~~pef~eLlee~rk~G~~  177 (453)
T PLN03098        150 LNDPDLAPFRASPEFKELQEEARKGGED  177 (453)
T ss_pred             HhCcchhhhcccHHHHHHHHHHHHhCCc
Confidence            11  122334455677777777776653

>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=97.52  E-value=0.0004  Score=43.71  Aligned_cols=59  Identities=19%  Similarity=0.188  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHhhhc----C---Cc-HHHHHHHHHHHHccCChHHHHHHHHHH
Q 048799          121 HVSNCLIDTYAKCGCIFSALKLFEDISVE----R---KN-LVSWTSIISGFAMHGMGKEAVENFERM  179 (331)
Q Consensus       121 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~---~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m  179 (331)
                      .+++.+..+|...|++++|+..|++....    +   |. ..+++.+..++...|++++|++.+++.
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34444555555555555555555444322    1   11 233444444444555555555544443

...

>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=97.50  E-value=0.0006  Score=48.97  Aligned_cols=69  Identities=20%  Similarity=0.138  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhh-----ccccCCC
Q 048799          258 VVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE-----RNALKFP  326 (331)
Q Consensus       258 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~  326 (331)
                      .....++..+...|+++.|..+++.+...+|-+...|..++.+|...|+..+|.++++.+..     .|+.|.|
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~  136 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSP  136 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----H
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCH
Confidence            34555677778889999999999999999998888899999999999999999998887743     3655543

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

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.50  E-value=0.0026  Score=43.93  Aligned_cols=53  Identities=13%  Similarity=0.195  Sum_probs=44.8

Q ss_pred             cCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHH
Q 048799          183 VLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLG  235 (331)
Q Consensus       183 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  235 (331)
                      ...|+..+..+++.+|+..|++..|.++++...+.++++.+..+|..|++-..
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            46788899999999999999999999999999998888878888888886443

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

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.49  E-value=0.028  Score=43.38  Aligned_cols=176  Identities=13%  Similarity=0.073  Sum_probs=87.5

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHhhhcCC----cHHHHHHHHHHHHccCChHHHHHHHHHHHhcc-CCCCHHHHHHHHHHHh
Q 048799          125 CLIDTYAKCGCIFSALKLFEDISVERK----NLVSWTSIISGFAMHGMGKEAVENFERMQKVV-LKPNRVTFLSVLNACS  199 (331)
Q Consensus       125 ~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~  199 (331)
                      .-+..-.+.|++++|.+.|+.+....|    ...+--.++-++.+.++++.|+..+++..... -.||. -|..-+.+.+
T Consensus        39 ~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~-dY~~YlkgLs  117 (254)
T COG4105          39 NEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNA-DYAYYLKGLS  117 (254)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCCh-hHHHHHHHHH
Confidence            344455667778888887777766543    23344455566777777888877777766643 22222 2333333332


Q ss_pred             c-------cCC---hHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhc
Q 048799          200 H-------GGL---VEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSF  269 (331)
Q Consensus       200 ~-------~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~  269 (331)
                      .       ..+   ...|..-|++++++   -|+..-             ..+|..-+..+...  -...=..+.+-|.+
T Consensus       118 ~~~~i~~~~rDq~~~~~A~~~f~~~i~r---yPnS~Y-------------a~dA~~~i~~~~d~--LA~~Em~IaryY~k  179 (254)
T COG4105         118 YFFQIDDVTRDQSAARAAFAAFKELVQR---YPNSRY-------------APDAKARIVKLNDA--LAGHEMAIARYYLK  179 (254)
T ss_pred             HhccCCccccCHHHHHHHHHHHHHHHHH---CCCCcc-------------hhhHHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence            1       112   22344444444443   122110             00111111111000  00001123455667


Q ss_pred             CCchhHHHHHHHHHHHhhcCCCc---cHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          270 HGNVEMGERVTRKILEMERGYGG---DYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       270 ~g~~~~a~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      .|.+..|..-++.+++.-|+...   .+..+..+|...|-.++|.+.-+-+..
T Consensus       180 r~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         180 RGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             hcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            77777777777777765444433   334455667777777777766555433

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.41  E-value=0.0029  Score=51.69  Aligned_cols=96  Identities=10%  Similarity=0.033  Sum_probs=76.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh
Q 048799          225 KHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG  303 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  303 (331)
                      .++..+.-++.+.+++.+|.+........ ++|....-.=..++...|+++.|+..|++++++.|++-.+-..++.+-.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k  337 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQK  337 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            45677788889999999999999988877 66777777788899999999999999999999999997777777776666


Q ss_pred             hccCcc-hHHHHHHHhhc
Q 048799          304 VWRYGD-AERLRRVVDER  320 (331)
Q Consensus       304 ~g~~~~-a~~~~~~~~~~  320 (331)
                      ..+..+ ..++|..|-..
T Consensus       338 ~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  338 IREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHhhc
Confidence            555444 36677777543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.40  E-value=0.083  Score=46.75  Aligned_cols=27  Identities=11%  Similarity=0.167  Sum_probs=14.4

Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHh
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDI  146 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~  146 (331)
                      ....-.+.+++...|.-++|.+.|-+.
T Consensus       852 s~llp~~a~mf~svGMC~qAV~a~Lr~  878 (1189)
T KOG2041|consen  852 SELLPVMADMFTSVGMCDQAVEAYLRR  878 (1189)
T ss_pred             cchHHHHHHHHHhhchHHHHHHHHHhc
Confidence            334445555666666666655555443

>PRK15331 chaperone protein SicA; Provisional

Probab=97.39  E-value=0.0078  Score=43.16  Aligned_cols=91  Identities=8%  Similarity=-0.037  Sum_probs=54.2

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCC
Q 048799          125 CLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGL  203 (331)
Q Consensus       125 ~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~  203 (331)
                      ...--+...|++++|..+|+-+...+| +..-|..|..++-..+++++|+..|......+. -|+..+-....++...|+
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCC
Confidence            344445566777777777766654443 444555666666666777777777665544321 233334445666666777


Q ss_pred             hHHHHHHHHHHHH
Q 048799          204 VEEGLKFFDKMVE  216 (331)
Q Consensus       204 ~~~a~~~~~~~~~  216 (331)
                      .+.|...|....+
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777766665

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.37  E-value=8.7e-05  Score=37.98  Aligned_cols=33  Identities=18%  Similarity=0.238  Sum_probs=30.0

Q ss_pred             HHHHHHHhhcCCCccHHHHHHHHhhhccCcchH
Q 048799          279 VTRKILEMERGYGGDYVLMYNILAGVWRYGDAE  311 (331)
Q Consensus       279 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  311 (331)
                      +|+++++.+|+++.+|..++.+|...|++++|+
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            367889999999999999999999999999886

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=97.35  E-value=0.043  Score=42.46  Aligned_cols=226  Identities=15%  Similarity=0.024  Sum_probs=136.1

Q ss_pred             CChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHH
Q 048799           62 NRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALK  141 (331)
Q Consensus        62 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  141 (331)
                      +....+...+...............+......+...+++..+...+.........+.....+......+...+++..+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            44445555555442211110124455556666666777777776666665421111145556666677777777777777


Q ss_pred             HHHHhhhcCCcH-HHHHHHHH-HHHccCChHHHHHHHHHHHhccC--CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          142 LFEDISVERKNL-VSWTSIIS-GFAMHGMGKEAVENFERMQKVVL--KPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       142 ~~~~~~~~~~~~-~~~~~l~~-~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      .+.......++. ........ .+...|+++.+...+.+......  ......+......+...++.+.+...+......
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  196 (291)
T COG0457         117 LLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL  196 (291)
T ss_pred             HHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh
Confidence            777776543332 22222333 67778888888888887754211  012333444444456677888888888887763


Q ss_pred             cCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          218 CEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       218 ~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                        .+. ....+..+...+...++++.|...+.......|+ ...+..+...+...+..+.+...+.+..+..|.
T Consensus       197 --~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         197 --NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             --CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence              222 3566777777778888888888888887776443 344444555555666788888888888876665

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.33  E-value=0.0092  Score=50.05  Aligned_cols=65  Identities=17%  Similarity=0.064  Sum_probs=40.7

Q ss_pred             cchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcH----HHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          117 AFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNL----VSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       117 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      |.+...++.+..+|.+.|++++|+..|++.....|+.    .+|..+..+|...|+.++|++.+++.++
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3355666666666666666666666666666555542    2466666666666666666666666655

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.29  E-value=0.028  Score=48.77  Aligned_cols=163  Identities=15%  Similarity=0.096  Sum_probs=113.7

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhcc-CCCC-----HHHHHHHHHHHhc----cCChHHHHHHHHHHHHhcCCCCcHh
Q 048799          156 WTSIISGFAMHGMGKEAVENFERMQKVV-LKPN-----RVTFLSVLNACSH----GGLVEEGLKFFDKMVEECEVLPDIK  225 (331)
Q Consensus       156 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~-----~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  225 (331)
                      ...+++...=.||-+.+++.+.+..+.+ +.-.     ...|..++..++.    ..+.+.|.++++.+.+.   -|+..
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~  267 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSA  267 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcH
Confidence            3445566667899999999998876543 2211     1234444444443    45678899999999875   46666


Q ss_pred             hHHHH-HHHHHhcCCHHHHHHHHhhcccC-----CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHH-HH
Q 048799          226 HYGCL-IDMLGRAGRLEQAEKVASGIPSE-----ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVL-MY  298 (331)
Q Consensus       226 ~~~~l-~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-l~  298 (331)
                      .|... .+.+...|++++|.+.|+++...     +.....+.-+...+.-.+++++|...+..+.+.+.-+...|.. .+
T Consensus       268 lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a  347 (468)
T PF10300_consen  268 LFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHH
Confidence            66544 45677899999999999987653     3344556667778888999999999999999865554344433 34


Q ss_pred             HHHhhhccC-------cchHHHHHHHhhcc
Q 048799          299 NILAGVWRY-------GDAERLRRVVDERN  321 (331)
Q Consensus       299 ~~~~~~g~~-------~~a~~~~~~~~~~~  321 (331)
                      ..+...|+.       ++|.+++.++....
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp~l~  377 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVPKLK  377 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHHHHH
Confidence            456778888       88888888876643

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.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.28  E-value=0.054  Score=45.32  Aligned_cols=133  Identities=11%  Similarity=0.060  Sum_probs=99.1

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHhcc-CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhh-HHHHH
Q 048799          154 VSWTSIISGFAMHGMGKEAVENFERMQKVV-LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKH-YGCLI  231 (331)
Q Consensus       154 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~l~  231 (331)
                      .+|...+....+..-.+.|..+|-++.+.| +.++...+++++..++ .|+..-|.++|+.-...   -||... ....+
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~---f~d~~~y~~kyl  473 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK---FPDSTLYKEKYL  473 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh---CCCchHHHHHHH
Confidence            345566777777778889999999988888 6677788888888765 57888888888876653   234333 34556


Q ss_pred             HHHHhcCCHHHHHHHHhhcccC-Ccc--HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          232 DMLGRAGRLEQAEKVASGIPSE-ITN--VVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       232 ~~~~~~g~~~~A~~~~~~~~~~-~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      .-+...++-+.|..+|+...+. ..+  ...|..+|.--..-|+...+..+-+.+.+.-|..
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            6677889999999999977665 222  5778888888888888888888888887766653

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=97.27  E-value=0.054  Score=41.91  Aligned_cols=222  Identities=18%  Similarity=0.041  Sum_probs=160.3

Q ss_pred             cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhh--c-CCcHHHHHHHHHHHHccCChHHHH
Q 048799           97 NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISV--E-RKNLVSWTSIISGFAMHGMGKEAV  173 (331)
Q Consensus        97 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~~~l~~~~~~~~~~~~a~  173 (331)
                      .+....+...+......................+...+++..+...+.....  . ......+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            3455556666666555543211245667788889999999999999988874  2 345667777778888888999999


Q ss_pred             HHHHHHHhccCCCCHHHHHHHHH-HHhccCChHHHHHHHHHHHHhcCC--CCcHhhHHHHHHHHHhcCCHHHHHHHHhhc
Q 048799          174 ENFERMQKVVLKPNRVTFLSVLN-ACSHGGLVEEGLKFFDKMVEECEV--LPDIKHYGCLIDMLGRAGRLEQAEKVASGI  250 (331)
Q Consensus       174 ~~~~~m~~~~~~p~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (331)
                      ..+.........+. ........ .+...|+++.|...+.+.... ..  ......+......+...++.+.+...+...
T Consensus       116 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  193 (291)
T COG0457         116 ELLEKALALDPDPD-LAEALLALGALYELGDYEEALELYEKALEL-DPELNELAEALLALGALLEALGRYEEALELLEKA  193 (291)
T ss_pred             HHHHHHHcCCCCcc-hHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHH
Confidence            99999877443331 22222333 688999999999999998542 21  123344445555577889999999999999


Q ss_pred             ccCCcc--HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          251 PSEITN--VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       251 ~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      ....++  ...+..+...+...++++.+...+.......|.....+..+...+...+..+++...+....+.
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         194 LKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888343  6778888889999999999999999999988875455666666666667788888777766553

>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=97.26  E-value=0.0043  Score=46.46  Aligned_cols=87  Identities=9%  Similarity=0.072  Sum_probs=51.6

Q ss_pred             CCCchhHHHHHHHHHh-----cCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcC----------------chhHH
Q 048799           45 CRNVVSWTGIIDGYTR-----MNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNG----------------DVRNC  103 (331)
Q Consensus        45 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a  103 (331)
                      ..+-.+|..++..|.+     .|.++=....++.| .+-|+.-|..+|+.|++++=+..                +-+-|
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M-~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~  122 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKM-DEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECA  122 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHH-HHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHH
Confidence            4555666666666653     35666666677777 66777777778877777764321                22334


Q ss_pred             HHHHhhhhhcCCCcchhHHHHHHHHHHHhc
Q 048799          104 QLIHGYGEKRGFNAFHIHVSNCLIDTYAKC  133 (331)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  133 (331)
                      ++++++|...|+.| |..++..|++.+++.
T Consensus       123 i~lL~qME~~gV~P-d~Et~~~ll~iFG~~  151 (228)
T PF06239_consen  123 IDLLEQMENNGVMP-DKETEQMLLNIFGRK  151 (228)
T ss_pred             HHHHHHHHHcCCCC-cHHHHHHHHHHhccc
Confidence            55555555555555 555555555555443

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

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.25  E-value=0.03  Score=48.59  Aligned_cols=160  Identities=21%  Similarity=0.103  Sum_probs=68.8

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHhhhcC-C-cH------HHHHHHHHHHHc----cCChHHHHHHHHHHHhccCCCCHHHH
Q 048799          124 NCLIDTYAKCGCIFSALKLFEDISVER-K-NL------VSWTSIISGFAM----HGMGKEAVENFERMQKVVLKPNRVTF  191 (331)
Q Consensus       124 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-~-~~------~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~  191 (331)
                      ..+++...-.|+-+.+++.+.+..+.. . .+      -.|...+..++.    ....+.|.+++..+.+.  -|+...|
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lf  269 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALF  269 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHH
Confidence            344555555555555555555543321 0 01      123333332222    23445555555555442  2443333


Q ss_pred             HHH-HHHHhccCChHHHHHHHHHHHHhc-CCC-CcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHH-
Q 048799          192 LSV-LNACSHGGLVEEGLKFFDKMVEEC-EVL-PDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGA-  266 (331)
Q Consensus       192 ~~l-~~~~~~~~~~~~a~~~~~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~-  266 (331)
                      ... .+.+...|++++|.+.|++..... ..+ .....+--++-.+.-.+++++|.+.|..+.+. ..+..+|..+..+ 
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            222 233444555555555555433210 111 12223333444455555555555555555544 2333344433332 


Q ss_pred             HhcCCch-------hHHHHHHHHHHH
Q 048799          267 CSFHGNV-------EMGERVTRKILE  285 (331)
Q Consensus       267 ~~~~g~~-------~~a~~~~~~~~~  285 (331)
                      +...|+.       ++|.++++++..
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHHH
Confidence            2344444       555555555544

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.25  E-value=0.046  Score=41.81  Aligned_cols=58  Identities=7%  Similarity=0.076  Sum_probs=34.6

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCch------hHHHHHHHHHhcCChhHHHHHHHHH
Q 048799           17 LVTWNVMITGLVKWGELEYARSLFEEMP---CRNVV------SWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus        17 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      ...|..-..+|....++++|...+.+..   +.|..      +|...+-..-....+.++..++++.
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKA   97 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKA   97 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            3457777788888899999888777655   22222      3333333334444555555555554

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.24  E-value=0.01  Score=41.55  Aligned_cols=72  Identities=14%  Similarity=0.062  Sum_probs=51.6

Q ss_pred             HHHHHhcCCHHHHHHHHhhcccCCc----cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCcc-HHHHHHHHh
Q 048799          231 IDMLGRAGRLEQAEKVASGIPSEIT----NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGD-YVLMYNILA  302 (331)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~l~~~~~  302 (331)
                      .....+.|++++|.+.|+.+....|    ....-..++.+|.+.|++++|...+++.++++|.++.+ |..+..++.
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~   93 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLS   93 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHH
Confidence            3445677888888888888877733    34556667888888899999999999999988877643 444444433

>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=97.22  E-value=0.079  Score=42.67  Aligned_cols=47  Identities=15%  Similarity=0.164  Sum_probs=26.7

Q ss_pred             HHcCCHHHHHHHHhhCCC----CCch-------hHHHHHHHHHhcC-ChhHHHHHHHHH
Q 048799           28 VKWGELEYARSLFEEMPC----RNVV-------SWTGIIDGYTRMN-RSNGALALFRRM   74 (331)
Q Consensus        28 ~~~g~~~~A~~~~~~~~~----~~~~-------~~~~l~~~~~~~~-~~~~a~~~~~~~   74 (331)
                      .+.|+++.|..++.+...    .++.       .+..........+ +++.|...+++.
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a   62 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRA   62 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHH
Confidence            467888888888887652    1221       1222233334445 777776666665

It is also involved in sporulation [].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.18  E-value=0.095  Score=42.90  Aligned_cols=110  Identities=16%  Similarity=0.125  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHH
Q 048799          155 SWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDML  234 (331)
Q Consensus       155 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  234 (331)
                      +.+..+.-+...|+...|.++-++..    .|+..-|..-+.+++..+++++-.++-..       +-++.-|..++.+|
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s-------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS-------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-------CCCCCChHHHHHHH
Confidence            44555666677888888888766552    37888888889999999998877765321       22457788889999


Q ss_pred             HhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHH
Q 048799          235 GRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKI  283 (331)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  283 (331)
                      .+.|+..+|..+..++..        ..-+..|.+.|++.+|.+...+.
T Consensus       248 ~~~~~~~eA~~yI~k~~~--------~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKIPD--------EERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHCCCHHHHHHHHHhCCh--------HHHHHHHHHCCCHHHHHHHHHHc
Confidence            999999999988888432        34566777888888887665443

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

>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=97.17  E-value=0.088  Score=42.39  Aligned_cols=164  Identities=12%  Similarity=0.036  Sum_probs=92.9

Q ss_pred             HhcCChhHHHHHHHHHHhcc-CCCCchH-----HHHHHHHHHhhcC-chhHHHHHHhhhhhc----C----CCcc----h
Q 048799           59 TRMNRSNGALALFRRMVACE-YTEPSEI-----TILAVFPAIWQNG-DVRNCQLIHGYGEKR----G----FNAF----H  119 (331)
Q Consensus        59 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~-----~~~~l~~~~~~~~-~~~~a~~~~~~~~~~----~----~~~~----~  119 (331)
                      .+.|+.+.|..++.++.... ...|+..     .+..........+ +++.|...+++..+.    +    ..+.    -
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            57899999999999983333 2334432     2222333444556 777777766665443    1    1110    1


Q ss_pred             hHHHHHHHHHHHhcCCHh---HHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHH
Q 048799          120 IHVSNCLIDTYAKCGCIF---SALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVL  195 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~---~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~  195 (331)
                      ..+...++.+|...+..+   +|.++++.+....|+ +..+..-+..+.+.++.+.+.+.+.+|...- .-....+..++
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l  162 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHH
Confidence            235556667777666544   455566666555454 4555566666666788888888888887652 22334444444


Q ss_pred             HHHhc--cCChHHHHHHHHHHHHhcCCCCcH
Q 048799          196 NACSH--GGLVEEGLKFFDKMVEECEVLPDI  224 (331)
Q Consensus       196 ~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~  224 (331)
                      ..+..  ......|...++.+... .+.|..
T Consensus       163 ~~i~~l~~~~~~~a~~~ld~~l~~-r~~~~~  192 (278)
T PF08631_consen  163 HHIKQLAEKSPELAAFCLDYLLLN-RFKSSE  192 (278)
T ss_pred             HHHHHHHhhCcHHHHHHHHHHHHH-HhCCCh
Confidence            44321  22344566666665555 444444

It is also involved in sporulation [].

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.17  E-value=0.0097  Score=46.26  Aligned_cols=91  Identities=14%  Similarity=0.092  Sum_probs=40.3

Q ss_pred             ccCChHHHHHHHHHHHHhcCCC-CcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc----cHHHHHHHHHHHhcCCchh
Q 048799          200 HGGLVEEGLKFFDKMVEECEVL-PDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT----NVVVWRTLLGACSFHGNVE  274 (331)
Q Consensus       200 ~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~  274 (331)
                      +.|++..|...|...++.+.-. -....+-.|.+++...|++++|..+|..+....|    -+.....|..+..+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            3444555555555544431100 0122333344455555555555555544444411    1344444444455555555


Q ss_pred             HHHHHHHHHHHhhcCC
Q 048799          275 MGERVTRKILEMERGY  290 (331)
Q Consensus       275 ~a~~~~~~~~~~~~~~  290 (331)
                      +|...|+++.+.-|+.
T Consensus       233 ~A~atl~qv~k~YP~t  248 (262)
T COG1729         233 EACATLQQVIKRYPGT  248 (262)
T ss_pred             HHHHHHHHHHHHCCCC
Confidence            5555555555544443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.14  E-value=0.013  Score=45.58  Aligned_cols=102  Identities=16%  Similarity=0.135  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhccC--CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHH
Q 048799          155 SWTSIISGFAMHGMGKEAVENFERMQKVVL--KPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLI  231 (331)
Q Consensus       155 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~  231 (331)
                      .|+.-+..+ +.|++..|...|...++...  .-....+-.|..++...|++++|..+|..+.+.++-.| -+...--|.
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            577766655 56778999998888877541  11234455688888889999999999988888655444 346777788


Q ss_pred             HHHHhcCCHHHHHHHHhhcccCCccH
Q 048799          232 DMLGRAGRLEQAEKVASGIPSEITNV  257 (331)
Q Consensus       232 ~~~~~~g~~~~A~~~~~~~~~~~p~~  257 (331)
                      .+..+.|+.++|..+|++..+..|+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~t  248 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPGT  248 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCCC
Confidence            88888899999999998888875653

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.10  E-value=0.0097  Score=48.80  Aligned_cols=94  Identities=9%  Similarity=-0.110  Sum_probs=45.8

Q ss_pred             HHHHhcCChhHHHHHHHHHHhccC----CCC---------chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHH
Q 048799           56 DGYTRMNRSNGALALFRRMVACEY----TEP---------SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHV  122 (331)
Q Consensus        56 ~~~~~~~~~~~a~~~~~~~~~~~~----~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (331)
                      +.|.+.|++..|...|++++..-.    .++         -..+++.+.-++.+.+++..|++..++.+..+..  +..+
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~--N~KA  293 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPN--NVKA  293 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCC--chhH
Confidence            457778888888888777532111    111         0113334444444555555555555544444322  4444


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHhhhcCC
Q 048799          123 SNCLIDTYAKCGCIFSALKLFEDISVERK  151 (331)
Q Consensus       123 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  151 (331)
                      ...-..++...|+++.|+..|+++.+..|
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~~P  322 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKLEP  322 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHhCC
Confidence            44444445555555555555555544444

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.07  E-value=0.13  Score=42.65  Aligned_cols=167  Identities=12%  Similarity=0.002  Sum_probs=106.4

Q ss_pred             hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCC--CcchhHHHHHHHHHHHh---cCCHhHHHHHHHHhhhc--CCcHHHH
Q 048799           84 EITILAVFPAIWQNGDVRNCQLIHGYGEKRGF--NAFHIHVSNCLIDTYAK---CGCIFSALKLFEDISVE--RKNLVSW  156 (331)
Q Consensus        84 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~--~~~~~~~  156 (331)
                      ..+...++-+|....+++...++.+.+.....  .+....+-...+-++.+   .|+.++|+.++..+...  .+++.+|
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            34555677778889999999999998877621  11133344455666777   89999999999885433  4677888


Q ss_pred             HHHHHHHH----c-----cCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCC-hH---HHHHHH---HH-HHHhcC
Q 048799          157 TSIISGFA----M-----HGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGL-VE---EGLKFF---DK-MVEECE  219 (331)
Q Consensus       157 ~~l~~~~~----~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~-~~---~a~~~~---~~-~~~~~~  219 (331)
                      ..+...|.    .     ....++|+..|.+.-+  +.|+..+=-.++..+...|. .+   +..++-   .. ..++ |
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe--~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~k-g  297 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFE--IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRK-G  297 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHc--CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhh-c
Confidence            88777653    2     2247788888887765  34654332222222222332 21   222222   11 2122 2


Q ss_pred             C---CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          220 V---LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       220 ~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      .   ..+-..+..++.+..-.|+.++|.+..+.|...
T Consensus       298 ~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  298 SLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            2   235566788899999999999999999999877

>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=97.06  E-value=0.016  Score=40.14  Aligned_cols=28  Identities=18%  Similarity=0.215  Sum_probs=21.9

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhC
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEM   43 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~   43 (331)
                      |..++..++.++++.|+++....+++..
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~   28 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSV   28 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHh
Confidence            4567788888888888888888887654

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

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=97.06  E-value=0.081  Score=39.82  Aligned_cols=181  Identities=10%  Similarity=-0.031  Sum_probs=104.7

Q ss_pred             CchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHH
Q 048799           98 GDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENF  176 (331)
Q Consensus        98 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~  176 (331)
                      |-+.-|.-=|.+.....+.  -+.+||-|.--+...|+++.|.+.|+...+.+|. ..+...-.-++.-.|++.-|.+-|
T Consensus        79 GL~~LAR~DftQaLai~P~--m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~  156 (297)
T COG4785          79 GLRALARNDFSQALAIRPD--MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDL  156 (297)
T ss_pred             hHHHHHhhhhhhhhhcCCC--cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHH
Confidence            3444444445555554333  6788998998999999999999999998877663 333333333444578888888777


Q ss_pred             HHHHhcc-CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHH-HHHHHHhcCCHHHHHHHHhhc-ccC
Q 048799          177 ERMQKVV-LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGC-LIDMLGRAGRLEQAEKVASGI-PSE  253 (331)
Q Consensus       177 ~~m~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~  253 (331)
                      .+.-+.. ..|-...|..+..   ..-++.+|..-+.+-.+  +.  |..-|.. +++.|...=..+.+.+-...- .+.
T Consensus       157 ~~fYQ~D~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~~--~~--d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a~~n  229 (297)
T COG4785         157 LAFYQDDPNDPFRSLWLYLNE---QKLDPKQAKTNLKQRAE--KS--DKEQWGWNIVEFYLGKISEETLMERLKADATDN  229 (297)
T ss_pred             HHHHhcCCCChHHHHHHHHHH---hhCCHHHHHHHHHHHHH--hc--cHhhhhHHHHHHHHhhccHHHHHHHHHhhccch
Confidence            6665543 2233333333332   33456666554433222  22  3333332 233333222222222222211 111


Q ss_pred             ----CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhh
Q 048799          254 ----ITNVVVWRTLLGACSFHGNVEMGERVTRKILEME  287 (331)
Q Consensus       254 ----~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  287 (331)
                          ..-..||-.+..-+...|+.++|..+|+-++..+
T Consensus       230 ~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         230 TSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence                2234678888999999999999999999988643

>PRK11906 transcriptional regulator; Provisional

Probab=97.01  E-value=0.083  Score=44.68  Aligned_cols=160  Identities=11%  Similarity=0.067  Sum_probs=104.5

Q ss_pred             hhH--HHHHHHHHhc-----CChhHHHHHHHHHHhccCCCCch-HHHHHHHHHHh---------hcCchhHHHHHHhhhh
Q 048799           49 VSW--TGIIDGYTRM-----NRSNGALALFRRMVACEYTEPSE-ITILAVFPAIW---------QNGDVRNCQLIHGYGE  111 (331)
Q Consensus        49 ~~~--~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~---------~~~~~~~a~~~~~~~~  111 (331)
                      ..|  ...+++....     -..+.|+.+|.+.+......|+- ..|..+..++.         ...+..+|.+..++++
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            556  5566655442     23567889999986444556653 34443333321         1234566777777788


Q ss_pred             hcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCH--
Q 048799          112 KRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNR--  188 (331)
Q Consensus       112 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--  188 (331)
                      +.+..  |+.+...+..++.-.|+++.|...|+++....|+ ..+|........-.|+.++|.+.+++..+  ..|..  
T Consensus       332 eld~~--Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alr--LsP~~~~  407 (458)
T PRK11906        332 DITTV--DGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQ--LEPRRRK  407 (458)
T ss_pred             hcCCC--CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhc--cCchhhH
Confidence            77655  8888888888888888899999999999887775 45566666666678999999999988666  33543  


Q ss_pred             -HHHHHHHHHHhccCChHHHHHHHHH
Q 048799          189 -VTFLSVLNACSHGGLVEEGLKFFDK  213 (331)
Q Consensus       189 -~~~~~l~~~~~~~~~~~~a~~~~~~  213 (331)
                       ......+..|+.. ..+.|.+++-+
T Consensus       408 ~~~~~~~~~~~~~~-~~~~~~~~~~~  432 (458)
T PRK11906        408 AVVIKECVDMYVPN-PLKNNIKLYYK  432 (458)
T ss_pred             HHHHHHHHHHHcCC-chhhhHHHHhh
Confidence             2333344456554 45666666644

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=97.00  E-value=0.12  Score=40.89  Aligned_cols=144  Identities=10%  Similarity=0.095  Sum_probs=90.4

Q ss_pred             HHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcH--HHHHHHHHHHHccC
Q 048799           90 VFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNL--VSWTSIISGFAMHG  167 (331)
Q Consensus        90 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~l~~~~~~~~  167 (331)
                      -.......|++.+|...|.........  +..+...++.+|...|+.+.|..++..+.....+.  .....-|..+.+..
T Consensus       140 ~~~~~~~~e~~~~a~~~~~~al~~~~~--~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa  217 (304)
T COG3118         140 EAKELIEAEDFGEAAPLLKQALQAAPE--NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAA  217 (304)
T ss_pred             HhhhhhhccchhhHHHHHHHHHHhCcc--cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHh
Confidence            344556788888999988888887555  55566678899999999999999998876543222  12223334444444


Q ss_pred             ChHHHHHHHHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC
Q 048799          168 MGKEAVENFERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG  238 (331)
Q Consensus       168 ~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  238 (331)
                      ...+...+-.+.-.   .| |...-..+...+...|+.+.|.+.+-.+.++..-.-|...-..|++.+.-.|
T Consensus       218 ~~~~~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         218 ATPEIQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             cCCCHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcC
Confidence            44444444444333   24 5556666777788888888888777666654122234555566666555544

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.91  E-value=0.0094  Score=40.62  Aligned_cols=91  Identities=12%  Similarity=0.020  Sum_probs=56.7

Q ss_pred             HHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-Cc-cH---HHHHHHHHHHhcCC
Q 048799          197 ACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-IT-NV---VVWRTLLGACSFHG  271 (331)
Q Consensus       197 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p-~~---~~~~~l~~~~~~~g  271 (331)
                      +....|+.+.|++.|.+.+.-  .+.....||.-.+++.-.|+.++|++-++++.+. .+ ..   ..|..-...|...|
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 ALAEAGDLDGALELFGQALCL--APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh--cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            455667777777777776642  3336667777777777777777777777776655 12 11   22333334456667


Q ss_pred             chhHHHHHHHHHHHhhcC
Q 048799          272 NVEMGERVTRKILEMERG  289 (331)
Q Consensus       272 ~~~~a~~~~~~~~~~~~~  289 (331)
                      +.+.|..-|+.+-++...
T Consensus       130 ~dd~AR~DFe~AA~LGS~  147 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGSK  147 (175)
T ss_pred             chHHHHHhHHHHHHhCCH
Confidence            777777777777665443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.88  E-value=0.23  Score=42.33  Aligned_cols=99  Identities=12%  Similarity=0.157  Sum_probs=64.6

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccH--HHHHHHHHHHh
Q 048799          192 LSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNV--VVWRTLLGACS  268 (331)
Q Consensus       192 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~--~~~~~l~~~~~  268 (331)
                      ..+..++.+.|+.++|.+.+.++.+......+..+...|+.++...+.+.++..++.+..+. -|..  ..|+..+--+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            44666677889999999999988875222224557778888999999999999988887544 3433  34444332222


Q ss_pred             cCCc---------------hhHHHHHHHHHHHhhcCC
Q 048799          269 FHGN---------------VEMGERVTRKILEMERGY  290 (331)
Q Consensus       269 ~~g~---------------~~~a~~~~~~~~~~~~~~  290 (331)
                      ..++               -..|.+.+.++.+.+|-.
T Consensus       343 av~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHV  379 (539)
T PF04184_consen  343 AVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHV  379 (539)
T ss_pred             hhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCC
Confidence            2222               123567788888776654

The molecular function of this protein is uncertain.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.88  E-value=0.054  Score=38.01  Aligned_cols=56  Identities=18%  Similarity=0.201  Sum_probs=33.5

Q ss_pred             HHHccCChHHHHHHHHHHHhccC--CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          162 GFAMHGMGKEAVENFERMQKVVL--KPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      ...+.|++++|++.|+.+...-.  +-....-..|+.+|.+.++++.|...+++.++.
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            33456777777777777655321  112334455666677777777777777776665

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.86  E-value=0.045  Score=39.49  Aligned_cols=137  Identities=11%  Similarity=0.006  Sum_probs=75.7

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchH-HHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhH-HHH
Q 048799           47 NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEI-TILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIH-VSN  124 (331)
Q Consensus        47 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~  124 (331)
                      ....|..-+. +++.|..++|+.-|..+ +..|..--+. ............|+...|...|.++-.....| ... -..
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~l-ektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P-~~~rd~A  134 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDL-EKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIP-QIGRDLA  134 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHH-HhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCc-chhhHHH
Confidence            3344544444 45667777777777777 4443322111 22223334566777777777777776655444 221 111


Q ss_pred             --HHHHHHHhcCCHhHHHHHHHHhhhcC-C-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCC
Q 048799          125 --CLIDTYAKCGCIFSALKLFEDISVER-K-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP  186 (331)
Q Consensus       125 --~l~~~~~~~g~~~~A~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p  186 (331)
                        .-.-.+...|-++....-.+.+.... | ....-..|.-+-.+.|++.+|.+.|..+......|
T Consensus       135 Rlraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         135 RLRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence              11234556777777777766664332 2 22334455556667788888888887776544333

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.85  E-value=0.077  Score=43.15  Aligned_cols=224  Identities=13%  Similarity=0.015  Sum_probs=100.1

Q ss_pred             HcCCHHHHHHHHhhCCCC------CchhHHHHHHHHHhcCChhHHHHHH----HHHHhccCCCCchHHHHHHHHHHhhcC
Q 048799           29 KWGELEYARSLFEEMPCR------NVVSWTGIIDGYTRMNRSNGALALF----RRMVACEYTEPSEITILAVFPAIWQNG   98 (331)
Q Consensus        29 ~~g~~~~A~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~----~~~~~~~~~~~~~~~~~~l~~~~~~~~   98 (331)
                      ...+.++|+..|.+....      ...++..+..+....|.+++++..-    +-....+....--..|..+.+++.+.-
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666666554421      1234555666666666666654321    111110000011224444555555555


Q ss_pred             chhHHHHHHhhhhhcCCC-c--chhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-----CC--cHHHHHHHHHHHHccCC
Q 048799           99 DVRNCQLIHGYGEKRGFN-A--FHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-----RK--NLVSWTSIISGFAMHGM  168 (331)
Q Consensus        99 ~~~~a~~~~~~~~~~~~~-~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~--~~~~~~~l~~~~~~~~~  168 (331)
                      ++.+++.+-..-....-. +  .-.....++..++.-.+.++++++.|+.+.+.     +|  ....|-.+.+.|.+..|
T Consensus        98 ~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D  177 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKD  177 (518)
T ss_pred             HhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHh
Confidence            555555555544432111 0  01123334555555566666666666655433     11  12345566666666666


Q ss_pred             hHHHHHHHHHHHhc----cCCCCHHHHH-----HHHHHHhccCChHHHHHHHHHHHHhc---CCCC-cHhhHHHHHHHHH
Q 048799          169 GKEAVENFERMQKV----VLKPNRVTFL-----SVLNACSHGGLVEEGLKFFDKMVEEC---EVLP-DIKHYGCLIDMLG  235 (331)
Q Consensus       169 ~~~a~~~~~~m~~~----~~~p~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~  235 (331)
                      +++|.-+..+..+.    ++.--..-|.     .+.-++...|...+|.+.-++..+..   |-.+ .......+.+.|.
T Consensus       178 ~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR  257 (518)
T KOG1941|consen  178 YEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYR  257 (518)
T ss_pred             hhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHH
Confidence            66666555544321    1111111111     22234445555555555555443320   2111 1222334445555


Q ss_pred             hcCCHHHHHHHHhhccc
Q 048799          236 RAGRLEQAEKVASGIPS  252 (331)
Q Consensus       236 ~~g~~~~A~~~~~~~~~  252 (331)
                      ..|+.+.|..-|+.+..
T Consensus       258 ~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  258 SRGDLERAFRRYEQAMG  274 (518)
T ss_pred             hcccHhHHHHHHHHHHH
Confidence            55555555555554443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.85  E-value=0.17  Score=40.13  Aligned_cols=124  Identities=11%  Similarity=0.017  Sum_probs=64.6

Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChH
Q 048799          127 IDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVE  205 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  205 (331)
                      .......|++.+|...|.......| +...-..++.+|...|+.+.|..++..+-..--.........-+..+.+.....
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhCcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            3445566777777777776665533 345555666677777777777777766533211111122222233334444444


Q ss_pred             HHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          206 EGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       206 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      +...+-.+.-..   +-|...-..+...+...|+.++|.+.+-.+...
T Consensus       221 ~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         221 EIQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            444444444322   225555555666666666666666555544433

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.84  E-value=0.33  Score=43.48  Aligned_cols=108  Identities=15%  Similarity=0.173  Sum_probs=69.1

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhc
Q 048799          190 TFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSF  269 (331)
Q Consensus       190 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~  269 (331)
                      +.+--+.-+...|+..+|.++-.+..     -||-..|-.-+.++...+++++-+++-+...    .+.-|.-++.+|.+
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk----sPIGy~PFVe~c~~  756 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK----SPIGYLPFVEACLK  756 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC----CCCCchhHHHHHHh
Confidence            33444444556677777776655442     3577777777777777777777766665544    24556667777788


Q ss_pred             CCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHH
Q 048799          270 HGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLR  314 (331)
Q Consensus       270 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  314 (331)
                      .|+.++|.+++.+..    +    +.....+|.+.|++.+|.++-
T Consensus       757 ~~n~~EA~KYiprv~----~----l~ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  757 QGNKDEAKKYIPRVG----G----LQEKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             cccHHHHhhhhhccC----C----hHHHHHHHHHhccHHHHHHHH
Confidence            888887777766542    1    125666777777777776543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.84  E-value=0.14  Score=39.26  Aligned_cols=194  Identities=14%  Similarity=-0.002  Sum_probs=87.6

Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhcCCC---cc-hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-----CCcHHHH
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKRGFN---AF-HIHVSNCLIDTYAKCGCIFSALKLFEDISVE-----RKNLVSW  156 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~  156 (331)
                      .|.....+|...+++++|...+.++.+.--.   +. -...|...+-..-+...+.++..+++++...     .|++.+.
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~GspdtAAm  112 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECGSPDTAAM  112 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcchHHH
Confidence            3444455666667777777666665532111   00 1112222223333334445555555444322     2222111


Q ss_pred             HHHHH--HHHccCChHHHHHHHHHHHhc---c--CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh---c-CCCCcHh
Q 048799          157 TSIIS--GFAMHGMGKEAVENFERMQKV---V--LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE---C-EVLPDIK  225 (331)
Q Consensus       157 ~~l~~--~~~~~~~~~~a~~~~~~m~~~---~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~-~~~~~~~  225 (331)
                       ++-.  -.....++++|+++|++...-   +  ..--...+......+.+...+.+|-..+.+-...   . ....-..
T Consensus       113 -aleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k  191 (308)
T KOG1585|consen  113 -ALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCK  191 (308)
T ss_pred             -HHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHH
Confidence             1111  123445566666666554321   0  0001122334444555556666655444432211   0 1111112


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcccC-----CccHHHHHHHHHHHhcCCchhHHHHHHH
Q 048799          226 HYGCLIDMLGRAGRLEQAEKVASGIPSE-----ITNVVVWRTLLGACSFHGNVEMGERVTR  281 (331)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~~~l~~~~~~~g~~~~a~~~~~  281 (331)
                      .|...|-.+.-..++..|.+.++.-.+.     ..+..+...|+.+| ..|+.+.+.+++.
T Consensus       192 ~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  192 AYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHHc
Confidence            3444454555666777777777774433     22456666777666 4466666555543

>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=96.83  E-value=0.11  Score=44.69  Aligned_cols=161  Identities=12%  Similarity=0.034  Sum_probs=89.9

Q ss_pred             HHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCH
Q 048799           57 GYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCI  136 (331)
Q Consensus        57 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  136 (331)
                      ...-.|+++++.+..+.-..-..+ | ......++.-+.+.|..+.|+++..          |+.   .-.+...+.|++
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~~i-~-~~~~~~i~~fL~~~G~~e~AL~~~~----------D~~---~rFeLAl~lg~L  334 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLPNI-P-KDQGQSIARFLEKKGYPELALQFVT----------DPD---HRFELALQLGNL  334 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-----------HH---HHHHHHHHCT-H
T ss_pred             HHHHcCChhhhhhhhhhhhhcccC-C-hhHHHHHHHHHHHCCCHHHHHhhcC----------ChH---HHhHHHHhcCCH
Confidence            345567777776666522111112 2 3346667777777777777777643          332   234556677888


Q ss_pred             hHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 048799          137 FSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       137 ~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  216 (331)
                      +.|.++.++.    .+...|..|.....+.|+++-|.+.|.+..+         |..|+-.|.-.|+.+.-.++.+....
T Consensus       335 ~~A~~~a~~~----~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~  401 (443)
T PF04053_consen  335 DIALEIAKEL----DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEE  401 (443)
T ss_dssp             HHHHHHCCCC----STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhc----CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHH
Confidence            8777765433    3566788888888888888888888776543         45555566667777776666666654


Q ss_pred             hcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhccc
Q 048799          217 ECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPS  252 (331)
Q Consensus       217 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  252 (331)
                      . |      -++....++.-.|++++..+++.+...
T Consensus       402 ~-~------~~n~af~~~~~lgd~~~cv~lL~~~~~  430 (443)
T PF04053_consen  402 R-G------DINIAFQAALLLGDVEECVDLLIETGR  430 (443)
T ss_dssp             T-T-------HHHHHHHHHHHT-HHHHHHHHHHTT-
T ss_pred             c-c------CHHHHHHHHHHcCCHHHHHHHHHHcCC
Confidence            4 2      133444455556777777777666543

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.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.80  E-value=0.041  Score=44.64  Aligned_cols=228  Identities=13%  Similarity=0.005  Sum_probs=116.9

Q ss_pred             HHhcCChhHHHHHHHHHHhccC-CCCchHHHHHHHHHHhhcCchhHHHHHH----hhhhhcCCCcchhHHHHHHHHHHHh
Q 048799           58 YTRMNRSNGALALFRRMVACEY-TEPSEITILAVFPAIWQNGDVRNCQLIH----GYGEKRGFNAFHIHVSNCLIDTYAK  132 (331)
Q Consensus        58 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~----~~~~~~~~~~~~~~~~~~l~~~~~~  132 (331)
                      +...++.++|+..+.+.+.... ....-.++..+..+.++.|.+++++..-    +.+.+......-...|..+.+++-+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566777888877776533211 1112235555666777777776665432    2222211110012344444555555


Q ss_pred             cCCHhHHHHHHHHhhhc---CC---cHHHHHHHHHHHHccCChHHHHHHHHHHHhcc---CCC--CHHHHHHHHHHHhcc
Q 048799          133 CGCIFSALKLFEDISVE---RK---NLVSWTSIISGFAMHGMGKEAVENFERMQKVV---LKP--NRVTFLSVLNACSHG  201 (331)
Q Consensus       133 ~g~~~~A~~~~~~~~~~---~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~---~~p--~~~~~~~l~~~~~~~  201 (331)
                      .-++.+++.+-..-...   .+   .-.....+..++.-.+.++++++.|+...+--   -.|  ....+..|...|.+.
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            55555555554433322   11   11223345556666667777777777665421   111  124566677777777


Q ss_pred             CChHHHHHHHHHHHHh---cCCCCcHhhH-----HHHHHHHHhcCCHHHHHHHHhhcccC---CccH----HHHHHHHHH
Q 048799          202 GLVEEGLKFFDKMVEE---CEVLPDIKHY-----GCLIDMLGRAGRLEQAEKVASGIPSE---ITNV----VVWRTLLGA  266 (331)
Q Consensus       202 ~~~~~a~~~~~~~~~~---~~~~~~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~---~p~~----~~~~~l~~~  266 (331)
                      .++++|.-+..++.+.   +++..=..-|     ..+.-++...|.+.+|.+..++..+.   .-|.    .....+.+.
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            7777777666655432   1222111112     22334455666666666666665443   2222    333445566


Q ss_pred             HhcCCchhHHHHHHHHHHH
Q 048799          267 CSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       267 ~~~~g~~~~a~~~~~~~~~  285 (331)
                      |...|+.+.|..-|+.+..
T Consensus       256 yR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHhcccHhHHHHHHHHHHH
Confidence            7777777777777776664

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.79  E-value=0.11  Score=37.51  Aligned_cols=123  Identities=11%  Similarity=0.067  Sum_probs=62.6

Q ss_pred             hhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHH-----HHHHHccCCh
Q 048799           95 WQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSI-----ISGFAMHGMG  169 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l-----~~~~~~~~~~  169 (331)
                      .+.+..++|+.-|..+.+.|......-..-.........|+...|...|.++-...+.+....-+     .-.+...|-+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            34555666666666666655443222222233344555666666666666665443222222111     1123455666


Q ss_pred             HHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          170 KEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       170 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      ++.....+-+-..+.+--...-..|.-+-.+.|++.+|...|..+...
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            666665555544443333334445555555666666666666666554

>PRK11906 transcriptional regulator; Provisional

Probab=96.76  E-value=0.023  Score=47.87  Aligned_cols=120  Identities=13%  Similarity=0.064  Sum_probs=61.3

Q ss_pred             hHHHHHHHHHHHhc-cCCCC-HHHHHHHHHHHhcc---------CChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhc
Q 048799          169 GKEAVENFERMQKV-VLKPN-RVTFLSVLNACSHG---------GLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRA  237 (331)
Q Consensus       169 ~~~a~~~~~~m~~~-~~~p~-~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  237 (331)
                      .+.|..+|.+.... ...|+ ...|..+..++...         .+..+|.++-++..+.  -+-|......+..++.-.
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAvel--d~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDI--TTVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHhh
Confidence            44566666666521 13343 23444443333211         1233444455555442  122555555555555555


Q ss_pred             CCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          238 GRLEQAEKVASGIPSEITN-VVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       238 g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      |+++.|..+|+++....|+ ..+|......+.-.|+.++|.+.++++.+++|..
T Consensus       352 ~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~  405 (458)
T PRK11906        352 GQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRR  405 (458)
T ss_pred             cchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchh
Confidence            6666666666666665443 3444444445555666666666666666666653

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.67  E-value=0.32  Score=40.97  Aligned_cols=63  Identities=14%  Similarity=0.013  Sum_probs=52.0

Q ss_pred             cHHHHHHHHHH--HhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          256 NVVVWRTLLGA--CSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       256 ~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      +...-|.|..+  +...|++.++.-.-..+.+..| ++.+|..++..+....++++|+.++..+..
T Consensus       459 e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~  523 (549)
T PF07079_consen  459 EEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKLPP  523 (549)
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhCCC
Confidence            34555666655  5678999999998888888999 669999999999999999999999987643

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=96.65  E-value=0.17  Score=38.22  Aligned_cols=182  Identities=13%  Similarity=0.057  Sum_probs=108.7

Q ss_pred             hcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCH-HHHHHHHHHHhccCChHHHHH
Q 048799          132 KCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNR-VTFLSVLNACSHGGLVEEGLK  209 (331)
Q Consensus       132 ~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~  209 (331)
                      ..|-++-|.--|.+.....|+ +..||.+.--+...|+++.|.+.|+...+..  |+- .+...-.-++.-.|+++-|.+
T Consensus        77 SlGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELD--p~y~Ya~lNRgi~~YY~gR~~LAq~  154 (297)
T COG4785          77 SLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--PTYNYAHLNRGIALYYGGRYKLAQD  154 (297)
T ss_pred             hhhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccC--CcchHHHhccceeeeecCchHhhHH
Confidence            334455555556666555664 6789999989999999999999999988743  432 222222223446789999988


Q ss_pred             HHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHH-HHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhc
Q 048799          210 FFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEK-VASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMER  288 (331)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  288 (331)
                      -+...-+...-.|-...|.-+.   -+.-++.+|.. +.++....  +..-|...|-.|.- |+.. ...+++.+.+...
T Consensus       155 d~~~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~~--d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~  227 (297)
T COG4785         155 DLLAFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEKS--DKEQWGWNIVEFYL-GKIS-EETLMERLKADAT  227 (297)
T ss_pred             HHHHHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHhc--cHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhcc
Confidence            7777665412222222332222   23445666654 44555554  44444444333321 2221 1334444444222


Q ss_pred             CC-------CccHHHHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          289 GY-------GGDYVLMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       289 ~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      ++       .++|..++.-+...|..++|..+|+.....++
T Consensus       228 ~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         228 DNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             chHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            22       36788899999999999999999987766543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.64  E-value=0.022  Score=45.59  Aligned_cols=160  Identities=14%  Similarity=0.033  Sum_probs=112.1

Q ss_pred             ccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhH----HHHHHHHHhcCCH
Q 048799          165 MHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHY----GCLIDMLGRAGRL  240 (331)
Q Consensus       165 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~g~~  240 (331)
                      -.|++-+|-..++++.+. .+.|...+..-=.+|...|+...-...++++...  -.++...|    ..+.-++..+|-+
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            467777777778888764 5556677777777888899988888888887753  23444333    3444556788999


Q ss_pred             HHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC----CCccHHHHHHHHhhhccCcchHHHHH
Q 048799          241 EQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERG----YGGDYVLMYNILAGVWRYGDAERLRR  315 (331)
Q Consensus       241 ~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~  315 (331)
                      ++|++.-++..+. +.|......+...+-..|+..++.+...+-...-..    -...|-..+..+...+.++.|+.+|+
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9999999988877 446666777777788889999988887765541111    12445556667777799999999997


Q ss_pred             HHhhccccCCCC
Q 048799          316 VVDERNALKFPG  327 (331)
Q Consensus       316 ~~~~~~~~~~~~  327 (331)
                      .-.-..+.++.+
T Consensus       272 ~ei~k~l~k~Da  283 (491)
T KOG2610|consen  272 REIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHhhccch
Confidence            765555544443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.62  E-value=0.007  Score=30.70  Aligned_cols=33  Identities=27%  Similarity=0.230  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          258 VVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       258 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      ..|..+..++...|++++|++.++++++++|++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            456778888888899999999999998888864

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 ....

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.61  E-value=0.34  Score=43.98  Aligned_cols=174  Identities=14%  Similarity=0.100  Sum_probs=111.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhCCCCCchhHHH----HHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhc
Q 048799           22 VMITGLVKWGELEYARSLFEEMPCRNVVSWTG----IIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQN   97 (331)
Q Consensus        22 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   97 (331)
                      .-++.+.+..-++-|+.+-+.-.. +..+...    ..+-+.+.|++++|...|-+..  +-+.|..     ++.-|...
T Consensus       339 ~kL~iL~kK~ly~~Ai~LAk~~~~-d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI--~~le~s~-----Vi~kfLda  410 (933)
T KOG2114|consen  339 TKLDILFKKNLYKVAINLAKSQHL-DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETI--GFLEPSE-----VIKKFLDA  410 (933)
T ss_pred             HHHHHHHHhhhHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHc--ccCChHH-----HHHHhcCH
Confidence            356666777777888877766543 2333333    3344567899999999887752  2233432     45556667


Q ss_pred             CchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHH
Q 048799           98 GDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFE  177 (331)
Q Consensus        98 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  177 (331)
                      ....+-..+++.+.+.|..  +...-..|+.+|.+.++.++-.++.+... .+.-..-....+..+.+.+-.++|.-+-.
T Consensus       411 q~IknLt~YLe~L~~~gla--~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~~fd~e~al~Ilr~snyl~~a~~LA~  487 (933)
T KOG2114|consen  411 QRIKNLTSYLEALHKKGLA--NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEWFFDVETALEILRKSNYLDEAELLAT  487 (933)
T ss_pred             HHHHHHHHHHHHHHHcccc--cchhHHHHHHHHHHhcchHHHHHHHhcCC-CcceeeeHHHHHHHHHHhChHHHHHHHHH
Confidence            7777778888899999887  55566789999999999998888777553 11111123445566666676777666554


Q ss_pred             HHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHH
Q 048799          178 RMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKM  214 (331)
Q Consensus       178 ~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  214 (331)
                      +...     +......++   -..+++++|.+++..+
T Consensus       488 k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  488 KFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             Hhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            4321     333334343   4567888888887655

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.59  E-value=0.31  Score=43.01  Aligned_cols=245  Identities=12%  Similarity=0.073  Sum_probs=136.6

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHhhCC-----------CCCchhHHHHHHHHHhcCCh--hHHHHHHHHHHhccCCCCc
Q 048799           17 LVTWNVMITGLVKWGELEYARSLFEEMP-----------CRNVVSWTGIIDGYTRMNRS--NGALALFRRMVACEYTEPS   83 (331)
Q Consensus        17 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~   83 (331)
                      ...+.+-+.-|...|.+++|.++----.           .-++..++..=.+|.+.++.  -+.+.-++++ ++.|..|+
T Consensus       556 evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~-k~rge~P~  634 (1081)
T KOG1538|consen  556 EVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAMEALEALDFETARKAYIRVRDLRYLELISELEER-KKRGETPN  634 (1081)
T ss_pred             cccccccchhhhhccchhhhhcccccceecchHHHHHHHHHhhhhhHHHHHHHHHHhccHHHHHHHHHHHH-HhcCCCch
Confidence            3345555666777888877765422111           01222334444455554443  3344445666 55666677


Q ss_pred             hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc------------CC
Q 048799           84 EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE------------RK  151 (331)
Q Consensus        84 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------------~~  151 (331)
                      ...   +...++-.|.+.+|-++|.+.-..          +..++.|.....+|.|.++.......            ..
T Consensus       635 ~iL---lA~~~Ay~gKF~EAAklFk~~G~e----------nRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr  701 (1081)
T KOG1538|consen  635 DLL---LADVFAYQGKFHEAAKLFKRSGHE----------NRALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWAR  701 (1081)
T ss_pred             HHH---HHHHHHhhhhHHHHHHHHHHcCch----------hhHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhh
Confidence            643   455667778888888888654322          22334444445555555544322110            00


Q ss_pred             cHHHHHHHHHHHHccCChHHHHHHHHH------HHhccCC---CCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC
Q 048799          152 NLVSWTSIISGFAMHGMGKEAVENFER------MQKVVLK---PNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP  222 (331)
Q Consensus       152 ~~~~~~~l~~~~~~~~~~~~a~~~~~~------m~~~~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  222 (331)
                      +..-=.+....+...|+.++|+.+.-+      +.+-+.+   .+..+...+...+-+...+.-|-++|..|-..     
T Consensus       702 ~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~-----  776 (1081)
T KOG1538|consen  702 NIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL-----  776 (1081)
T ss_pred             hcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH-----
Confidence            110011233455667777777765422      1221211   23344554555555666677788888877432     


Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccH-----------HHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNV-----------VVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-----------~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                           ..+++.....+++.+|..+-++..+..|+.           .-+..--.+|.+.|+-.+|.++++++..
T Consensus       777 -----ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  777 -----KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             -----HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence                 246777888999999999988877763432           1122233578888888889888888765

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.58  E-value=0.0052  Score=31.26  Aligned_cols=32  Identities=19%  Similarity=0.166  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          258 VVWRTLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       258 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      .+|..++.++...|++++|+..|+++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            46778888888889999999999999888876

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 ....

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.52  E-value=0.011  Score=32.25  Aligned_cols=29  Identities=17%  Similarity=0.063  Sum_probs=14.8

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHhhhcCC
Q 048799          123 SNCLIDTYAKCGCIFSALKLFEDISVERK  151 (331)
Q Consensus       123 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  151 (331)
                      +..+...|...|++++|.++|+++.+..|
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P   32 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALALDP   32 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            34445555555555555555555554444

>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=96.52  E-value=0.28  Score=42.26  Aligned_cols=158  Identities=13%  Similarity=0.019  Sum_probs=103.8

Q ss_pred             HHHHHHcCCHHHHHHHHh--hCC-CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCch
Q 048799           24 ITGLVKWGELEYARSLFE--EMP-CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDV  100 (331)
Q Consensus        24 ~~~~~~~g~~~~A~~~~~--~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  100 (331)
                      .....-.|+++++.++.+  ++. .-+....+.++.-+-+.|..+.|+++-++-          .   .-.....+.|++
T Consensus       268 fk~av~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~----------~---~rFeLAl~lg~L  334 (443)
T PF04053_consen  268 FKTAVLRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDP----------D---HRFELALQLGNL  334 (443)
T ss_dssp             HHHHHHTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-H----------H---HHHHHHHHCT-H
T ss_pred             HHHHHHcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCCh----------H---HHhHHHHhcCCH
Confidence            345566889999666655  222 112445788888888999999998765442          1   233445678999


Q ss_pred             hHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 048799          101 RNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQ  180 (331)
Q Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  180 (331)
                      +.|.++.++..       +...|..|.+...+.|+++-|++.|++..       -|..|+-.|.-.|+.+.-.++.+...
T Consensus       335 ~~A~~~a~~~~-------~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~-------d~~~L~lLy~~~g~~~~L~kl~~~a~  400 (443)
T PF04053_consen  335 DIALEIAKELD-------DPEKWKQLGDEALRQGNIELAEECYQKAK-------DFSGLLLLYSSTGDREKLSKLAKIAE  400 (443)
T ss_dssp             HHHHHHCCCCS-------THHHHHHHHHHHHHTTBHHHHHHHHHHCT--------HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-------cHHHHHHHHHHHHHcCCHHHHHHHHHhhc-------CccccHHHHHHhCCHHHHHHHHHHHH
Confidence            99988876543       66789999999999999999999999873       35666667778898888888877766


Q ss_pred             hccCCCCHHHHHHHHHHHhccCChHHHHHHHHHH
Q 048799          181 KVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKM  214 (331)
Q Consensus       181 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  214 (331)
                      ..|.      ++....++...|+.++..+++.+.
T Consensus       401 ~~~~------~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  401 ERGD------INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             HTT-------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HccC------HHHHHHHHHHcCCHHHHHHHHHHc
Confidence            6552      445555566678888888777654

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.46  E-value=0.16  Score=34.97  Aligned_cols=54  Identities=19%  Similarity=0.257  Sum_probs=22.6

Q ss_pred             HHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          232 DMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       232 ~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      ..+...|+-+.-.+++..+... .+++.....+..+|.+.|+..++.++++++-+
T Consensus        94 d~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACe  148 (161)
T PF09205_consen   94 DILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACE  148 (161)
T ss_dssp             HHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            3344444444444444444322 34444444445555555555555555544443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.43  E-value=0.047  Score=37.36  Aligned_cols=53  Identities=13%  Similarity=-0.007  Sum_probs=25.6

Q ss_pred             HhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhh
Q 048799           94 IWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISV  148 (331)
Q Consensus        94 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  148 (331)
                      +...|+++.|++.|.+.+..-+.  ..++||.-..++.-.|+.++|+.-+++..+
T Consensus        53 laE~g~Ld~AlE~F~qal~l~P~--raSayNNRAQa~RLq~~~e~ALdDLn~Ale  105 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLAPE--RASAYNNRAQALRLQGDDEEALDDLNKALE  105 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhccc--chHhhccHHHHHHHcCChHHHHHHHHHHHH
Confidence            34445555555555554444322  444555555555555555555554444443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=96.36  E-value=0.56  Score=40.25  Aligned_cols=180  Identities=10%  Similarity=-0.012  Sum_probs=112.1

Q ss_pred             CCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHH
Q 048799           81 EPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSII  160 (331)
Q Consensus        81 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~  160 (331)
                      +.|.....+++..+.....+.-...+..++...|.   +...+..++.+|... .-+.-..+++++.+..-+......-+
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e---~kmal~el~q~y~en-~n~~l~~lWer~ve~dfnDvv~~ReL  138 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGE---SKMALLELLQCYKEN-GNEQLYSLWERLVEYDFNDVVIGREL  138 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhcc---hHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcchhHHHHHHH
Confidence            45556677778888888888888888888887765   456667788888877 55666777777766554444444333


Q ss_pred             HHHHccCChHHHHHHHHHHHhccCCCC------HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHH
Q 048799          161 SGFAMHGMGKEAVENFERMQKVVLKPN------RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDML  234 (331)
Q Consensus       161 ~~~~~~~~~~~a~~~~~~m~~~~~~p~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  234 (331)
                      ..+...++.+.+..+|.++... +.|-      ...|..|....  ..+.+....+...+.+..|...-...+.-+-.-|
T Consensus       139 a~~yEkik~sk~a~~f~Ka~yr-fI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         139 ADKYEKIKKSKAAEFFGKALYR-FIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHHhchhhHHHHHHHHHHH-hcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            3334447777777777776543 2221      12344444321  3456666666666666545544555556666677


Q ss_pred             HhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHH
Q 048799          235 GRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGAC  267 (331)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~  267 (331)
                      ....++.+|.+++..+.+. ..|...-..++.-+
T Consensus       216 s~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~l  249 (711)
T COG1747         216 SENENWTEAIRILKHILEHDEKDVWARKEIIENL  249 (711)
T ss_pred             ccccCHHHHHHHHHHHhhhcchhhhHHHHHHHHH
Confidence            7788888888888877666 44444444444433

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.32  E-value=0.36  Score=37.54  Aligned_cols=56  Identities=16%  Similarity=0.046  Sum_probs=33.8

Q ss_pred             hhcCchhHHHHHHhhhhhcCC-CcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC
Q 048799           95 WQNGDVRNCQLIHGYGEKRGF-NAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVER  150 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  150 (331)
                      .+.|++++|...|+.+....+ .|....+...++-++.+.++++.|+...++.....
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~ly  101 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLY  101 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhC
Confidence            355666666666666655432 22244455556666777777777777777766553

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.24  E-value=0.25  Score=35.00  Aligned_cols=42  Identities=17%  Similarity=0.041  Sum_probs=21.0

Q ss_pred             HHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhc
Q 048799           90 VFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKC  133 (331)
Q Consensus        90 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  133 (331)
                      ++..+...+.......+++.+...+. . +...++.++..|++.
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~~-~-~~~~~~~li~ly~~~   54 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLNS-E-NPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccCc-c-chhHHHHHHHHHHHH
Confidence            34444444455555555555555442 2 455555555555544

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.19  E-value=0.015  Score=42.98  Aligned_cols=103  Identities=16%  Similarity=0.014  Sum_probs=74.6

Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCCc-----HhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhc
Q 048799          196 NACSHGGLVEEGLKFFDKMVEECEVLPD-----IKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGACSF  269 (331)
Q Consensus       196 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~  269 (331)
                      .-+...|++++|..-|..+++.  +++.     ...|..-.-++.+.+.++.|..-..++++..|+ ......-..+|-+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHh
Confidence            3467899999999999999875  3332     234444556778889999999988888877342 2333344567888


Q ss_pred             CCchhHHHHHHHHHHHhhcCCCccHHHHHHH
Q 048799          270 HGNVEMGERVTRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       270 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      ...++.|+.-|+++.+.+|....+....+++
T Consensus       181 ~ek~eealeDyKki~E~dPs~~ear~~i~rl  211 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILESDPSRREAREAIARL  211 (271)
T ss_pred             hhhHHHHHHHHHHHHHhCcchHHHHHHHHhc
Confidence            8999999999999999988875554444443

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

Probab=96.15  E-value=0.08  Score=41.52  Aligned_cols=89  Identities=16%  Similarity=0.225  Sum_probs=54.4

Q ss_pred             CCcHHHHHHHHHHHHc-----cCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccC----------------ChHHHH
Q 048799          150 RKNLVSWTSIISGFAM-----HGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGG----------------LVEEGL  208 (331)
Q Consensus       150 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~----------------~~~~a~  208 (331)
                      ..+-.+|...+..+..     .+..+-....++.|.+.|+.-|..+|+.|++.+-+..                +-+-++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            3444555555554432     2344555555666667777777777777766554321                123456


Q ss_pred             HHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC
Q 048799          209 KFFDKMVEECEVLPDIKHYGCLIDMLGRAGR  239 (331)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (331)
                      +++++|... |+.||-.+-..++.++.+.|-
T Consensus       144 ~vLeqME~h-GVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWH-GVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHc-CCCCchHHHHHHHHHhccccc
Confidence            777777666 777877777777777776654

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.05  E-value=1.1  Score=40.44  Aligned_cols=285  Identities=12%  Similarity=0.048  Sum_probs=164.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhCCCCC---chhHHHHHHHHHhcCCh--hHHHHHHHHHHhccCCCCchHHHHHHHHHHhh
Q 048799           22 VMITGLVKWGELEYARSLFEEMPCRN---VVSWTGIIDGYTRMNRS--NGALALFRRMVACEYTEPSEITILAVFPAIWQ   96 (331)
Q Consensus        22 ~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   96 (331)
                      .+++-+...+.+..|+++-+.+..|.   ...|.....-+.+..+.  +++++.+.+=.... . .....|..+.+....
T Consensus       442 ~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~-~-~~~iSy~~iA~~Ay~  519 (829)
T KOG2280|consen  442 VVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK-L-TPGISYAAIARRAYQ  519 (829)
T ss_pred             hhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhccc-C-CCceeHHHHHHHHHh
Confidence            45666778889999999988887665   45666666666665322  23333333221211 2 334567777777778


Q ss_pred             cCchhHHHHHHhhhhhcCCCcc---hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc------------CC-cHHHHHHHH
Q 048799           97 NGDVRNCQLIHGYGEKRGFNAF---HIHVSNCLIDTYAKCGCIFSALKLFEDISVE------------RK-NLVSWTSII  160 (331)
Q Consensus        97 ~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------------~~-~~~~~~~l~  160 (331)
                      .|+.+.|..+++.=...+...+   +..-+..-+.-..+.|+.+-...++..+...            .| ....|.-++
T Consensus       520 ~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~~  599 (829)
T KOG2280|consen  520 EGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYRQFM  599 (829)
T ss_pred             cCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHH
Confidence            8999888887764322221100   1112233344455666666655555544332            12 122233222


Q ss_pred             H--------HHHccCChHHHHHHHH--HHH----hccCCCCHHHHHHHHHHHhccCC----------hHHHHHHHHHHHH
Q 048799          161 S--------GFAMHGMGKEAVENFE--RMQ----KVVLKPNRVTFLSVLNACSHGGL----------VEEGLKFFDKMVE  216 (331)
Q Consensus       161 ~--------~~~~~~~~~~a~~~~~--~m~----~~~~~p~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~  216 (331)
                      .        .+.+.++-.+++..|.  ...    ..|..|+..   ....++.+...          ..+-..+.+.+..
T Consensus       600 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  600 RHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALK---TAANAFAKSKEKSFEAKALEDQMKLLKLQRTLED  676 (829)
T ss_pred             HhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHH---HHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            2        1112222222222221  100    012233332   23333433322          1122334444444


Q ss_pred             hcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHH
Q 048799          217 ECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVL  296 (331)
Q Consensus       217 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  296 (331)
                      +++..-..-+.+--+.-+...|+..+|.++-.+..-  |+...|..-+.+++..+++++-+++.+...     .|.-|.-
T Consensus       677 q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki--pdKr~~wLk~~aLa~~~kweeLekfAkskk-----sPIGy~P  749 (829)
T KOG2280|consen  677 QFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKI--PDKRLWWLKLTALADIKKWEELEKFAKSKK-----SPIGYLP  749 (829)
T ss_pred             HhccccccCcHHHHHHHHHHccchHHHHHHHHhcCC--cchhhHHHHHHHHHhhhhHHHHHHHHhccC-----CCCCchh
Confidence            445444444556666778889999999999888775  799999999999999999988777665432     2577889


Q ss_pred             HHHHHhhhccCcchHHHHHHHh
Q 048799          297 MYNILAGVWRYGDAERLRRVVD  318 (331)
Q Consensus       297 l~~~~~~~g~~~~a~~~~~~~~  318 (331)
                      +..+|.+.|+.++|.+++-++.
T Consensus       750 FVe~c~~~~n~~EA~KYiprv~  771 (829)
T KOG2280|consen  750 FVEACLKQGNKDEAKKYIPRVG  771 (829)
T ss_pred             HHHHHHhcccHHHHhhhhhccC
Confidence            9999999999999999887653

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=96.00  E-value=0.56  Score=36.78  Aligned_cols=51  Identities=10%  Similarity=0.044  Sum_probs=26.5

Q ss_pred             cCChhHHHHHHHHHHhccCCCCc--hHHHHHHHHHHhhcCchhHHHHHHhhhh
Q 048799           61 MNRSNGALALFRRMVACEYTEPS--EITILAVFPAIWQNGDVRNCQLIHGYGE  111 (331)
Q Consensus        61 ~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  111 (331)
                      ..++++|++-|++.+.-.|-+-+  -.+...++....+.+++++....|.+++
T Consensus        40 e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlL   92 (440)
T KOG1464|consen   40 EDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLL   92 (440)
T ss_pred             ccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            34566666666666443332222  1233445555566666666665555543

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=95.97  E-value=0.57  Score=36.71  Aligned_cols=262  Identities=15%  Similarity=0.112  Sum_probs=156.2

Q ss_pred             CchHHHHHHHHHH-HHHcCCHHHHHHHHhhCCC--C-----CchhHHHHHHHHHhcCChhHHHHHHHHHHhc--cCC--C
Q 048799           14 ERNLVTWNVMITG-LVKWGELEYARSLFEEMPC--R-----NVVSWTGIIDGYTRMNRSNGALALFRRMVAC--EYT--E   81 (331)
Q Consensus        14 ~p~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~--~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~--~   81 (331)
                      +||+..=|..-.. -.+..++++|+.-|.+..+  +     ...+...++....+.|++++....|.+++.-  ..+  .
T Consensus        23 EpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrN  102 (440)
T KOG1464|consen   23 EPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRN  102 (440)
T ss_pred             CCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhcc
Confidence            6766554433222 1345688999999988652  2     2235567888899999999999988887321  111  2


Q ss_pred             CchHHHHHHHHHHhhcCchhHHHHHHhhhhhc----CCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-----C--
Q 048799           82 PSEITILAVFPAIWQNGDVRNCQLIHGYGEKR----GFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-----R--  150 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~--  150 (331)
                      -+..+.+.++...+.+.+.+....+|+.-++.    ......-.+-+.|...|...|.+.+..++++++...     +  
T Consensus       103 ySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGed  182 (440)
T KOG1464|consen  103 YSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGED  182 (440)
T ss_pred             ccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCch
Confidence            23456777777777777777777766654332    111001123356888899999999999999888654     0  


Q ss_pred             ---C---cHHHHHHHHHHHHccCChHHHHHHHHHHHhc-cCCCCHHHHHHHHHHH-----hccCChHHHHHHHHHHHHhc
Q 048799          151 ---K---NLVSWTSIISGFAMHGMGKEAVENFERMQKV-VLKPNRVTFLSVLNAC-----SHGGLVEEGLKFFDKMVEEC  218 (331)
Q Consensus       151 ---~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~~  218 (331)
                         .   -...|..=|..|...++-.+...+|++...- .-.|.+.... +|+-|     .+.|.+++|..-|-++.+.+
T Consensus       183 D~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhTDFFEAFKNY  261 (440)
T KOG1464|consen  183 DQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHTDFFEAFKNY  261 (440)
T ss_pred             hhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHhHHHHHHhcc
Confidence               0   1245777788888888888888888876543 2345555444 33333     35688888865554444432


Q ss_pred             ---CCCC--cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC----CccHHHHHHHHHHHhcCCchhHHHHHHHH
Q 048799          219 ---EVLP--DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE----ITNVVVWRTLLGACSFHGNVEMGERVTRK  282 (331)
Q Consensus       219 ---~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (331)
                         |-+.  ..--|..|..++.+.|--     =|+.-...    .|.......++.+|.. ++..+-+++++.
T Consensus       262 DEsGspRRttCLKYLVLANMLmkS~iN-----PFDsQEAKPyKNdPEIlAMTnlv~aYQ~-NdI~eFE~Il~~  328 (440)
T KOG1464|consen  262 DESGSPRRTTCLKYLVLANMLMKSGIN-----PFDSQEAKPYKNDPEILAMTNLVAAYQN-NDIIEFERILKS  328 (440)
T ss_pred             cccCCcchhHHHHHHHHHHHHHHcCCC-----CCcccccCCCCCCHHHHHHHHHHHHHhc-ccHHHHHHHHHh
Confidence               2221  122345555566555421     11111111    4566777888888854 455544444443

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=95.93  E-value=0.026  Score=28.54  Aligned_cols=32  Identities=19%  Similarity=0.120  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          258 VVWRTLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       258 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      .+|..+...|...|++++|.+.|+++.+++|+
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            35677788888888889999888888888874

...

>PRK09687 putative lyase; Provisional

Probab=95.92  E-value=0.7  Score=37.24  Aligned_cols=239  Identities=12%  Similarity=-0.080  Sum_probs=125.5

Q ss_pred             HhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCch----hHHHHHHhhhhhcCC
Q 048799           40 FEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDV----RNCQLIHGYGEKRGF  115 (331)
Q Consensus        40 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~  115 (331)
                      ++.+..+|.......+.++...|.. ++...+..+..    .+|...-...+.++...|+.    +++...+..+.... 
T Consensus        29 ~~~L~d~d~~vR~~A~~aL~~~~~~-~~~~~l~~ll~----~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D-  102 (280)
T PRK09687         29 FRLLDDHNSLKRISSIRVLQLRGGQ-DVFRLAIELCS----SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALED-  102 (280)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcCcc-hHHHHHHHHHh----CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcC-
Confidence            3333456666666666666666643 33333444422    24445555556666666653    34555555553332 


Q ss_pred             CcchhHHHHHHHHHHHhcCCH-----hHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHH
Q 048799          116 NAFHIHVSNCLIDTYAKCGCI-----FSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVT  190 (331)
Q Consensus       116 ~~~~~~~~~~l~~~~~~~g~~-----~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  190 (331)
                       + +..+....+.++...+.-     ..+...+..... .++..+-...+.++.+.++ +.++..+-.+.+.   ++...
T Consensus       103 -~-d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~-D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~V  175 (280)
T PRK09687        103 -K-SACVRASAINATGHRCKKNPLYSPKIVEQSQITAF-DKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDV  175 (280)
T ss_pred             -C-CHHHHHHHHHHHhcccccccccchHHHHHHHHHhh-CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHH
Confidence             2 444444455555544321     223333333321 3344455556666666665 4566666555542   44444


Q ss_pred             HHHHHHHHhccC-ChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhc
Q 048799          191 FLSVLNACSHGG-LVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSF  269 (331)
Q Consensus       191 ~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~  269 (331)
                      -...+.++.+.+ ..+.+...+..+..    .++..+...-+.++.+.|+. .|...+-...+. ++  .....+.++..
T Consensus       176 R~~A~~aLg~~~~~~~~~~~~L~~~L~----D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~-~~--~~~~a~~ALg~  247 (280)
T PRK09687        176 RNWAAFALNSNKYDNPDIREAFVAMLQ----DKNEEIRIEAIIGLALRKDK-RVLSVLIKELKK-GT--VGDLIIEAAGE  247 (280)
T ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHhc----CCChHHHHHHHHHHHccCCh-hHHHHHHHHHcC-Cc--hHHHHHHHHHh
Confidence            445555555543 23455666655554    34666677777777777774 444444444443 23  23456677777


Q ss_pred             CCchhHHHHHHHHHHHhhcCCCccHHHHHHHH
Q 048799          270 HGNVEMGERVTRKILEMERGYGGDYVLMYNIL  301 (331)
Q Consensus       270 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  301 (331)
                      .|.. +|...+..+.+..|+. ........++
T Consensus       248 ig~~-~a~p~L~~l~~~~~d~-~v~~~a~~a~  277 (280)
T PRK09687        248 LGDK-TLLPVLDTLLYKFDDN-EIITKAIDKL  277 (280)
T ss_pred             cCCH-hHHHHHHHHHhhCCCh-hHHHHHHHHH
Confidence            7774 5777777777655533 4444444443

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.91  E-value=0.46  Score=35.25  Aligned_cols=96  Identities=18%  Similarity=0.128  Sum_probs=41.9

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhccCCCCH--HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcH------hhH
Q 048799          156 WTSIISGFAMHGMGKEAVENFERMQKVVLKPNR--VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDI------KHY  227 (331)
Q Consensus       156 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~  227 (331)
                      +..+...|++.|+.+.|++.|.++.+....|..  ..+..++......+++..+...+.++........|.      ..|
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~  118 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKVY  118 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            444445555555555555555554443222221  223344444444555555555544443321110111      112


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          228 GCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      ..+.  +...+++.+|-+.|-.....
T Consensus       119 ~gL~--~l~~r~f~~AA~~fl~~~~t  142 (177)
T PF10602_consen  119 EGLA--NLAQRDFKEAAELFLDSLST  142 (177)
T ss_pred             HHHH--HHHhchHHHHHHHHHccCcC
Confidence            2221  33456676666666655443

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.90  E-value=0.15  Score=40.46  Aligned_cols=59  Identities=10%  Similarity=0.287  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 048799          122 VSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQ  180 (331)
Q Consensus       122 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  180 (331)
                      ++..++..+...|+++.+.+.+++.....| +...|..++.+|.+.|+...|+..|+++.
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            344455555555556666555555554444 45555566666666666666665555544

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.88  E-value=0.75  Score=37.32  Aligned_cols=153  Identities=8%  Similarity=-0.022  Sum_probs=95.3

Q ss_pred             HHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhc-cCCCCHHHH--HHHHHHHhccCChH
Q 048799          130 YAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKV-VLKPNRVTF--LSVLNACSHGGLVE  205 (331)
Q Consensus       130 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~--~~l~~~~~~~~~~~  205 (331)
                      ....|+..+|-..++++.+..| |..+++..=.++...|+.+.-...+++.... +......+|  ..+.-++...|-++
T Consensus       113 ~~~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  113 LWGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             hhccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            3445777777777777776644 5666776667777788877777777776653 211111222  23333445677888


Q ss_pred             HHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-C-c---cHHHHHHHHHHHhcCCchhHHHHHH
Q 048799          206 EGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-I-T---NVVVWRTLLGACSFHGNVEMGERVT  280 (331)
Q Consensus       206 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~-p---~~~~~~~l~~~~~~~g~~~~a~~~~  280 (331)
                      +|++.-++..+. + +-|...-.+....+--.|++.++.+++.+-... . .   -...|....-.+...+.++.|+++|
T Consensus       193 dAEk~A~ralqi-N-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  193 DAEKQADRALQI-N-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             hHHHHHHhhccC-C-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            888877777643 1 225556666666677778888888887776655 1 1   1223444445556667888888888


Q ss_pred             HHHH
Q 048799          281 RKIL  284 (331)
Q Consensus       281 ~~~~  284 (331)
                      +.-+
T Consensus       271 D~ei  274 (491)
T KOG2610|consen  271 DREI  274 (491)
T ss_pred             HHHH
Confidence            7544

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.87  E-value=1.5  Score=41.70  Aligned_cols=140  Identities=21%  Similarity=0.117  Sum_probs=73.1

Q ss_pred             HHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChH
Q 048799          126 LIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVE  205 (331)
Q Consensus       126 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  205 (331)
                      .++.--+.|.+++|+.++..-.  ...-..|.+....+.....+++|.-.|+..-+         ...-+.+|...|++.
T Consensus       914 ~~n~I~kh~Ly~~aL~ly~~~~--e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr  982 (1265)
T KOG1920|consen  914 CKNYIKKHGLYDEALALYKPDS--EKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWR  982 (1265)
T ss_pred             HHHHHHhcccchhhhheeccCH--HHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHH
Confidence            3344445555666655543110  11123344445555566677777766665422         223455666777777


Q ss_pred             HHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHH
Q 048799          206 EGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKIL  284 (331)
Q Consensus       206 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  284 (331)
                      +|..+..++..  +-..-..+-..|+.-+...+++-+|-++..+.... |     ...+..+++...+++|..+.....
T Consensus       983 ~~l~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd-~-----~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen  983 EALSLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSD-P-----EEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC-H-----HHHHHHHhhHhHHHHHHHHHHhcc
Confidence            77777766643  11111122255666677777777777777776654 1     112233344445555555554443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.83  E-value=1  Score=38.62  Aligned_cols=73  Identities=11%  Similarity=0.037  Sum_probs=53.3

Q ss_pred             HHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-CCc--HHHHHHHH
Q 048799           88 LAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-RKN--LVSWTSII  160 (331)
Q Consensus        88 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~--~~~~~~l~  160 (331)
                      ..+..++.+.|+.++|++.+.++.+..+......+...|++++...+.+.++..++.+-.+. -|.  ...|+..+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            34666777889999999999999876544325567788999999999999999998876433 233  34566544

The molecular function of this protein is uncertain.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.83  E-value=0.92  Score=37.93  Aligned_cols=274  Identities=8%  Similarity=0.009  Sum_probs=121.8

Q ss_pred             HHHHHHHcCCHHHHHHHHhhCCC--CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCC---CchHHHHHHHHHHhhc
Q 048799           23 MITGLVKWGELEYARSLFEEMPC--RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTE---PSEITILAVFPAIWQN   97 (331)
Q Consensus        23 l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~   97 (331)
                      ...+..+.|+++.-.+.......  ++...+.++...  ..|+++++...++.+...-...   .....|..........
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~~l   81 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNEDSPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLVKL   81 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCCChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            34667788888887777776664  333444444433  7888888888887762211100   1111222222222222


Q ss_pred             CchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh-----cCCHhHHHHHH---HHhhh----cCCcHHHHHHHHHHHHc
Q 048799           98 GDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK-----CGCIFSALKLF---EDISV----ERKNLVSWTSIISGFAM  165 (331)
Q Consensus        98 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~g~~~~A~~~~---~~~~~----~~~~~~~~~~l~~~~~~  165 (331)
                      ..+.+..++.+-......   +......++.....     ..+++.-..++   ..+..    ......+|..++..+.+
T Consensus        82 q~L~Elee~~~~~~~~~~---~~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aRk  158 (352)
T PF02259_consen   82 QQLVELEEIIELKSNLSQ---NPQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLARK  158 (352)
T ss_pred             hHHHHHHHHHHHHHhhcc---cHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHH
Confidence            233333332222211100   01111112111111     11111111111   11111    12334567777777777


Q ss_pred             cCChHHHHHHHHHHHhccCCC---CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc--HhhHHHHHHHHHhcCCH
Q 048799          166 HGMGKEAVENFERMQKVVLKP---NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD--IKHYGCLIDMLGRAGRL  240 (331)
Q Consensus       166 ~~~~~~a~~~~~~m~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~  240 (331)
                      .|.++.|...+.++...+..+   .+.....-+...-..|+..+|...++..... .+..+  ......+...+..  ..
T Consensus       159 ~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~~~~~~~~~~~~--~~  235 (352)
T PF02259_consen  159 AGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSISNAELKSGLLE--SL  235 (352)
T ss_pred             CCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-HhhhccccccHHHHhhcccc--cc
Confidence            788877777777766533111   2223333344455667777777777766652 11111  1111111111000  00


Q ss_pred             HHHHHHHhhcccCCccHHHHHHHHHHHhcC------CchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhh
Q 048799          241 EQAEKVASGIPSEITNVVVWRTLLGACSFH------GNVEMGERVTRKILEMERGYGGDYVLMYNILAGV  304 (331)
Q Consensus       241 ~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~------g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  304 (331)
                      +.....-..-.....-...+..+..-....      +..+.+.+.|+.+.+..|.....+..++..+.+.
T Consensus       236 ~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~~~~  305 (352)
T PF02259_consen  236 EVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWALFNDKL  305 (352)
T ss_pred             ccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHHHHHHH
Confidence            000000000000000112233333333333      7788888899999888887777777777665544

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.82  E-value=0.21  Score=38.12  Aligned_cols=27  Identities=0%  Similarity=-0.119  Sum_probs=20.3

Q ss_pred             HHHhcCCchhHHHHHHHHHHHhhcCCC
Q 048799          265 GACSFHGNVEMGERVTRKILEMERGYG  291 (331)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~~~~~~~~~~  291 (331)
                      .--...+++.+|+++|+++-...-+++
T Consensus       162 ~yaa~leqY~~Ai~iyeqva~~s~~n~  188 (288)
T KOG1586|consen  162 QYAAQLEQYSKAIDIYEQVARSSLDNN  188 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccch
Confidence            334577899999999999988555543

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.80  E-value=0.95  Score=37.86  Aligned_cols=64  Identities=9%  Similarity=0.084  Sum_probs=40.0

Q ss_pred             cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhc----CCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          256 NVVVWRTLLGACSFHGNVEMGERVTRKILEMER----GYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      ...+|..++..+.+.|+++.|...+..+....+    ..+......+..+-..|+..+|...++...+
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            445666666777777777777777776665331    1334555566666666777777766666655

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.80  E-value=0.42  Score=35.48  Aligned_cols=95  Identities=17%  Similarity=0.123  Sum_probs=58.2

Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC--C--cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCC---CCHH---
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDISVER--K--NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLK---PNRV---  189 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~---p~~~---  189 (331)
                      ...+..++..|++.|+.+.|.+.|.++....  +  -...+..+|......+++..+...+.+....-..   ++..   
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            3456677888888888888888888876552  1  2345666777777778888777777666542211   1111   


Q ss_pred             -HHHHHHHHHhccCChHHHHHHHHHHHH
Q 048799          190 -TFLSVLNACSHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       190 -~~~~l~~~~~~~~~~~~a~~~~~~~~~  216 (331)
                       .|..|  .+...+++..|-+.|-....
T Consensus       116 k~~~gL--~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  116 KVYEGL--ANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHH--HHHHhchHHHHHHHHHccCc
Confidence             12222  23346777777777766543

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.

>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=95.73  E-value=0.49  Score=34.04  Aligned_cols=54  Identities=9%  Similarity=0.041  Sum_probs=25.5

Q ss_pred             ccCChHHHHHHHHHHHHhcCCCCcHhhH-HHHHHHHHhcCCHHHHHHHHhhcccCCcc
Q 048799          200 HGGLVEEGLKFFDKMVEECEVLPDIKHY-GCLIDMLGRAGRLEQAEKVASGIPSEITN  256 (331)
Q Consensus       200 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  256 (331)
                      +.++.+++..+++.+.-   +.|..... ..-...+...|++.+|.++|+++....|.
T Consensus        22 ~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~   76 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPG   76 (160)
T ss_pred             ccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCC
Confidence            44555555555555543   23322211 11122345556666666666665554333

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.71  E-value=0.47  Score=33.64  Aligned_cols=42  Identities=14%  Similarity=0.117  Sum_probs=21.0

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHhhhcC-CcHHHHHHHHHHHHcc
Q 048799          125 CLIDTYAKCGCIFSALKLFEDISVER-KNLVSWTSIISGFAMH  166 (331)
Q Consensus       125 ~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~  166 (331)
                      .++..+...+.......+++.+...+ .+...++.++..|++.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~li~ly~~~   54 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNSENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCccchhHHHHHHHHHHHH
Confidence            34445555555555555555554442 2344555555555543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.54  E-value=1.3  Score=37.59  Aligned_cols=257  Identities=10%  Similarity=0.044  Sum_probs=146.5

Q ss_pred             HHHHcCCHHHHHHHHhhCCC---CCc------hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHH--H
Q 048799           26 GLVKWGELEYARSLFEEMPC---RNV------VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPA--I   94 (331)
Q Consensus        26 ~~~~~g~~~~A~~~~~~~~~---~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~--~   94 (331)
                      .+.+.+++.+|..+|.++-+   .+.      ..-+.++++|.. ++.+.....+....+..|    ...|..+..+  +
T Consensus        15 ~Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~----~s~~l~LF~~L~~   89 (549)
T PF07079_consen   15 ILQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFG----KSAYLPLFKALVA   89 (549)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcC----CchHHHHHHHHHH
Confidence            34678899999999988752   121      223456666654 456666666666533333    2233344433  3


Q ss_pred             hhcCchhHHHHHHhhhhhc--CCCcc-----------hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc------CCcHHH
Q 048799           95 WQNGDVRNCQLIHGYGEKR--GFNAF-----------HIHVSNCLIDTYAKCGCIFSALKLFEDISVE------RKNLVS  155 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~~--~~~~~-----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~~~~  155 (331)
                      .+.+++++|.+.+..-...  +..++           +-..-+..++++...|++.++..+++++...      .-+..+
T Consensus        90 Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~  169 (549)
T PF07079_consen   90 YKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDM  169 (549)
T ss_pred             HHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHH
Confidence            5788889888877655443  22211           2233356678889999999999999988655      247778


Q ss_pred             HHHHHHHHHcc--------CC-------hHHHHHHHHHHHhc------cCCCCHHHHHHHHHHHhcc--CChHHHHHHHH
Q 048799          156 WTSIISGFAMH--------GM-------GKEAVENFERMQKV------VLKPNRVTFLSVLNACSHG--GLVEEGLKFFD  212 (331)
Q Consensus       156 ~~~l~~~~~~~--------~~-------~~~a~~~~~~m~~~------~~~p~~~~~~~l~~~~~~~--~~~~~a~~~~~  212 (331)
                      |+.++-.+.++        ..       ++.+.-..++|...      .+.|-...+..++....-.  .+..--.+++.
T Consensus       170 yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~  249 (549)
T PF07079_consen  170 YDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILE  249 (549)
T ss_pred             HHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHH
Confidence            88744433221        11       22333333333321      2334444444444433321  12223334444


Q ss_pred             HHHHhcCCCCcHh-hHHHHHHHHHhcCCHHHHHHHHhhcccC------CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          213 KMVEECEVLPDIK-HYGCLIDMLGRAGRLEQAEKVASGIPSE------ITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       213 ~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      ..... -+.|+.. +...+...+..  +.+++..+.+.+...      ..-..++..++....+.++...|.+.+.-+..
T Consensus       250 ~We~~-yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~  326 (549)
T PF07079_consen  250 NWENF-YVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKI  326 (549)
T ss_pred             HHHhh-ccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence            44333 4455432 33444444444  566666665555433      12346777888888899999999999988888


Q ss_pred             hhcCC
Q 048799          286 MERGY  290 (331)
Q Consensus       286 ~~~~~  290 (331)
                      ++|..
T Consensus       327 ldp~~  331 (549)
T PF07079_consen  327 LDPRI  331 (549)
T ss_pred             cCCcc
Confidence            77765

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.54  E-value=0.68  Score=34.41  Aligned_cols=132  Identities=11%  Similarity=0.031  Sum_probs=82.8

Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHH--HHHHHHhccCChHHHHHHHHHHHHhcCCCCcH----hh
Q 048799          153 LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFL--SVLNACSHGGLVEEGLKFFDKMVEECEVLPDI----KH  226 (331)
Q Consensus       153 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~  226 (331)
                      +..|..++.... .+.. +.....+++...+....-.++.  .+...+...|++++|...++.....   +.|.    ..
T Consensus        54 S~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~  128 (207)
T COG2976          54 SAQYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ---TKDENLKALA  128 (207)
T ss_pred             HHHHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHH
Confidence            344555555543 3333 5555556665532121212222  2345577889999999988887743   2222    12


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      --.|.+.....|.+++|...++......-.......-.+.+...|+-++|...|.++++..++
T Consensus       129 ~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         129 ALRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCC
Confidence            234556778889999999999988775223333444567889999999999999999986533

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.54  E-value=0.015  Score=29.60  Aligned_cols=22  Identities=23%  Similarity=0.218  Sum_probs=13.2

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSAL  140 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~  140 (331)
                      +..+|+.+...|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            5556666666666666666554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.49  E-value=0.042  Score=28.33  Aligned_cols=27  Identities=15%  Similarity=0.078  Sum_probs=18.7

Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          259 VWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       259 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      +|..|...|.+.|++++|+++|++++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            356677777777777777777777554

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.43  E-value=0.9  Score=41.44  Aligned_cols=179  Identities=16%  Similarity=0.056  Sum_probs=114.4

Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-CCcHHHHHHHHHHHH
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-RKNLVSWTSIISGFA  164 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~~  164 (331)
                      ....-+..+.+...++-|+.+.+.-...+..  -.......++.+.+.|++++|...|-+.... .|.     .+|.-|.
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~~~d~d~--~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~s-----~Vi~kfL  408 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQHLDEDT--LAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEPS-----EVIKKFL  408 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhcCCCHHH--HHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCChH-----HHHHHhc
Confidence            3445666777777777777765543221111  2234445556677889999999888776544 332     2345566


Q ss_pred             ccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCC-CcHhhHHHHHHHHHhcCCHHHH
Q 048799          165 MHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVL-PDIKHYGCLIDMLGRAGRLEQA  243 (331)
Q Consensus       165 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A  243 (331)
                      ...+...-..+++.+.+.|+. +...-..|+.+|.+.++.++-.++.+.-. . |.. -|   ....+..+.+.+-.++|
T Consensus       409 daq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~-g~~~fd---~e~al~Ilr~snyl~~a  482 (933)
T KOG2114|consen  409 DAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-K-GEWFFD---VETALEILRKSNYLDEA  482 (933)
T ss_pred             CHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-C-cceeee---HHHHHHHHHHhChHHHH
Confidence            667778888888888888864 44445668889999999888777766543 2 221 12   23455667777778888


Q ss_pred             HHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHH
Q 048799          244 EKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKI  283 (331)
Q Consensus       244 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  283 (331)
                      ..+-.+...   +......++   -..+++++|.+.+..+
T Consensus       483 ~~LA~k~~~---he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  483 ELLATKFKK---HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHhcc---CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            777666554   333333333   3567899998888765

>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=95.37  E-value=0.68  Score=33.32  Aligned_cols=54  Identities=11%  Similarity=-0.055  Sum_probs=23.0

Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK  151 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  151 (331)
                      +.++.+.+..++..+.-..+..+...+  .-...+...|+|.+|..+|+++....|
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~--~~~~l~i~r~~w~dA~rlLr~l~~~~~   75 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDL--FDGWLHIVRGDWDDALRLLRELEERAP   75 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHH--HHHHHHHHhCCHHHHHHHHHHHhccCC
Confidence            344444444444444444333212222  223334445555555555555443333

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.35  E-value=1.8  Score=38.02  Aligned_cols=184  Identities=14%  Similarity=0.086  Sum_probs=123.0

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC-CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVER-KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                      +...|...+..-.+.|+.+.+.-+|++..-.- .-...|-..+.-....|+.+-|..++....+-.++-.+.+-..-...
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            55677888888889999999999999886442 22445555555555669999888888776654433333322222222


Q ss_pred             HhccCChHHHHHHHHHHHHhcCCCCcH-hhHHHHHHHHHhcCCHHHHH---HHHhhcccCCccHHHHH----HHHH-HHh
Q 048799          198 CSHGGLVEEGLKFFDKMVEECEVLPDI-KHYGCLIDMLGRAGRLEQAE---KVASGIPSEITNVVVWR----TLLG-ACS  268 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~---~~~~~~~~~~p~~~~~~----~l~~-~~~  268 (331)
                      .-..|++..|..+++...+.  . |+. ..-..-+....+.|+.+.+.   .++.......-+..+..    .... .+.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            44578999999999999886  3 543 23333345567888888888   55554444422222222    2222 244


Q ss_pred             cCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhc
Q 048799          269 FHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVW  305 (331)
Q Consensus       269 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  305 (331)
                      -.++.+.|..++.++.+..|++...|..++......+
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            5689999999999999999999888888888766555

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=95.33  E-value=1.7  Score=37.58  Aligned_cols=178  Identities=11%  Similarity=0.028  Sum_probs=126.4

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNAC  198 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  198 (331)
                      +.....+++..+...-.+.-.+.+..+|..-..+-..|..++.+|... ..++-..+++++.+..  .+...+..-+..+
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~d--fnDvv~~ReLa~~  141 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYD--FNDVVIGRELADK  141 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhc--chhHHHHHHHHHH
Confidence            556666788889888888888999999988888888999999999988 6788889999888843  4444454444445


Q ss_pred             hccCChHHHHHHHHHHHHhcCCCC--c---HhhHHHHHHHHHhcCCHHHHHHHHhhcccC---CccHHHHHHHHHHHhcC
Q 048799          199 SHGGLVEEGLKFFDKMVEECEVLP--D---IKHYGCLIDMLGRAGRLEQAEKVASGIPSE---ITNVVVWRTLLGACSFH  270 (331)
Q Consensus       199 ~~~~~~~~a~~~~~~~~~~~~~~~--~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~l~~~~~~~  270 (331)
                      ...++.+.+..+|.++... -++.  +   -..|..+...  -..+.+....+...+...   ..-...+..+-.-|...
T Consensus       142 yEkik~sk~a~~f~Ka~yr-fI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~  218 (711)
T COG1747         142 YEKIKKSKAAEFFGKALYR-FIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSEN  218 (711)
T ss_pred             HHHhchhhHHHHHHHHHHH-hcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccc
Confidence            5558889999999998875 2221  1   1244444421  135667777777766655   22345555666778889


Q ss_pred             CchhHHHHHHHHHHHhhcCCCccHHHHHHHHh
Q 048799          271 GNVEMGERVTRKILEMERGYGGDYVLMYNILA  302 (331)
Q Consensus       271 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  302 (331)
                      .++.+|++++..+++.+..+..+...++.-+.
T Consensus       219 eN~~eai~Ilk~il~~d~k~~~ar~~~i~~lR  250 (711)
T COG1747         219 ENWTEAIRILKHILEHDEKDVWARKEIIENLR  250 (711)
T ss_pred             cCHHHHHHHHHHHhhhcchhhhHHHHHHHHHH
Confidence            99999999999999877666566666665543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.31  E-value=0.077  Score=42.06  Aligned_cols=62  Identities=18%  Similarity=0.155  Sum_probs=46.7

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          224 IKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      ..++..++..+...|+.+.+...+++.... +-+...|..++.+|.+.|+...|+..|+.+.+
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            456667777777778888888877777766 34667777888888888888888888877776

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.20  E-value=1.4  Score=35.87  Aligned_cols=129  Identities=13%  Similarity=0.162  Sum_probs=75.7

Q ss_pred             hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh--c----CCHhHHHHHHHHhhhcCC-----cHHHHHHHHHHHHccCC
Q 048799          100 VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK--C----GCIFSALKLFEDISVERK-----NLVSWTSIISGFAMHGM  168 (331)
Q Consensus       100 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~----g~~~~A~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~  168 (331)
                      +++...+++.+.+.|+.. +..++.+..-....  .    ....+|..+|+.|++..|     +...+..++..  ..++
T Consensus        78 ~~~~~~~y~~L~~~gFk~-~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~  154 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKR-SEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSED  154 (297)
T ss_pred             HHHHHHHHHHHHHhccCc-cChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--cccc
Confidence            445566788888888776 44444332222221  1    235678899999988744     33445555443  3333


Q ss_pred             ----hHHHHHHHHHHHhccCCCCHH-HHHHHHHHHhcc-CC--hHHHHHHHHHHHHhcCCCCcHhhHHHHHH
Q 048799          169 ----GKEAVENFERMQKVVLKPNRV-TFLSVLNACSHG-GL--VEEGLKFFDKMVEECEVLPDIKHYGCLID  232 (331)
Q Consensus       169 ----~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~-~~--~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  232 (331)
                          .+.+...|+.+.+.|...+.. -+.+-+-+++.. ..  ...+.++++.+.+. ++++....|..++-
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 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN-GVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc-CCccccccccHHHH
Confidence                356677788888777655432 233333333322 22  34678888888888 88887777766543

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.89  E-value=0.084  Score=26.62  Aligned_cols=26  Identities=19%  Similarity=0.143  Sum_probs=11.6

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHhhh
Q 048799          123 SNCLIDTYAKCGCIFSALKLFEDISV  148 (331)
Q Consensus       123 ~~~l~~~~~~~g~~~~A~~~~~~~~~  148 (331)
                      |..++.+|...|++++|+..|+++.+
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            34444444444444444444444443

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 ....

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=94.87  E-value=0.049  Score=43.86  Aligned_cols=96  Identities=16%  Similarity=0.054  Sum_probs=73.1

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCC
Q 048799          194 VLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHG  271 (331)
Q Consensus       194 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g  271 (331)
                      -.+-|.++|.+++|++.|.....   +.| +..++..-..+|.+..++..|+.-...+... ..-...|..-+.+-...|
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia---~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIA---VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhc---cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence            45568889999999999988774   355 7888888888899999999888877777655 122345665566666678


Q ss_pred             chhHHHHHHHHHHHhhcCCCc
Q 048799          272 NVEMGERVTRKILEMERGYGG  292 (331)
Q Consensus       272 ~~~~a~~~~~~~~~~~~~~~~  292 (331)
                      ...+|.+-++.++++.|.+..
T Consensus       180 ~~~EAKkD~E~vL~LEP~~~E  200 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPKNIE  200 (536)
T ss_pred             hHHHHHHhHHHHHhhCcccHH
Confidence            888888888888888888633

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.86  E-value=0.8  Score=40.20  Aligned_cols=153  Identities=14%  Similarity=0.028  Sum_probs=101.2

Q ss_pred             hcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHH
Q 048799           60 RMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSA  139 (331)
Q Consensus        60 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  139 (331)
                      -.|+++.|..++..+       | ....+.+...+.+.|-.++|+++-       .+|   ..   -.....+.|+++.|
T Consensus       598 mrrd~~~a~~vLp~I-------~-k~~rt~va~Fle~~g~~e~AL~~s-------~D~---d~---rFelal~lgrl~iA  656 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTI-------P-KEIRTKVAHFLESQGMKEQALELS-------TDP---DQ---RFELALKLGRLDIA  656 (794)
T ss_pred             hhccccccccccccC-------c-hhhhhhHHhHhhhccchHhhhhcC-------CCh---hh---hhhhhhhcCcHHHH
Confidence            345555555544333       1 234445566666677666666542       222   21   23556788999999


Q ss_pred             HHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcC
Q 048799          140 LKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECE  219 (331)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  219 (331)
                      .++..+.    .+..-|..|..+..+.+++..|.+.|.+...         |..|+-.+...|+.+....+-....+. |
T Consensus       657 ~~la~e~----~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~-g  722 (794)
T KOG0276|consen  657 FDLAVEA----NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQ-G  722 (794)
T ss_pred             HHHHHhh----cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhh-c
Confidence            8887655    4567899999999999999999999987655         556777777788877666666665554 4


Q ss_pred             CCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          220 VLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       220 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      .      .|.-.-+|...|+++++.+++..-...
T Consensus       723 ~------~N~AF~~~~l~g~~~~C~~lLi~t~r~  750 (794)
T KOG0276|consen  723 K------NNLAFLAYFLSGDYEECLELLISTQRL  750 (794)
T ss_pred             c------cchHHHHHHHcCCHHHHHHHHHhcCcC
Confidence            2      223334567789999999988776443

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=94.85  E-value=0.84  Score=31.58  Aligned_cols=68  Identities=12%  Similarity=0.081  Sum_probs=44.6

Q ss_pred             cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCC
Q 048799          152 NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVL  221 (331)
Q Consensus       152 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  221 (331)
                      ........+......|+-++-.+++..+.+. -.+++.....+..+|.+.|+..++.+++.++-+. |++
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek-G~k  152 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEK-GLK  152 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT-T-H
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh-chH
Confidence            3344555667777888888888888887653 3567777778888888888888888888888777 653

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.84  E-value=0.062  Score=27.70  Aligned_cols=25  Identities=8%  Similarity=0.167  Sum_probs=15.9

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHH
Q 048799           50 SWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus        50 ~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      +|+.|...|.+.|++++|+++|++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3556666677777777777777664

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.67  E-value=1.3  Score=32.98  Aligned_cols=89  Identities=8%  Similarity=0.020  Sum_probs=37.6

Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhcCCcH----HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccC
Q 048799          127 IDTYAKCGCIFSALKLFEDISVERKNL----VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGG  202 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~  202 (331)
                      ...+...|++++|...++.......|.    .+-..|.......|.+++|+.+++.....+.  .......-.+.+...|
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg  173 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKG  173 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcC
Confidence            344455555555555555443322211    1122333444455555555555544333221  1111222333444555


Q ss_pred             ChHHHHHHHHHHHHh
Q 048799          203 LVEEGLKFFDKMVEE  217 (331)
Q Consensus       203 ~~~~a~~~~~~~~~~  217 (331)
                      +-++|..-|.+..+.
T Consensus       174 ~k~~Ar~ay~kAl~~  188 (207)
T COG2976         174 DKQEARAAYEKALES  188 (207)
T ss_pred             chHHHHHHHHHHHHc
Confidence            555555555555443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.62  E-value=0.11  Score=26.12  Aligned_cols=27  Identities=22%  Similarity=0.146  Sum_probs=12.6

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHhhhc
Q 048799          123 SNCLIDTYAKCGCIFSALKLFEDISVE  149 (331)
Q Consensus       123 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  149 (331)
                      +..+..++...|++++|++.|++....
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            334444555555555555555544433

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 ....

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.58  E-value=0.56  Score=35.02  Aligned_cols=54  Identities=11%  Similarity=0.029  Sum_probs=23.5

Q ss_pred             HHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          128 DTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       128 ~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      .++.+.+.++.|+.-..+.....|+ ..+.-.-..+|.+...+++|+.-|+++..
T Consensus       142 aa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~eealeDyKki~E  196 (271)
T KOG4234|consen  142 AALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKYEEALEDYKKILE  196 (271)
T ss_pred             HHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            3444444555554444444433332 12222223344444555555555555444

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=94.57  E-value=0.14  Score=41.30  Aligned_cols=93  Identities=13%  Similarity=0.083  Sum_probs=67.1

Q ss_pred             HHHHHccCChHHHHHHHHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC
Q 048799          160 ISGFAMHGMGKEAVENFERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG  238 (331)
Q Consensus       160 ~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  238 (331)
                      ..-|.+.|.+++|+..|.....  +.| |..++..-..+|.+.+.+..|+.-...++.. . ..-...|+.-+.+-...|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL-d-~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL-D-KLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh-h-HHHHHHHHHHHHHHHHHh
Confidence            3568999999999999988766  456 8899999999999999999888776666543 1 112334555555555567


Q ss_pred             CHHHHHHHHhhcccCCcc
Q 048799          239 RLEQAEKVASGIPSEITN  256 (331)
Q Consensus       239 ~~~~A~~~~~~~~~~~p~  256 (331)
                      +..+|.+-++......|+
T Consensus       180 ~~~EAKkD~E~vL~LEP~  197 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPK  197 (536)
T ss_pred             hHHHHHHhHHHHHhhCcc
Confidence            777777777766666565

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.55  E-value=1.3  Score=38.96  Aligned_cols=151  Identities=16%  Similarity=0.011  Sum_probs=84.6

Q ss_pred             HHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHH
Q 048799           28 VKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIH  107 (331)
Q Consensus        28 ~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  107 (331)
                      .-.|+++.|..++-.++++   ..+.++..+-++|-.++|+++-          +|+...   .....+.|+++.|.++.
T Consensus       597 vmrrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~s----------~D~d~r---Felal~lgrl~iA~~la  660 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALELS----------TDPDQR---FELALKLGRLDIAFDLA  660 (794)
T ss_pred             hhhccccccccccccCchh---hhhhHHhHhhhccchHhhhhcC----------CChhhh---hhhhhhcCcHHHHHHHH
Confidence            4467777777766666532   3344555555666666665432          222211   22234567777777665


Q ss_pred             hhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCC
Q 048799          108 GYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN  187 (331)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  187 (331)
                      .+..       +..-|..|.++....|++..|.+.|.+..       -|..|+-.+...|+.+....+-....+.|.   
T Consensus       661 ~e~~-------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~-------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~---  723 (794)
T KOG0276|consen  661 VEAN-------SEVKWRQLGDAALSAGELPLASECFLRAR-------DLGSLLLLYTSSGNAEGLAVLASLAKKQGK---  723 (794)
T ss_pred             Hhhc-------chHHHHHHHHHHhhcccchhHHHHHHhhc-------chhhhhhhhhhcCChhHHHHHHHHHHhhcc---
Confidence            5432       45567777777777777777777776652       244455555556666655555555555442   


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHH
Q 048799          188 RVTFLSVLNACSHGGLVEEGLKFFDKM  214 (331)
Q Consensus       188 ~~~~~~l~~~~~~~~~~~~a~~~~~~~  214 (331)
                         .|.-..+|...|+++++.+++..-
T Consensus       724 ---~N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  724 ---NNLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             ---cchHHHHHHHcCCHHHHHHHHHhc
Confidence               122223455567777776666543

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=94.41  E-value=2.1  Score=34.16  Aligned_cols=61  Identities=13%  Similarity=-0.013  Sum_probs=51.8

Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          259 VWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       259 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      ++......|...|.+.+|.++-+++++++|-+...+..++..+...|+--.+.+.++++.+
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            3444556788999999999999999999998888899999999999998888888887754

>PRK11619 lytic murein transglycosylase; Provisional

Probab=94.40  E-value=4  Score=37.36  Aligned_cols=56  Identities=13%  Similarity=0.007  Sum_probs=26.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHH
Q 048799          228 GCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKI  283 (331)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  283 (331)
                      ..-+..-.+.++++.+...+..|... .-...-.-=+..++...|+.++|...|+.+
T Consensus       316 e~r~r~Al~~~dw~~~~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~  372 (644)
T PRK11619        316 ERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQL  372 (644)
T ss_pred             HHHHHHHHHccCHHHHHHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33333334556666666666665443 111111111344444456666666666665

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=94.31  E-value=1.5  Score=32.05  Aligned_cols=29  Identities=3%  Similarity=0.107  Sum_probs=13.5

Q ss_pred             HHHHHhccCCCCHHHHHHHHHHHhccCCh
Q 048799          176 FERMQKVVLKPNRVTFLSVLNACSHGGLV  204 (331)
Q Consensus       176 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  204 (331)
                      ++.+.+.+++|+...+..++..+.+.|.+
T Consensus        17 irSl~~~~i~~~~~L~~lli~lLi~~~~~   45 (167)
T PF07035_consen   17 IRSLNQHNIPVQHELYELLIDLLIRNGQF   45 (167)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Confidence            33333444444544555555555544443

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

Probab=94.27  E-value=0.6  Score=36.88  Aligned_cols=97  Identities=9%  Similarity=0.065  Sum_probs=68.9

Q ss_pred             HHHHhhCC--CCCchhHHHHHHHHHh-----cCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcC-----------
Q 048799           37 RSLFEEMP--CRNVVSWTGIIDGYTR-----MNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNG-----------   98 (331)
Q Consensus        37 ~~~~~~~~--~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----------   98 (331)
                      ...|....  ++|-.+|-+.+..+..     .+.++-.-..++.| +..|+..|..+|+.|++.+-+..           
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m-~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYM-KEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHH-HHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            44455554  4566677777666543     35666666677777 77788888888888888765432           


Q ss_pred             -----chhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCC
Q 048799           99 -----DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGC  135 (331)
Q Consensus        99 -----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  135 (331)
                           +-+=++.++++|...|+.| |..+-..|++++.+.+-
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmP-dkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMP-DKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCC-chHHHHHHHHHhccccc
Confidence                 2234678889999999988 88888888888887664

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.25  E-value=5.4  Score=38.32  Aligned_cols=113  Identities=11%  Similarity=0.086  Sum_probs=66.1

Q ss_pred             CCHHHHHH----HHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHH
Q 048799          186 PNRVTFLS----VLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVW  260 (331)
Q Consensus       186 p~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~  260 (331)
                      |+...+..    ....+...+.+++|--.|+..-+.          .--+.+|..+|++.+|..+..++..... -..+-
T Consensus       933 ~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl----------ekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a 1002 (1265)
T KOG1920|consen  933 PDSEKQKVIYEAYADHLREELMSDEAALMYERCGKL----------EKALKAYKECGDWREALSLAAQLSEGKDELVILA 1002 (1265)
T ss_pred             cCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccH----------HHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHH
Confidence            55544443    334444556666666666554211          1245667788888888888877765411 11223


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHH
Q 048799          261 RTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRR  315 (331)
Q Consensus       261 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  315 (331)
                      ..|+.-+...+++-+|-+++.+...       ........|++...|++|.++..
T Consensus      1003 ~~L~s~L~e~~kh~eAa~il~e~~s-------d~~~av~ll~ka~~~~eAlrva~ 1050 (1265)
T KOG1920|consen 1003 EELVSRLVEQRKHYEAAKILLEYLS-------DPEEAVALLCKAKEWEEALRVAS 1050 (1265)
T ss_pred             HHHHHHHHHcccchhHHHHHHHHhc-------CHHHHHHHHhhHhHHHHHHHHHH
Confidence            5677778888888888888777653       22333344555556666655543

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=94.13  E-value=1.4  Score=31.21  Aligned_cols=54  Identities=9%  Similarity=-0.077  Sum_probs=27.0

Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK  151 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  151 (331)
                      ..++.+++..++..+.-..+......++  -...+...|+|++|.++|++.....+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~--dg~l~i~rg~w~eA~rvlr~l~~~~~   75 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMF--DGWLLIARGNYDEAARILRELLSSAG   75 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchh--HHHHHHHcCCHHHHHHHHHhhhccCC
Confidence            3455555555555555544432222232  23345556666666666666654433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=94.09  E-value=0.14  Score=27.15  Aligned_cols=28  Identities=21%  Similarity=0.209  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          258 VVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       258 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      .+++.+...|...|++++|..+++++.+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4566677777777777777777777765

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.07  E-value=0.9  Score=29.74  Aligned_cols=63  Identities=14%  Similarity=0.247  Sum_probs=43.8

Q ss_pred             hHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHH
Q 048799          169 GKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDM  233 (331)
Q Consensus       169 ~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  233 (331)
                      .-+..+-++.+....+.|++....+.+.+|.+.+++..|.++|+-+..+.+..  ...|..+++-
T Consensus        26 ~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lqE   88 (108)
T PF02284_consen   26 GWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQE   88 (108)
T ss_dssp             HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHHH
Confidence            33566667777777788999999999999999999999999999888764432  3366666653

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 ....

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=94.04  E-value=0.12  Score=25.62  Aligned_cols=28  Identities=7%  Similarity=0.045  Sum_probs=16.7

Q ss_pred             HHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          262 TLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       262 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      .+..++.+.|++++|.+.|+++++..|+
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            3445555666666666666666665554

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=93.21  E-value=0.16  Score=25.22  Aligned_cols=27  Identities=22%  Similarity=0.224  Sum_probs=14.3

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHhhhcCC
Q 048799          125 CLIDTYAKCGCIFSALKLFEDISVERK  151 (331)
Q Consensus       125 ~l~~~~~~~g~~~~A~~~~~~~~~~~~  151 (331)
                      .++.++.+.|++++|.+.|+++....|
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P   31 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKRYP   31 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCc
Confidence            344555555555555555555554433

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.20  E-value=1.1  Score=29.10  Aligned_cols=63  Identities=14%  Similarity=0.274  Sum_probs=46.1

Q ss_pred             ChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHH
Q 048799          168 MGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLID  232 (331)
Q Consensus       168 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  232 (331)
                      |.-++.+-++.+....+.|++....+-+.+|.+.+++.-|.++|+-...+.+.  +...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            44566677777777778888888888888888888888888888887765332  3445655554

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.

>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=93.16  E-value=0.12  Score=36.90  Aligned_cols=51  Identities=20%  Similarity=0.154  Sum_probs=21.9

Q ss_pred             HHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHH
Q 048799          162 GFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFD  212 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  212 (331)
                      .+.+.+.++....+++.+...+...+....+.++..|++.+..+...++++
T Consensus        16 ~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   16 AFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            333444444444444444443333334444445555554444444444443

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.87  E-value=4.4  Score=32.99  Aligned_cols=131  Identities=11%  Similarity=0.019  Sum_probs=78.3

Q ss_pred             hhHHHHHHHHHHhccCCCCchHHHHHHHHHHhh--cC----chhHHHHHHhhhhhcCCCcc--hhHHHHHHHHHHHhcCC
Q 048799           64 SNGALALFRRMVACEYTEPSEITILAVFPAIWQ--NG----DVRNCQLIHGYGEKRGFNAF--HIHVSNCLIDTYAKCGC  135 (331)
Q Consensus        64 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~  135 (331)
                      +++.+.+++.+ ...|..-+..+|.+.......  ..    ...++..+|+.|.+..+-..  +...+..++..  ..++
T Consensus        78 ~~~~~~~y~~L-~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~  154 (297)
T PF13170_consen   78 FKEVLDIYEKL-KEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSED  154 (297)
T ss_pred             HHHHHHHHHHH-HHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--cccc
Confidence            34456777887 777777777777664443332  22    35678899999998754331  22233333322  3333


Q ss_pred             ----HhHHHHHHHHhhhc---CCc-HHHHHHHHHHHHccCC--hHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          136 ----IFSALKLFEDISVE---RKN-LVSWTSIISGFAMHGM--GKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       136 ----~~~A~~~~~~~~~~---~~~-~~~~~~l~~~~~~~~~--~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                          .+.++.+|+.+...   ..+ ......++........  ...+.++++.+.+.|+++....|..+.-.
T Consensus       155 ~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  155 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence                35666777777663   223 3344444443332222  45888999999999999888877765443

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=92.84  E-value=1.7  Score=37.28  Aligned_cols=89  Identities=16%  Similarity=0.134  Sum_probs=39.8

Q ss_pred             hccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHH
Q 048799          199 SHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGE  277 (331)
Q Consensus       199 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~  277 (331)
                      ...|+++.+...+.....  -+-....+...+++...+.|++++|...-..|... ..++.....-.......|-++++.
T Consensus       334 ~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~  411 (831)
T PRK15180        334 SHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSY  411 (831)
T ss_pred             HHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHH
Confidence            344555555555544432  12223344444555555555555555555554444 222222222222233344555555


Q ss_pred             HHHHHHHHhhcC
Q 048799          278 RVTRKILEMERG  289 (331)
Q Consensus       278 ~~~~~~~~~~~~  289 (331)
                      ..|+++..++|.
T Consensus       412 ~~wk~~~~~~~~  423 (831)
T PRK15180        412 HYWKRVLLLNPE  423 (831)
T ss_pred             HHHHHHhccCCh
Confidence            555555554443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=92.78  E-value=7.6  Score=35.48  Aligned_cols=165  Identities=10%  Similarity=0.039  Sum_probs=89.6

Q ss_pred             CchhHHHHHHHHH-hcCChhHHHHHHHHHHhccCCCCchH-----HHHHHHHHHhhcCchhHHHHHHhhhhhcCC----C
Q 048799           47 NVVSWTGIIDGYT-RMNRSNGALALFRRMVACEYTEPSEI-----TILAVFPAIWQNGDVRNCQLIHGYGEKRGF----N  116 (331)
Q Consensus        47 ~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~  116 (331)
                      .+.++-.+...+. ...+++.|...+++...... .++-.     .-..++..+.+.+... |...+++.++.-.    .
T Consensus        58 ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~-~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~  135 (608)
T PF10345_consen   58 EARVRLRLASILLEETENLDLAETYLEKAILLCE-RHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHS  135 (608)
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCch
Confidence            3445666666655 67788888888887633221 12211     2223456666666555 7777777655322    1


Q ss_pred             cchhHHHHHH-HHHHHhcCCHhHHHHHHHHhhhc-----CCcHHHHHHHHHHH--HccCChHHHHHHHHHHHhccC----
Q 048799          117 AFHIHVSNCL-IDTYAKCGCIFSALKLFEDISVE-----RKNLVSWTSIISGF--AMHGMGKEAVENFERMQKVVL----  184 (331)
Q Consensus       117 ~~~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~m~~~~~----  184 (331)
                      + -...+.-+ +..+...++...|.+.++.+...     .|....+..++.+.  .+.+..+++++.++++.....    
T Consensus       136 ~-w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~  214 (608)
T PF10345_consen  136 A-WYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQL  214 (608)
T ss_pred             h-HHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhccc
Confidence            2 23333333 23333347888888888877544     22333444444433  345666777777776643221    


Q ss_pred             -----CCCHHHHHHHHHHHh--ccCChHHHHHHHHHH
Q 048799          185 -----KPNRVTFLSVLNACS--HGGLVEEGLKFFDKM  214 (331)
Q Consensus       185 -----~p~~~~~~~l~~~~~--~~~~~~~a~~~~~~~  214 (331)
                           .|...++..++..++  ..|+++.+...++++
T Consensus       215 ~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  215 DPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                 234556666665544  456655665554444

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 [].

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.73  E-value=0.64  Score=32.90  Aligned_cols=55  Identities=15%  Similarity=0.042  Sum_probs=35.6

Q ss_pred             hcCCHHHHHHHHhhcccCCccHHHH-HHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          236 RAGRLEQAEKVASGIPSEITNVVVW-RTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       236 ~~g~~~~A~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      ..++++++..++..+.-..|+..-. ..-...+...|++.+|.++++.+.+-.+..
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~   77 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAP   77 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCc
Confidence            4778888888887776664443222 222344567788888888888887644443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=92.69  E-value=1.5  Score=32.21  Aligned_cols=61  Identities=15%  Similarity=0.061  Sum_probs=32.5

Q ss_pred             Ccc-HHHHHHHHHHHhcCC-----------chhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          254 ITN-VVVWRTLLGACSFHG-----------NVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       254 ~p~-~~~~~~l~~~~~~~g-----------~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      .|+ ..++..+..+|...+           .+++|...|+++...+|++ ..|..-+.+..      +|-.+..++.+.+
T Consensus        65 ~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~~P~n-e~Y~ksLe~~~------kap~lh~e~~~~~  137 (186)
T PF06552_consen   65 NPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDEDPNN-ELYRKSLEMAA------KAPELHMEIHKQG  137 (186)
T ss_dssp             -TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH-TT--HHHHHHHHHHH------THHHHHHHHHHSS
T ss_pred             CCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhcCCCc-HHHHHHHHHHH------hhHHHHHHHHHHH
Confidence            443 355555655554332           2566666677777777877 66665544442      4555555555443

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.53  E-value=2.3  Score=34.37  Aligned_cols=95  Identities=9%  Similarity=0.132  Sum_probs=66.7

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC-----C--cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVER-----K--NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTF  191 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  191 (331)
                      +..+...++..-....+.+.+...+-++....     +  +..+|-.+    +..-++++++.++..=++.|+-||.+++
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irl----llky~pq~~i~~l~npIqYGiF~dqf~~  138 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRL----LLKYDPQKAIYTLVNPIQYGIFPDQFTF  138 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHH----HHccChHHHHHHHhCcchhccccchhhH
Confidence            33344445555555677888888887776441     2  22233222    2334677888888888889999999999


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          192 LSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       192 ~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      +.+++.+.+.+++.+|..+.-.|..+
T Consensus       139 c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  139 CLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            99999999999999988887776654

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=92.47  E-value=0.31  Score=24.39  Aligned_cols=26  Identities=27%  Similarity=0.194  Sum_probs=13.5

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHhhh
Q 048799          123 SNCLIDTYAKCGCIFSALKLFEDISV  148 (331)
Q Consensus       123 ~~~l~~~~~~~g~~~~A~~~~~~~~~  148 (331)
                      |..+...|...|++++|...|++..+
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44455555555555555555555443

...

>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=92.30  E-value=2.3  Score=31.98  Aligned_cols=72  Identities=13%  Similarity=0.074  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhc--CCCCcHhhHHHHHHHHHhcCCHHHH
Q 048799          171 EAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEEC--EVLPDIKHYGCLIDMLGRAGRLEQA  243 (331)
Q Consensus       171 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A  243 (331)
                      .|.+.|-++...+..-++.....|...|. ..+.+++..++.++.+..  +-.+|+..+.+|+..+.+.|+++.|
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 EALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            34444444444443334443333333332 344455555554444321  1123445555555555555555544

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=92.29  E-value=2.4  Score=31.20  Aligned_cols=61  Identities=15%  Similarity=0.051  Sum_probs=32.1

Q ss_pred             hHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCC-----------HhHHHHHHHHhhhcCCcHHHHHHHHHHH
Q 048799          101 RNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGC-----------IFSALKLFEDISVERKNLVSWTSIISGF  163 (331)
Q Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~~~~~~~~~~~l~~~~  163 (331)
                      ++|+.-|++++...+.  ...++..+..+|...+.           +++|...|+++...+|+...|+.-+...
T Consensus        52 edAisK~eeAL~I~P~--~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~~P~ne~Y~ksLe~~  123 (186)
T PF06552_consen   52 EDAISKFEEALKINPN--KHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDEDPNNELYRKSLEMA  123 (186)
T ss_dssp             HHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCc--hHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            3344444455555333  45566667777665432           4455555555555577777777666654

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.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=92.24  E-value=7.8  Score=34.30  Aligned_cols=130  Identities=13%  Similarity=0.166  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHhhCCC--CCch-hHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHH
Q 048799           17 LVTWNVMITGLVKWGELEYARSLFEEMPC--RNVV-SWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPA   93 (331)
Q Consensus        17 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~   93 (331)
                      ...|+.++.---...+.+.+..++..+..  |... -|......=.+.|..+.+.++|++.+  .+++-+...|......
T Consensus        45 f~~wt~li~~~~~~~~~~~~r~~y~~fL~kyPl~~gyW~kfA~~E~klg~~~~s~~Vfergv--~aip~SvdlW~~Y~~f  122 (577)
T KOG1258|consen   45 FDAWTTLIQENDSIEDVDALREVYDIFLSKYPLCYGYWKKFADYEYKLGNAENSVKVFERGV--QAIPLSVDLWLSYLAF  122 (577)
T ss_pred             ccchHHHHhccCchhHHHHHHHHHHHHHhhCccHHHHHHHHHHHHHHhhhHHHHHHHHHHHH--HhhhhHHHHHHHHHHH
Confidence            34455555444444444556666666553  3322 23344444455666666666666653  2344444455544433


Q ss_pred             H-hhcCchhHHHHHHhhhhhc-CCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhh
Q 048799           94 I-WQNGDVRNCQLIHGYGEKR-GFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISV  148 (331)
Q Consensus        94 ~-~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  148 (331)
                      + ...|+.+.....|+.+... |..-.+...|...+..-...+++.....+|++..+
T Consensus       123 ~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRile  179 (577)
T KOG1258|consen  123 LKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILE  179 (577)
T ss_pred             HhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHh
Confidence            3 2345555555566555442 33332445566666666666666666666666643

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=92.18  E-value=10  Score=35.44  Aligned_cols=192  Identities=11%  Similarity=-0.019  Sum_probs=107.1

Q ss_pred             hhcCchhHHHHHHhhhhhcCCCcc---hh---HHHHHH-HHHHHhcCCHhHHHHHHHHhhhc------CCcHHHHHHHHH
Q 048799           95 WQNGDVRNCQLIHGYGEKRGFNAF---HI---HVSNCL-IDTYAKCGCIFSALKLFEDISVE------RKNLVSWTSIIS  161 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~~~~~~~---~~---~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~~~l~~  161 (331)
                      ....++++|..++.++...-..|.   ..   ..++.| .......|+.++|.++-+.....      .+....+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            456788899888887765433321   11   122222 22334568889999988877655      234556777777


Q ss_pred             HHHccCChHHHHHHHHHHHhccCCCCHHHHHHHH-----HHHhccCC--hHHHHHHHHHHHHhcCC-CC----cHhhHHH
Q 048799          162 GFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVL-----NACSHGGL--VEEGLKFFDKMVEECEV-LP----DIKHYGC  229 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~-----~~~~~~~~--~~~a~~~~~~~~~~~~~-~~----~~~~~~~  229 (331)
                      +..-.|++++|..+..+..+..-.-+...+..+.     ..+..+|.  ..+.+..+......... +|    -..++..
T Consensus       506 a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~  585 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQ  585 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHH
Confidence            8888999999999988776643233333332222     23445663  33333344433332111 11    2234445


Q ss_pred             HHHHHHh-cCCHHHHHHHHhhcccCCccH--HH--HHHHHHHHhcCCchhHHHHHHHHHHHh
Q 048799          230 LIDMLGR-AGRLEQAEKVASGIPSEITNV--VV--WRTLLGACSFHGNVEMGERVTRKILEM  286 (331)
Q Consensus       230 l~~~~~~-~g~~~~A~~~~~~~~~~~p~~--~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~  286 (331)
                      +..++.+ .+...++..-+.--....|..  ..  +..|+......|+.++|...+.++...
T Consensus       586 ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l  647 (894)
T COG2909         586 LLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERL  647 (894)
T ss_pred             HHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            5555554 122223333333222222322  22  236677888999999999999999984

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=91.92  E-value=0.51  Score=36.26  Aligned_cols=86  Identities=9%  Similarity=0.031  Sum_probs=57.6

Q ss_pred             HhccCChHHHHHHHHHHHHhcCCCCcH-hhHHHHHHHHHhcCCHHHHHHHHhhcccCCccH-HHHHHHHHHHhcCCchhH
Q 048799          198 CSHGGLVEEGLKFFDKMVEECEVLPDI-KHYGCLIDMLGRAGRLEQAEKVASGIPSEITNV-VVWRTLLGACSFHGNVEM  275 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~  275 (331)
                      |.....+..|...|.+.+   .+.|+. .-|+.=+..+.+..+++.+..--+++.+..|+. .....+..++.....++.
T Consensus        20 ~f~~k~y~~ai~~y~raI---~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~e   96 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAI---CINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDE   96 (284)
T ss_pred             ccchhhhchHHHHHHHHH---hcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccH
Confidence            455566778888776666   446665 344555666777788888777777777665553 334445566677778888


Q ss_pred             HHHHHHHHHHh
Q 048799          276 GERVTRKILEM  286 (331)
Q Consensus       276 a~~~~~~~~~~  286 (331)
                      |+..+.++..+
T Consensus        97 aI~~Lqra~sl  107 (284)
T KOG4642|consen   97 AIKVLQRAYSL  107 (284)
T ss_pred             HHHHHHHHHHH
Confidence            88888888663

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=91.82  E-value=4.4  Score=32.45  Aligned_cols=116  Identities=8%  Similarity=0.058  Sum_probs=78.7

Q ss_pred             CChHHHHHHHHHHHh-ccCCCCHHHHHHHHHHHhc-c-CChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHH
Q 048799          167 GMGKEAVENFERMQK-VVLKPNRVTFLSVLNACSH-G-GLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQA  243 (331)
Q Consensus       167 ~~~~~a~~~~~~m~~-~~~~p~~~~~~~l~~~~~~-~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  243 (331)
                      ....+|+++|+.... ..+.-|..+...+++.... . .....-.++.+.+...++-.++..+...+++.+++.+++.+-
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            345667777763322 2244566666666666544 1 233334455555555546677888888899999999999999


Q ss_pred             HHHHhhcccC---CccHHHHHHHHHHHhcCCchhHHHHHHHH
Q 048799          244 EKVASGIPSE---ITNVVVWRTLLGACSFHGNVEMGERVTRK  282 (331)
Q Consensus       244 ~~~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (331)
                      .+++......   ..|...|..+|..-...|+..-..++.++
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            9998887665   34678899999999999997666655554

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=91.76  E-value=13  Score=35.86  Aligned_cols=253  Identities=9%  Similarity=-0.091  Sum_probs=107.1

Q ss_pred             HHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCc
Q 048799           38 SLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNA  117 (331)
Q Consensus        38 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  117 (331)
                      .+...+..+++.+-...+..+.+.+.. ++...+..++.    .++...-...+.++.+.+........+..+.+.   +
T Consensus       625 ~L~~~L~D~d~~VR~~Av~~L~~~~~~-~~~~~L~~aL~----D~d~~VR~~Aa~aL~~l~~~~~~~~~L~~~L~~---~  696 (897)
T PRK13800        625 ELAPYLADPDPGVRRTAVAVLTETTPP-GFGPALVAALG----DGAAAVRRAAAEGLRELVEVLPPAPALRDHLGS---P  696 (897)
T ss_pred             HHHHHhcCCCHHHHHHHHHHHhhhcch-hHHHHHHHHHc----CCCHHHHHHHHHHHHHHHhccCchHHHHHHhcC---C
Confidence            444444566666666666666665543 34444444422    233333333444443332211111222222222   2


Q ss_pred             chhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          118 FHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       118 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                       +..+....+..+...+.-+ ...+...+  ..++...-...+.++.+.+..+.    +..+.   ..++...-...+.+
T Consensus       697 -d~~VR~~A~~aL~~~~~~~-~~~l~~~L--~D~d~~VR~~Av~aL~~~~~~~~----l~~~l---~D~~~~VR~~aa~a  765 (897)
T PRK13800        697 -DPVVRAAALDVLRALRAGD-AALFAAAL--GDPDHRVRIEAVRALVSVDDVES----VAGAA---TDENREVRIAVAKG  765 (897)
T ss_pred             -CHHHHHHHHHHHHhhccCC-HHHHHHHh--cCCCHHHHHHHHHHHhcccCcHH----HHHHh---cCCCHHHHHHHHHH
Confidence             4444444555554433211 12222222  23344333444455544443322    11121   22445555555555


Q ss_pred             HhccCChHH-HHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHH
Q 048799          198 CSHGGLVEE-GLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMG  276 (331)
Q Consensus       198 ~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  276 (331)
                      +...+..+. +...+..+..    .++...-...+.++...|..+.+...+..+... ++..+-...+.++...+. +++
T Consensus       766 L~~~~~~~~~~~~~L~~ll~----D~d~~VR~aA~~aLg~~g~~~~~~~~l~~aL~d-~d~~VR~~Aa~aL~~l~~-~~a  839 (897)
T PRK13800        766 LATLGAGGAPAGDAVRALTG----DPDPLVRAAALAALAELGCPPDDVAAATAALRA-SAWQVRQGAARALAGAAA-DVA  839 (897)
T ss_pred             HHHhccccchhHHHHHHHhc----CCCHHHHHHHHHHHHhcCCcchhHHHHHHHhcC-CChHHHHHHHHHHHhccc-cch
Confidence            555544332 2333444432    245566666666666666654443333333333 344444445555555544 234


Q ss_pred             HHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHH
Q 048799          277 ERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVV  317 (331)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  317 (331)
                      ...+..+.+ +| +.......+.++.+......+...+...
T Consensus       840 ~~~L~~~L~-D~-~~~VR~~A~~aL~~~~~~~~a~~~L~~a  878 (897)
T PRK13800        840 VPALVEALT-DP-HLDVRKAAVLALTRWPGDPAARDALTTA  878 (897)
T ss_pred             HHHHHHHhc-CC-CHHHHHHHHHHHhccCCCHHHHHHHHHH
Confidence            444444432 22 2234444444554432223344444433

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.72  E-value=0.52  Score=24.82  Aligned_cols=28  Identities=25%  Similarity=0.389  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHH
Q 048799          189 VTFLSVLNACSHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       189 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~  216 (331)
                      .+++.|...|...|++++|..++++..+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            3455555555555555555555555543

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=91.70  E-value=8.3  Score=33.47  Aligned_cols=89  Identities=10%  Similarity=-0.005  Sum_probs=51.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHh--cCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhh
Q 048799          228 GCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACS--FHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGV  304 (331)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  304 (331)
                      +.+++.+.+.|-.++|.+.+..+... +|+...|..+|+.-.  ..-+..-+..+|+.+...-..++..|......-...
T Consensus       464 s~~l~~~~e~~~~~~ark~y~~l~~lpp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg~d~~lw~~y~~~e~~~  543 (568)
T KOG2396|consen  464 SKYLDWAYESGGYKKARKVYKSLQELPPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFGADSDLWMDYMKEELPL  543 (568)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHhCCCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhCCChHHHHHHHHhhccC
Confidence            44555666666667777777666666 445566666664321  122355666666666653334456666666555566


Q ss_pred             ccCcchHHHHHH
Q 048799          305 WRYGDAERLRRV  316 (331)
Q Consensus       305 g~~~~a~~~~~~  316 (331)
                      |+.+.+-.++.+
T Consensus       544 g~~en~~~~~~r  555 (568)
T KOG2396|consen  544 GRPENCGQIYWR  555 (568)
T ss_pred             CCcccccHHHHH
Confidence            666666555443

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.64  E-value=0.12  Score=41.74  Aligned_cols=85  Identities=7%  Similarity=-0.030  Sum_probs=46.0

Q ss_pred             cCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHH
Q 048799          237 AGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRR  315 (331)
Q Consensus       237 ~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  315 (331)
                      .|.++.|.+.|...+.. ++....|..-.+++.+.++...|++-+..+.+++|+...-|-.-..+....|+|.+|.+.+.
T Consensus       127 ~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl~  206 (377)
T KOG1308|consen  127 DGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHDLA  206 (377)
T ss_pred             CcchhhhhcccccccccCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHHHH
Confidence            45555555555555555 33334444445555555555666666655555555555555555555555555555555555


Q ss_pred             HHhhcc
Q 048799          316 VVDERN  321 (331)
Q Consensus       316 ~~~~~~  321 (331)
                      ..-+.+
T Consensus       207 ~a~kld  212 (377)
T KOG1308|consen  207 LACKLD  212 (377)
T ss_pred             HHHhcc
Confidence            554443

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=91.51  E-value=0.1  Score=37.14  Aligned_cols=84  Identities=14%  Similarity=0.107  Sum_probs=47.4

Q ss_pred             HHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCCh
Q 048799           90 VFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMG  169 (331)
Q Consensus        90 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  169 (331)
                      ++..+.+.+.......+++.+...+... +....+.++..|++.++.++..++++...     ..-...++..|.+.|.+
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~-~~~~~~~L~~ly~~~~~~~~l~~~L~~~~-----~yd~~~~~~~c~~~~l~   86 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKEN-NPDLHTLLLELYIKYDPYEKLLEFLKTSN-----NYDLDKALRLCEKHGLY   86 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC--SHHHHHHHHHHHHCTTTCCHHHHTTTSSS-----SS-CTHHHHHHHTTTSH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhccccc-CHHHHHHHHHHHHhcCCchHHHHHccccc-----ccCHHHHHHHHHhcchH
Confidence            4455556666666666777666555443 56677777777777766666666665221     12223444555555666


Q ss_pred             HHHHHHHHHH
Q 048799          170 KEAVENFERM  179 (331)
Q Consensus       170 ~~a~~~~~~m  179 (331)
                      +++.-++.++
T Consensus        87 ~~a~~Ly~~~   96 (143)
T PF00637_consen   87 EEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHCC
T ss_pred             HHHHHHHHHc
Confidence            6555555543

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.

>PRK10941 hypothetical protein; Provisional

Probab=91.37  E-value=1  Score=35.96  Aligned_cols=57  Identities=16%  Similarity=-0.082  Sum_probs=34.3

Q ss_pred             HHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          263 LLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       263 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      +-.+|.+.++++.|.++.+.+..+.|+++.-+.--+.+|.+.|.+..|..=++...+
T Consensus       187 LK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~  243 (269)
T PRK10941        187 LKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVE  243 (269)
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            444555666666666666666666666655555566666666666666655555544

>smart00028 TPR Tetratricopeptide repeats

Probab=91.28  E-value=0.31  Score=23.42  Aligned_cols=29  Identities=21%  Similarity=0.130  Sum_probs=15.1

Q ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHHhhc
Q 048799          260 WRTLLGACSFHGNVEMGERVTRKILEMER  288 (331)
Q Consensus       260 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  288 (331)
                      |..+...+...|+++.|...++..++..|
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            34444555555555555555555554433

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.12  E-value=5.9  Score=32.14  Aligned_cols=97  Identities=8%  Similarity=0.062  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHhcc---CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHH
Q 048799          154 VSWTSIISGFAMHGMGKEAVENFERMQKVV---LKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCL  230 (331)
Q Consensus       154 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  230 (331)
                      .+...++..-....+++.++..+-++....   ..|+... ..+++.+. .-+.++++.++..=+.- |+-||..+++.+
T Consensus        65 ~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irlll-ky~pq~~i~~l~npIqY-GiF~dqf~~c~l  141 (418)
T KOG4570|consen   65 LTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLLL-KYDPQKAIYTLVNPIQY-GIFPDQFTFCLL  141 (418)
T ss_pred             eehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHHH-ccChHHHHHHHhCcchh-ccccchhhHHHH
Confidence            344455555555667777777776665421   1222222 22333332 23556676666665554 777888888888


Q ss_pred             HHHHHhcCCHHHHHHHHhhcccC
Q 048799          231 IDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      ++.+.+.+++.+|.++...++..
T Consensus       142 ~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  142 MDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHH
Confidence            88888888888777776666544

>PRK09687 putative lyase; Provisional

Probab=91.04  E-value=7.2  Score=31.53  Aligned_cols=232  Identities=10%  Similarity=0.014  Sum_probs=94.0

Q ss_pred             CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCCh----hHHHHHHHHHHhccCCCCchHHHHH
Q 048799           14 ERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRS----NGALALFRRMVACEYTEPSEITILA   89 (331)
Q Consensus        14 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~~~   89 (331)
                      .+|.......+.++...|..+-...+.+-+..+|...-...+.++.+.|+.    .++...+..+..   -.|+...-..
T Consensus        34 d~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~---~D~d~~VR~~  110 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLAL---EDKSACVRAS  110 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHh---cCCCHHHHHH
Confidence            344445555555555555433333333322344444444455555555542    234455544411   1234443333


Q ss_pred             HHHHHhhcCch-----hHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHH
Q 048799           90 VFPAIWQNGDV-----RNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFA  164 (331)
Q Consensus        90 l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~  164 (331)
                      .+.++...+..     ..+...+.....   .+ +..+....+.++.+.|+ .++...+-.+.. .++...-...+.++.
T Consensus       111 A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~-~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~-d~~~~VR~~A~~aLg  184 (280)
T PRK09687        111 AINATGHRCKKNPLYSPKIVEQSQITAF---DK-STNVRFAVAFALSVIND-EAAIPLLINLLK-DPNGDVRNWAAFALN  184 (280)
T ss_pred             HHHHHhcccccccccchHHHHHHHHHhh---CC-CHHHHHHHHHHHhccCC-HHHHHHHHHHhc-CCCHHHHHHHHHHHh
Confidence            44443333211     111222212111   12 33344444555555554 334444433332 222223333333333


Q ss_pred             ccC-ChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHH
Q 048799          165 MHG-MGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQA  243 (331)
Q Consensus       165 ~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  243 (331)
                      +.+ +.+.+...+..+..   .++...-...+.++.+.|+ ..|...+-...+. +   +  .....+.++.+.|.. +|
T Consensus       185 ~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~-~---~--~~~~a~~ALg~ig~~-~a  253 (280)
T PRK09687        185 SNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKK-G---T--VGDLIIEAAGELGDK-TL  253 (280)
T ss_pred             cCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcC-C---c--hHHHHHHHHHhcCCH-hH
Confidence            322 13344444444442   2344444555555555555 2344433333332 1   1  123444555555553 45


Q ss_pred             HHHHhhcccCCccHHHHHHHHH
Q 048799          244 EKVASGIPSEITNVVVWRTLLG  265 (331)
Q Consensus       244 ~~~~~~~~~~~p~~~~~~~l~~  265 (331)
                      ...+..+....||..+-...+.
T Consensus       254 ~p~L~~l~~~~~d~~v~~~a~~  275 (280)
T PRK09687        254 LPVLDTLLYKFDDNEIITKAID  275 (280)
T ss_pred             HHHHHHHHhhCCChhHHHHHHH
Confidence            5555555443344444433333

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=90.91  E-value=1.8  Score=32.94  Aligned_cols=53  Identities=9%  Similarity=-0.004  Sum_probs=24.7

Q ss_pred             HHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHh
Q 048799           92 PAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDI  146 (331)
Q Consensus        92 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  146 (331)
                      +.+.+.+++.+++...+.-++.++.  +......+.+.++-.|+|++|..-++-.
T Consensus         9 seLL~~~sL~dai~~a~~qVkakPt--da~~RhflfqLlcvaGdw~kAl~Ql~l~   61 (273)
T COG4455           9 SELLDDNSLQDAIGLARDQVKAKPT--DAGGRHFLFQLLCVAGDWEKALAQLNLA   61 (273)
T ss_pred             HHHHHhccHHHHHHHHHHHHhcCCc--cccchhHHHHHHhhcchHHHHHHHHHHH
Confidence            3344444455555544444444322  3334444555555555555555444433

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.89  E-value=12  Score=33.78  Aligned_cols=85  Identities=13%  Similarity=0.020  Sum_probs=37.2

Q ss_pred             hhcCchhHHHHHHhhhhh-------cCCCcchhHHHHHHHHHHHhcC-----CHhHHHHHHHHhhhcC-CcHHHHHHHHH
Q 048799           95 WQNGDVRNCQLIHGYGEK-------RGFNAFHIHVSNCLIDTYAKCG-----CIFSALKLFEDISVER-KNLVSWTSIIS  161 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~~l~~~~~~~g-----~~~~A~~~~~~~~~~~-~~~~~~~~l~~  161 (331)
                      ....|.+.|+.+++.+.+       .|.    +.....+..+|.+..     +...|..+|......+ |+....-..+.
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 GVTQDLESAIEYLKLAAESFKKAATKGL----PPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGNPDAQYLLGVLY  335 (552)
T ss_pred             cccccHHHHHHHHHHHHHHHHHHHhhcC----CccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCCchHHHHHHHHH
Confidence            344556666666665544       331    122334455555432     3445666655554332 22222111111


Q ss_pred             HHHc-cCChHHHHHHHHHHHhcc
Q 048799          162 GFAM-HGMGKEAVENFERMQKVV  183 (331)
Q Consensus       162 ~~~~-~~~~~~a~~~~~~m~~~~  183 (331)
                      .... ..+...|.++|...-+.|
T Consensus       336 ~~g~~~~d~~~A~~yy~~Aa~~G  358 (552)
T KOG1550|consen  336 ETGTKERDYRRAFEYYSLAAKAG  358 (552)
T ss_pred             HcCCccccHHHHHHHHHHHHHcC
Confidence            1111 134556666666655554

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=90.72  E-value=2.1  Score=32.56  Aligned_cols=76  Identities=13%  Similarity=-0.009  Sum_probs=48.9

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh-cCCCCcHhhHHHHHH
Q 048799          156 WTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE-CEVLPDIKHYGCLID  232 (331)
Q Consensus       156 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~  232 (331)
                      .+..++.+.+.+...+++...++-++.+ +.|..+-..++..+|-.|++++|..-++...+. ....+...+|..++.
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            4455677778888888888887766543 335556667788888888888887777665532 022233445555554

>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=90.57  E-value=0.56  Score=21.95  Aligned_cols=21  Identities=19%  Similarity=0.037  Sum_probs=11.3

Q ss_pred             HHHHHHHHhcCCHhHHHHHHH
Q 048799          124 NCLIDTYAKCGCIFSALKLFE  144 (331)
Q Consensus       124 ~~l~~~~~~~g~~~~A~~~~~  144 (331)
                      ..+...+...|+.++|..+++
T Consensus         5 ~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    5 LALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHcCCHHHHHHHHh
Confidence            345555555555555555543

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

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=90.22  E-value=1.8  Score=37.00  Aligned_cols=131  Identities=13%  Similarity=0.066  Sum_probs=69.4

Q ss_pred             hcCCHhHHHHHHHHhhhc-CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHH
Q 048799          132 KCGCIFSALKLFEDISVE-RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKF  210 (331)
Q Consensus       132 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  210 (331)
                      ..|++-.|-+-+...... +.++.........+...|+++.+.+.+...... +.....+...+++...+.|+++.|...
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~  379 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALST  379 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHH
Confidence            345554444333333323 223333333333455667777777777655332 334556666777777777777777777


Q ss_pred             HHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHH
Q 048799          211 FDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLG  265 (331)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~  265 (331)
                      -.-|... .+. ++.+...-...--..|-++++...|++.... +|...-|..++.
T Consensus       380 a~~~l~~-eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v~~~~  433 (831)
T PRK15180        380 AEMMLSN-EIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWVNFLS  433 (831)
T ss_pred             HHHHhcc-ccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccceeeec
Confidence            7766654 332 3333333333334456677777777766555 344444444443

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=90.05  E-value=1  Score=25.62  Aligned_cols=31  Identities=23%  Similarity=0.139  Sum_probs=24.6

Q ss_pred             HHHHHHhcCCchhHHHHHHHHHHHhhcCCCc
Q 048799          262 TLLGACSFHGNVEMGERVTRKILEMERGYGG  292 (331)
Q Consensus       262 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  292 (331)
                      .+.-++.+.|++++|.+..+.+++.+|++..
T Consensus         6 ~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Q   36 (53)
T PF14853_consen    6 YLAIGHYKLGEYEKARRYCDALLEIEPDNRQ   36 (53)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHTTS-HH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhhCCCcHH
Confidence            4566788999999999999999999998843

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=89.57  E-value=1  Score=39.45  Aligned_cols=95  Identities=13%  Similarity=0.019  Sum_probs=56.2

Q ss_pred             cCChHHHHHHHHHHHHhcCCCC--cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHH
Q 048799          201 GGLVEEGLKFFDKMVEECEVLP--DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGE  277 (331)
Q Consensus       201 ~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~  277 (331)
                      .|+...|...+..+..   ..|  .......|.+.+.+.|...+|-.++...... ...+.++..+.+++....+++.|+
T Consensus       620 ~gn~~~a~~cl~~a~~---~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i~~a~  696 (886)
T KOG4507|consen  620 VGNSTFAIACLQRALN---LAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNISGAL  696 (886)
T ss_pred             cCCcHHHHHHHHHHhc---cChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhhHHHH
Confidence            4666666666665542   233  2233444555566666666666666655444 334556666667777777777777


Q ss_pred             HHHHHHHHhhcCCCccHHHHH
Q 048799          278 RVTRKILEMERGYGGDYVLMY  298 (331)
Q Consensus       278 ~~~~~~~~~~~~~~~~~~~l~  298 (331)
                      +.|+++.+..|+++..-..|.
T Consensus       697 ~~~~~a~~~~~~~~~~~~~l~  717 (886)
T KOG4507|consen  697 EAFRQALKLTTKCPECENSLK  717 (886)
T ss_pred             HHHHHHHhcCCCChhhHHHHH
Confidence            777777777666655544443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.48  E-value=4.4  Score=26.66  Aligned_cols=59  Identities=8%  Similarity=0.005  Sum_probs=36.0

Q ss_pred             HHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHH
Q 048799          102 NCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIIS  161 (331)
Q Consensus       102 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~  161 (331)
                      +..+-++.+......| ++.+..+.++++.+.+++..|.++|+.++....+ ...|..++.
T Consensus        28 e~rrglN~l~~~DlVP-~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVP-EPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB----HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCC-ChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            4455566666666677 7777777788888888888888888777655322 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 ....

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=89.46  E-value=1.1  Score=34.62  Aligned_cols=100  Identities=14%  Similarity=-0.004  Sum_probs=60.0

Q ss_pred             HHHhccCChHHHHHHHHHHHHhc-----CCCCcHh-----------hHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHH
Q 048799          196 NACSHGGLVEEGLKFFDKMVEEC-----EVLPDIK-----------HYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVV  258 (331)
Q Consensus       196 ~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~-----------~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~  258 (331)
                      +-+.+.|++++|..-|.+++...     .-+|...           .+....+++...|++-++++...++... +.+..
T Consensus       186 N~lfk~~~ykEA~~~YreAi~~l~~L~lkEkP~e~eW~eLdk~~tpLllNy~QC~L~~~e~yevleh~seiL~~~~~nvK  265 (329)
T KOG0545|consen  186 NRLFKLGRYKEASSKYREAIICLRNLQLKEKPGEPEWLELDKMITPLLLNYCQCLLKKEEYYEVLEHCSEILRHHPGNVK  265 (329)
T ss_pred             hhhhhhccHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHhhhHHHHhHHHHHhhHHHHHHHHHHHHHHHhcCCchHH
Confidence            34567788888888777764310     1122211           2233334455567777777777776666 33566


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHH
Q 048799          259 VWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYV  295 (331)
Q Consensus       259 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  295 (331)
                      .|-.-..+.+..-+..+|..-|.++++++|.-.++-.
T Consensus       266 A~frRakAhaa~Wn~~eA~~D~~~vL~ldpslasvVs  302 (329)
T KOG0545|consen  266 AYFRRAKAHAAVWNEAEAKADLQKVLELDPSLASVVS  302 (329)
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHhcChhhHHHHH
Confidence            6666666666666777777777777777765444333

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=89.42  E-value=9.8  Score=30.57  Aligned_cols=124  Identities=10%  Similarity=0.085  Sum_probs=84.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhh-cC-chhHHHHHHhhhhhc-CCCcchhHHHHHHH
Q 048799           51 WTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQ-NG-DVRNCQLIHGYGEKR-GFNAFHIHVSNCLI  127 (331)
Q Consensus        51 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~  127 (331)
                      |..|+.   +...+.+|+.+|+.....+.+--|......+++.... .+ ....--++.+-+... +..+ +..+...++
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l-~~~vi~~Il  209 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSL-TRNVIISIL  209 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCC-ChhHHHHHH
Confidence            665553   3445778889888541213355777777777777765 22 222333333334332 2334 667778899


Q ss_pred             HHHHhcCCHhHHHHHHHHhhhc---CCcHHHHHHHHHHHHccCChHHHHHHHHH
Q 048799          128 DTYAKCGCIFSALKLFEDISVE---RKNLVSWTSIISGFAMHGMGKEAVENFER  178 (331)
Q Consensus       128 ~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  178 (331)
                      +.+++.++|.+-.++++.....   ..|...|..+|..-...|+..-...+.++
T Consensus       210 ~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  210 EILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            9999999999999999887655   34788999999999999998766665543

>smart00028 TPR Tetratricopeptide repeats

Probab=87.67  E-value=1.3  Score=20.92  Aligned_cols=23  Identities=30%  Similarity=0.317  Sum_probs=10.6

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHh
Q 048799          124 NCLIDTYAKCGCIFSALKLFEDI  146 (331)
Q Consensus       124 ~~l~~~~~~~g~~~~A~~~~~~~  146 (331)
                      ..+...+...|+++.|...|+..
T Consensus         5 ~~~a~~~~~~~~~~~a~~~~~~~   27 (34)
T smart00028        5 YNLGNAYLKLGDYDEALEYYEKA   27 (34)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHH
Confidence            33444444444444444444444

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.

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=87.35  E-value=12  Score=29.16  Aligned_cols=81  Identities=9%  Similarity=-0.210  Sum_probs=39.4

Q ss_pred             cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHH-HHHHHHHHHHccCChHHHHHH
Q 048799           97 NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLV-SWTSIISGFAMHGMGKEAVEN  175 (331)
Q Consensus        97 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~  175 (331)
                      ...++.|+..|.+.+...+.  .+..|+.-+.++.+..+++.+..--.+..+..|+.. ....+.........++.|+..
T Consensus        23 ~k~y~~ai~~y~raI~~nP~--~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI~~  100 (284)
T KOG4642|consen   23 PKRYDDAIDCYSRAICINPT--VASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAIKV  100 (284)
T ss_pred             hhhhchHHHHHHHHHhcCCC--cchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHHHH
Confidence            34455555555444444322  234444445555555555555555555544444432 233334444555555555555


Q ss_pred             HHHH
Q 048799          176 FERM  179 (331)
Q Consensus       176 ~~~m  179 (331)
                      +.+.
T Consensus       101 Lqra  104 (284)
T KOG4642|consen  101 LQRA  104 (284)
T ss_pred             HHHH
Confidence            5554

>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=87.06  E-value=9.9  Score=27.86  Aligned_cols=123  Identities=15%  Similarity=0.095  Sum_probs=73.9

Q ss_pred             CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHH
Q 048799          150 RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGC  229 (331)
Q Consensus       150 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  229 (331)
                      .++...+..++..+.+.|++....    .+.+.++-+|.......+-.+.  +....+.++--.|.++.+     ..+..
T Consensus        26 ~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkRL~-----~~~~~   94 (167)
T PF07035_consen   26 PVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKRLG-----TAYEE   94 (167)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHHhh-----hhHHH
Confidence            567778888888888888766444    4445666676665554443332  233444444444444311     13445


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          230 LIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      +++.+...|++-+|.++.+.....  +......++.+..+.+|...-..+++-..+
T Consensus        95 iievLL~~g~vl~ALr~ar~~~~~--~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   95 IIEVLLSKGQVLEALRYARQYHKV--DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcCCc--ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            677788889999999988875433  222224456666666776666666665554

>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion)

Probab=86.89  E-value=7.1  Score=25.99  Aligned_cols=79  Identities=14%  Similarity=0.119  Sum_probs=39.2

Q ss_pred             chhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHH
Q 048799           99 DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFER  178 (331)
Q Consensus        99 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  178 (331)
                      ..++|..+.+.+...+..  ...+--+-+..+...|+|++|  +........||...|.++..  .+.|-.+++...+.+
T Consensus        21 cH~EA~tIa~wL~~~~~~--~E~v~lIr~~sLmNrG~Yq~A--Ll~~~~~~~pdL~p~~AL~a--~klGL~~~~e~~l~r   94 (116)
T PF09477_consen   21 CHQEANTIADWLEQEGEM--EEVVALIRLSSLMNRGDYQEA--LLLPQCHCYPDLEPWAALCA--WKLGLASALESRLTR   94 (116)
T ss_dssp             -HHHHHHHHHHHHHTTTT--HHHHHHHHHHHHHHTT-HHHH--HHHHTTS--GGGHHHHHHHH--HHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCcH--HHHHHHHHHHHHHhhHHHHHH--HHhcccCCCccHHHHHHHHH--HhhccHHHHHHHHHH
Confidence            456666666666655542  223333344556667777777  22222223466666655543  356666666666666


Q ss_pred             HHhcc
Q 048799          179 MQKVV  183 (331)
Q Consensus       179 m~~~~  183 (331)
                      +...|
T Consensus        95 la~~g   99 (116)
T PF09477_consen   95 LASSG   99 (116)
T ss_dssp             HCT-S
T ss_pred             HHhCC
Confidence            55443

The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=86.84  E-value=1.8  Score=23.47  Aligned_cols=20  Identities=25%  Similarity=0.439  Sum_probs=8.1

Q ss_pred             HHHHHhcCCHhHHHHHHHHh
Q 048799          127 IDTYAKCGCIFSALKLFEDI  146 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~  146 (331)
                      ..+|...|+.+.|.++++++
T Consensus         6 A~ayie~Gd~e~Ar~lL~ev   25 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEV   25 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHH
Confidence            33344444444444444433

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.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=86.38  E-value=2.1  Score=23.22  Aligned_cols=21  Identities=24%  Similarity=0.449  Sum_probs=11.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHH
Q 048799           54 IIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus        54 l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      |..+|...|+.+.|.++++++
T Consensus         5 LA~ayie~Gd~e~Ar~lL~ev   25 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEV   25 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHH
Confidence            444555555555555555554

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.

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=86.36  E-value=16  Score=29.41  Aligned_cols=53  Identities=8%  Similarity=-0.020  Sum_probs=25.9

Q ss_pred             HHHHHHhcCCchhHHHHHHHHHHH----hh--cCCCccHHHHHHHHhhhccCcchHHHH
Q 048799          262 TLLGACSFHGNVEMGERVTRKILE----ME--RGYGGDYVLMYNILAGVWRYGDAERLR  314 (331)
Q Consensus       262 ~l~~~~~~~g~~~~a~~~~~~~~~----~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~  314 (331)
                      .++..+.+.|.+.+|+.+...+..    .+  |+-...+..=..+|....+..++..-+
T Consensus       130 Kli~l~y~~~~YsdalalIn~ll~ElKk~DDK~~Li~vhllESKvyh~irnv~KskaSL  188 (421)
T COG5159         130 KLIYLLYKTGKYSDALALINPLLHELKKYDDKINLITVHLLESKVYHEIRNVSKSKASL  188 (421)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHHHhhcCccceeehhhhhHHHHHHHHhhhhhhhHH
Confidence            355566666777766666555443    11  222233333344555555544444333

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=86.17  E-value=1.6  Score=21.15  Aligned_cols=30  Identities=13%  Similarity=0.163  Sum_probs=21.1

Q ss_pred             CchhHHHHHHHHHHHhhcCCCccHHHHHHH
Q 048799          271 GNVEMGERVTRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       271 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      |+.+.+..+|+++....|.++..|..++..
T Consensus         1 ~~~~~~r~i~e~~l~~~~~~~~~W~~y~~~   30 (33)
T smart00386        1 GDIERARKIYERALEKFPKSVELWLKYAEF   30 (33)
T ss_pred             CcHHHHHHHHHHHHHHCCCChHHHHHHHHH
Confidence            456778888888887777776666665543

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=85.99  E-value=7.4  Score=25.36  Aligned_cols=62  Identities=11%  Similarity=0.108  Sum_probs=40.1

Q ss_pred             ChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHH
Q 048799          203 LVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLG  265 (331)
Q Consensus       203 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~  265 (331)
                      +.-++.+-++.+... .+.|++.+..+-+++|.+.+++.-|.++++.+..+ ..+...|..+++
T Consensus        22 D~we~rr~mN~l~~~-DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGY-DLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhcc-ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHHHH
Confidence            344555556665554 67778888888888888888888888888776644 223344554443

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.

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=85.81  E-value=3.2  Score=24.54  Aligned_cols=24  Identities=25%  Similarity=0.322  Sum_probs=11.0

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHH
Q 048799          157 TSIISGFAMHGMGKEAVENFERMQ  180 (331)
Q Consensus       157 ~~l~~~~~~~~~~~~a~~~~~~m~  180 (331)
                      -.+|.+|...|++++|.++++++.
T Consensus        27 LqvI~gllqlg~~~~a~eYi~~~~   50 (62)
T PF14689_consen   27 LQVIYGLLQLGKYEEAKEYIKELS   50 (62)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHH
Confidence            334444555555555555444443

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=85.68  E-value=8  Score=25.43  Aligned_cols=51  Identities=18%  Similarity=0.124  Sum_probs=27.4

Q ss_pred             HHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcC
Q 048799           57 GYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRG  114 (331)
Q Consensus        57 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  114 (331)
                      .+...|+|++|+.+.+..     ..||...|..+-.  .+.|--+.+..-+.++...|
T Consensus        48 SLmNrG~Yq~Al~l~~~~-----~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg   98 (115)
T TIGR02508        48 SLMNRGDYQSALQLGNKL-----CYPDLEPWLALCE--WRLGLGSALESRLNRLAASG   98 (115)
T ss_pred             HHHccchHHHHHHhcCCC-----CCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC
Confidence            355666666666655554     3566555544433  24555555555555555544

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>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=85.66  E-value=2.8  Score=26.05  Aligned_cols=16  Identities=25%  Similarity=0.443  Sum_probs=7.8

Q ss_pred             hcCChhHHHHHHHHHH
Q 048799           60 RMNRSNGALALFRRMV   75 (331)
Q Consensus        60 ~~~~~~~a~~~~~~~~   75 (331)
                      .+++.++|+..|+..+
T Consensus        18 ~~~~~~~Al~~W~~aL   33 (80)
T PF10579_consen   18 HQNETQQALQKWRKAL   33 (80)
T ss_pred             ccchHHHHHHHHHHHH
Confidence            3444555555555543

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

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=85.55  E-value=29  Score=31.82  Aligned_cols=194  Identities=13%  Similarity=0.137  Sum_probs=116.3

Q ss_pred             CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCch--HHHHHHHHHHh-hcCchhHHHHHHhhhhhcCCCc--ch-
Q 048799           46 RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSE--ITILAVFPAIW-QNGDVRNCQLIHGYGEKRGFNA--FH-  119 (331)
Q Consensus        46 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~--~~-  119 (331)
                      .+...|..||..         |++.++-+.....++|..  .++..+...+. ...+++.|+..+++.+.....+  .+ 
T Consensus        28 ~~l~~Y~kLI~~---------ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~   98 (608)
T PF10345_consen   28 EQLKQYYKLIAT---------AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDL   98 (608)
T ss_pred             hhHHHHHHHHHH---------HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHH
Confidence            455677777654         555666664344444543  35556677665 6889999999999876543222  01 


Q ss_pred             -hHHHHHHHHHHHhcCCHhHHHHHHHHhhhc--C-C---cHHHHHHH-HHHHHccCChHHHHHHHHHHHhcc---CCCCH
Q 048799          120 -IHVSNCLIDTYAKCGCIFSALKLFEDISVE--R-K---NLVSWTSI-ISGFAMHGMGKEAVENFERMQKVV---LKPNR  188 (331)
Q Consensus       120 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~-~---~~~~~~~l-~~~~~~~~~~~~a~~~~~~m~~~~---~~p~~  188 (331)
                       -.....++..+.+.+... |...+++....  . +   -...+..+ +..+...+++..|.+.++.+...-   ..|-.
T Consensus        99 k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~  177 (608)
T PF10345_consen   99 KFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAV  177 (608)
T ss_pred             HHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHH
Confidence             123345677888888777 99888887655  1 1   12233333 333333489999999998886642   23344


Q ss_pred             HHHHHHHHHHh--ccCChHHHHHHHHHHHHhc-C-------CCCcHhhHHHHHHHHH--hcCCHHHHHHHHhh
Q 048799          189 VTFLSVLNACS--HGGLVEEGLKFFDKMVEEC-E-------VLPDIKHYGCLIDMLG--RAGRLEQAEKVASG  249 (331)
Q Consensus       189 ~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~-~-------~~~~~~~~~~l~~~~~--~~g~~~~A~~~~~~  249 (331)
                      ..+..++.+..  +.+..+++.+.++.+.... +       ..|...++..+++.++  ..|++..+...++.
T Consensus       178 ~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~  250 (608)
T PF10345_consen  178 FVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQ  250 (608)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            44445555433  4566777888887774430 1       1345667777776554  56776666555444

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 [].

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=85.38  E-value=3.3  Score=36.51  Aligned_cols=124  Identities=14%  Similarity=0.038  Sum_probs=69.2

Q ss_pred             HHHHHHHhhCCCCCchhHHHHH---HHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhh
Q 048799           34 EYARSLFEEMPCRNVVSWTGII---DGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYG  110 (331)
Q Consensus        34 ~~A~~~~~~~~~~~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  110 (331)
                      +-+-.++..|..|+...|-.|-   --....|+...|...+........ .-..+....|.....+.|-.-.|..++.+.
T Consensus       590 e~~~~~~~~~~~~~~p~w~~ln~aglywr~~gn~~~a~~cl~~a~~~~p-~~~~v~~v~la~~~~~~~~~~da~~~l~q~  668 (886)
T KOG4507|consen  590 EIGSFLFHAINKPNAPIWLILNEAGLYWRAVGNSTFAIACLQRALNLAP-LQQDVPLVNLANLLIHYGLHLDATKLLLQA  668 (886)
T ss_pred             HHHHHHHHHhcCCCCCeEEEeecccceeeecCCcHHHHHHHHHHhccCh-hhhcccHHHHHHHHHHhhhhccHHHHHHHH
Confidence            4455566666655554443221   112345777777777766632211 122234445566666666666677776666


Q ss_pred             hhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHH
Q 048799          111 EKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSII  160 (331)
Q Consensus       111 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~  160 (331)
                      +.....  .+-++..+.+++....+++.|++.|+++.+..| +...-+.|.
T Consensus       669 l~~~~s--epl~~~~~g~~~l~l~~i~~a~~~~~~a~~~~~~~~~~~~~l~  717 (886)
T KOG4507|consen  669 LAINSS--EPLTFLSLGNAYLALKNISGALEAFRQALKLTTKCPECENSLK  717 (886)
T ss_pred             Hhhccc--CchHHHhcchhHHHHhhhHHHHHHHHHHHhcCCCChhhHHHHH
Confidence            655422  445556677777777777777777777766544 344444443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.28  E-value=16  Score=28.48  Aligned_cols=60  Identities=8%  Similarity=0.091  Sum_probs=28.8

Q ss_pred             HHhcCCHHHHHHHHhhcccC--CccHHHHH------HHHHHHhcCCchhHHHHHHHHHHHhhcCCCcc
Q 048799          234 LGRAGRLEQAEKVASGIPSE--ITNVVVWR------TLLGACSFHGNVEMGERVTRKILEMERGYGGD  293 (331)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~--~p~~~~~~------~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  293 (331)
                      -...+++.+|.++|++....  ..+..-|.      .-.-++....+.-.+...+++..+..|....+
T Consensus       164 aa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~dP~F~ds  231 (288)
T KOG1586|consen  164 AAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELDPAFTDS  231 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcCCccccc
Confidence            34556666666666665444  11111111      11112223355556666666666666654443

>KOG2300 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.08  E-value=25  Score=30.63  Aligned_cols=295  Identities=12%  Similarity=-0.009  Sum_probs=145.6

Q ss_pred             HHHHHHHHHHHHcC-CHHHHHHHHhhCCC--CCchhHH-----HHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHH
Q 048799           18 VTWNVMITGLVKWG-ELEYARSLFEEMPC--RNVVSWT-----GIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILA   89 (331)
Q Consensus        18 ~~~~~l~~~~~~~g-~~~~A~~~~~~~~~--~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   89 (331)
                      .++..|.+.|.... .+..|..++++..+  .+...|.     .|+..+.-..++..|.+++.--  .....+-...|..
T Consensus        89 ~a~SlLa~lh~~~~~s~~~~KalLrkaielsq~~p~wsckllfQLaql~~idkD~~sA~elLavg--a~sAd~~~~~ylr  166 (629)
T KOG2300|consen   89 QAASLLAHLHHQLAQSFPPAKALLRKAIELSQSVPYWSCKLLFQLAQLHIIDKDFPSALELLAVG--AESADHICFPYLR  166 (629)
T ss_pred             HHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCchhhHHHHHHHHHHHhhhccchhHHHHHhcc--ccccchhhhHHHH
Confidence            46677777777766 67777777776542  2222332     4566677778888888885432  1122222223332


Q ss_pred             HHHHH------h---hcCchhHHHHHHhhhhhcCCCcchhH--------HHHHHHHHHHhcCCHhHHHHHHHHhhhc---
Q 048799           90 VFPAI------W---QNGDVRNCQLIHGYGEKRGFNAFHIH--------VSNCLIDTYAKCGCIFSALKLFEDISVE---  149 (331)
Q Consensus        90 l~~~~------~---~~~~~~~a~~~~~~~~~~~~~~~~~~--------~~~~l~~~~~~~g~~~~A~~~~~~~~~~---  149 (331)
                      ++-.+      .   +..++..+.....++.+....  |..        ..+.-+.-|...|+...+...++++.+.   
T Consensus       167 ~~ftls~~~ll~me~d~~dV~~ll~~~~qi~~n~~s--dk~~~E~LkvFyl~lql~yy~~~gq~rt~k~~lkQLQ~siqt  244 (629)
T KOG2300|consen  167 MLFTLSMLMLLIMERDDYDVEKLLQRCGQIWQNISS--DKTQKEMLKVFYLVLQLSYYLLPGQVRTVKPALKQLQDSIQT  244 (629)
T ss_pred             HHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhccCC--ChHHHHHHHHHHHHHHHHHHhcccchhhhHHHHHHHHHHHhc
Confidence            22111      1   223344455555555544221  221        1122234455677777777777665432   


Q ss_pred             --------------CCcHHHHHHH----HHH---------HHccCChHHHHHHHHHHH-------hcc-CCCCHHH----
Q 048799          150 --------------RKNLVSWTSI----ISG---------FAMHGMGKEAVENFERMQ-------KVV-LKPNRVT----  190 (331)
Q Consensus       150 --------------~~~~~~~~~l----~~~---------~~~~~~~~~a~~~~~~m~-------~~~-~~p~~~~----  190 (331)
                                    .|.+..+.-+    |.+         -...|-+++|.++-++++       +.. ..|-...    
T Consensus       245 ist~~~~h~e~ilgsps~~l~~wlpkeqicaLV~l~tv~hsm~~gy~~~~~K~tDe~i~q~eklkq~d~~srilsm~km~  324 (629)
T KOG2300|consen  245 ISTSSRGHDEKILGSPSPILFEWLPKEQICALVYLVTVIHSMPAGYFKKAQKYTDEAIKQTEKLKQADLMSRILSMFKMI  324 (629)
T ss_pred             cCCCCCCccccccCCCChHHHhhccHhhhHhhhhhhHHhhhhhhHHHHHHHHHHHHHHHHHhhcccccchhHHHHHHHHH
Confidence                          1111111100    111         112344455554444432       221 1221111    


Q ss_pred             -HHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHh-------hHHHHHHH-HHhcCCHHHHHHHHhhcccC--CccH--
Q 048799          191 -FLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIK-------HYGCLIDM-LGRAGRLEQAEKVASGIPSE--ITNV--  257 (331)
Q Consensus       191 -~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------~~~~l~~~-~~~~g~~~~A~~~~~~~~~~--~p~~--  257 (331)
                       ...++.+-.-.|++.+|++-...|.+-+.-.|.+.       ....++.. ++..|.++.|+.-|..+.+.  ..+.  
T Consensus       325 ~LE~iv~c~lv~~~~~~al~~i~dm~~w~~r~p~~~Llr~~~~~ih~LlGlys~sv~~~enAe~hf~~a~k~t~~~dl~a  404 (629)
T KOG2300|consen  325 LLEHIVMCRLVRGDYVEALEEIVDMKNWCTRFPTPLLLRAHEAQIHMLLGLYSHSVNCYENAEFHFIEATKLTESIDLQA  404 (629)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhCCchHHHHHhHHHHHHHHhhHhhhcchHHHHHHHHHHHHHhhhHHHHHH
Confidence             12222222346888888888888876544444421       12223333 34568888888888877665  2222  


Q ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc----------cHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          258 VVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG----------DYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       258 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----------~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      ..-..+...|.+.|+.+.-.++++.   +.|.+..          .+...+-.....+++.+|...+.+-.+
T Consensus       405 ~~nlnlAi~YL~~~~~ed~y~~ld~---i~p~nt~s~ssq~l~a~~~~v~glfaf~qn~lnEaK~~l~e~Lk  473 (629)
T KOG2300|consen  405 FCNLNLAISYLRIGDAEDLYKALDL---IGPLNTNSLSSQRLEASILYVYGLFAFKQNDLNEAKRFLRETLK  473 (629)
T ss_pred             HHHHhHHHHHHHhccHHHHHHHHHh---cCCCCCCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHh
Confidence            2223345567777665544444433   4455322          222233344567888888887776544

>PRK10941 hypothetical protein; Provisional

Probab=85.02  E-value=5.9  Score=31.74  Aligned_cols=66  Identities=9%  Similarity=-0.147  Sum_probs=51.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCcc
Q 048799          228 GCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGD  293 (331)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  293 (331)
                      +.+-.+|.+.++++.|.++.+.+....| ++.-+.--.-.|.+.|.+..|..-++..++..|+++.+
T Consensus       185 ~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp~a  251 (269)
T PRK10941        185 DTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDPIS  251 (269)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCchhH
Confidence            4455677888889999888888877744 45666667777888889999988888888888877544

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=84.70  E-value=11  Score=26.07  Aligned_cols=59  Identities=14%  Similarity=0.295  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHH
Q 048799          171 EAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLI  231 (331)
Q Consensus       171 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  231 (331)
                      +..+-++.+....+.|++.....-+++|.+.+++..|.++|+-...+.  .+....|-.++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K~--g~~k~~Y~y~v  125 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDKC--GAQKQVYPYYV  125 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHhc--ccHHHHHHHHH
Confidence            455556666666778888888888888888888888888888876642  23333454444

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=84.41  E-value=0.62  Score=39.58  Aligned_cols=97  Identities=10%  Similarity=-0.020  Sum_probs=70.6

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHH-HHHHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHHHhcCC
Q 048799          194 VLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGC-LIDMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGACSFHG  271 (331)
Q Consensus       194 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  271 (331)
                      -+..+...+.++.|..++.++++.   .|+...|-. =..++.+.+++..|..=+..+++..|+ ...|..=..++...+
T Consensus        10 ean~~l~~~~fd~avdlysKaI~l---dpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~   86 (476)
T KOG0376|consen   10 EANEALKDKVFDVAVDLYSKAIEL---DPNCAIYFANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALG   86 (476)
T ss_pred             HHhhhcccchHHHHHHHHHHHHhc---CCcceeeechhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHH
Confidence            345566778899999999999854   676555433 347888999999999888888877443 344444455666777


Q ss_pred             chhHHHHHHHHHHHhhcCCCcc
Q 048799          272 NVEMGERVTRKILEMERGYGGD  293 (331)
Q Consensus       272 ~~~~a~~~~~~~~~~~~~~~~~  293 (331)
                      ++.+|...|+......|+++..
T Consensus        87 ~~~~A~~~l~~~~~l~Pnd~~~  108 (476)
T KOG0376|consen   87 EFKKALLDLEKVKKLAPNDPDA  108 (476)
T ss_pred             HHHHHHHHHHHhhhcCcCcHHH
Confidence            8888888888888888887443

>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]

Probab=84.23  E-value=19  Score=29.61  Aligned_cols=64  Identities=16%  Similarity=0.041  Sum_probs=40.1

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHhhhc-----CCcHHHHH--HHHHHHHccCChHHHHHHHHHHHh-----ccCCCCH
Q 048799          125 CLIDTYAKCGCIFSALKLFEDISVE-----RKNLVSWT--SIISGFAMHGMGKEAVENFERMQK-----VVLKPNR  188 (331)
Q Consensus       125 ~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~  188 (331)
                      .++...-+.++.++|+++++++...     .|+.+.|.  .+...+...|+.+++.+++.+...     .|++|+.
T Consensus        80 i~l~~~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~V  155 (380)
T KOG2908|consen   80 ILLVVSEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNV  155 (380)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhh
Confidence            4445555666777777777777554     35555443  344556677777777777777665     5566644

>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []

Probab=84.01  E-value=19  Score=28.47  Aligned_cols=58  Identities=19%  Similarity=0.056  Sum_probs=36.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcccC-------CccHHHHHHHHHHHhcCCchhHHHHHHHHH
Q 048799          226 HYGCLIDMLGRAGRLEQAEKVASGIPSE-------ITNVVVWRTLLGACSFHGNVEMGERVTRKI  283 (331)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  283 (331)
                      ....+...|...|++++|.++|+.+...       .+...+...+..++...|+.+....+.-++
T Consensus       180 l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~~~leL  244 (247)
T PF11817_consen  180 LSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLTTSLEL  244 (247)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            3445667788888888888888877432       223445555666666777776665554433

Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=83.97  E-value=7.6  Score=27.17  Aligned_cols=71  Identities=13%  Similarity=-0.025  Sum_probs=35.7

Q ss_pred             CchHHHHHHHHHHhhcC---chhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc
Q 048799           82 PSEITILAVFPAIWQNG---DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN  152 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  152 (331)
                      ++..+-..+.-++.++.   +..+.+.+++.+.+...+........-|.-++.+.+++++++++.+.+.+..|+
T Consensus        30 ~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~  103 (149)
T KOG3364|consen   30 VSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPN  103 (149)
T ss_pred             chHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCC
Confidence            44444444555555444   344455566666552211112222234555666666777777666666555443

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=83.52  E-value=7.5  Score=29.34  Aligned_cols=32  Identities=22%  Similarity=0.153  Sum_probs=14.3

Q ss_pred             CCcHhhHHHHHHHHHhcCCHHHHHHHHhhccc
Q 048799          221 LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPS  252 (331)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  252 (331)
                      .|+..+|..++.++...|+.++|.++..++..
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34444444444444444444444444444433

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=83.26  E-value=22  Score=28.53  Aligned_cols=18  Identities=22%  Similarity=0.113  Sum_probs=9.6

Q ss_pred             HHHHHcCCHHHHHHHHhh
Q 048799           25 TGLVKWGELEYARSLFEE   42 (331)
Q Consensus        25 ~~~~~~g~~~~A~~~~~~   42 (331)
                      +.+.-..|+..|++.-++
T Consensus        43 d~LvV~rdF~aal~tCer   60 (309)
T PF07163_consen   43 DLLVVHRDFQAALETCER   60 (309)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            334445666666555544

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

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=83.17  E-value=17  Score=27.09  Aligned_cols=38  Identities=13%  Similarity=0.280  Sum_probs=22.9

Q ss_pred             HHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHh
Q 048799          264 LGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILA  302 (331)
Q Consensus       264 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  302 (331)
                      +..|.+.|.+++|.+++++..+ +|++...-..|.....
T Consensus       118 V~VCm~~g~Fk~A~eiLkr~~~-d~~~~~~r~kL~~II~  155 (200)
T cd00280         118 VAVCMENGEFKKAEEVLKRLFS-DPESQKLRMKLLMIIR  155 (200)
T ss_pred             HHHHHhcCchHHHHHHHHHHhc-CCCchhHHHHHHHHHH
Confidence            3457777788888877777776 5555444333333333

Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.

>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=83.16  E-value=10  Score=25.50  Aligned_cols=26  Identities=12%  Similarity=0.437  Sum_probs=17.5

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          156 WTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       156 ~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      |..++..|...|.+++|++++.++..
T Consensus        42 ~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen   42 YQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             HHHHHHHHHccCccHHHHHHHHHHhc
Confidence            56666666677777777777766654

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.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=82.54  E-value=38  Score=30.70  Aligned_cols=273  Identities=10%  Similarity=-0.023  Sum_probs=153.0

Q ss_pred             HHHHHHHHhhCCC-CCchhHHHHHHH-----HHhcCChhHHHHHHHHHHhc------cCCCCchHHHHHHHHHHhhcC--
Q 048799           33 LEYARSLFEEMPC-RNVVSWTGIIDG-----YTRMNRSNGALALFRRMVAC------EYTEPSEITILAVFPAIWQNG--   98 (331)
Q Consensus        33 ~~~A~~~~~~~~~-~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~--   98 (331)
                      ...|..+++...+ .++..-..+..+     +....+.+.|+..|+.+...      .+   ++.....+..+|.+..  
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCC
Confidence            4567777777653 334333333332     34567899999999888331      23   3334555666665533  


Q ss_pred             ---chhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhc---CCHhHHHHHHHHhhhcCCcHHHHHHHHH-H--HHccCCh
Q 048799           99 ---DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKC---GCIFSALKLFEDISVERKNLVSWTSIIS-G--FAMHGMG  169 (331)
Q Consensus        99 ---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~~~~~~~~~l~~-~--~~~~~~~  169 (331)
                         +...|..++.+.-+.|..  +...  .+..++...   .+...|..+|..+....-....|..-+. .  ..-..+.
T Consensus       305 ~~~d~~~A~~~~~~aA~~g~~--~a~~--~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~  380 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKAAELGNP--DAQY--LLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNL  380 (552)
T ss_pred             ccccHHHHHHHHHHHHhcCCc--hHHH--HHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCH
Confidence               667799999999888765  3333  344444433   3578999999988655433333332221 1  1234578


Q ss_pred             HHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHH-HHH---Hh----cCCHH
Q 048799          170 KEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLI-DML---GR----AGRLE  241 (331)
Q Consensus       170 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~-~~~---~~----~g~~~  241 (331)
                      +.|..++++.-+.|........ ..+..+.. +..+.+.-.+..+.+. +... ..+-...+ ...   ..    ..+.+
T Consensus       381 ~~A~~~~k~aA~~g~~~A~~~~-~~~~~~g~-~~~~~~~~~~~~~a~~-g~~~-~q~~a~~l~~~~~~~~~~~~~~~~~~  456 (552)
T KOG1550|consen  381 ELAFAYYKKAAEKGNPSAAYLL-GAFYEYGV-GRYDTALALYLYLAEL-GYEV-AQSNAAYLLDQSEEDLFSRGVISTLE  456 (552)
T ss_pred             HHHHHHHHHHHHccChhhHHHH-HHHHHHcc-ccccHHHHHHHHHHHh-hhhH-HhhHHHHHHHhccccccccccccchh
Confidence            9999999999888732223332 33334444 7777777666666554 4332 22211111 111   11    12445


Q ss_pred             HHHHHHhhcccCCccHHHHHHHHHHHhc----CCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhh-c--cCcchHHHH
Q 048799          242 QAEKVASGIPSEITNVVVWRTLLGACSF----HGNVEMGERVTRKILEMERGYGGDYVLMYNILAGV-W--RYGDAERLR  314 (331)
Q Consensus       242 ~A~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g--~~~~a~~~~  314 (331)
                      .+...+...... -+......+...|..    ..+++.|...+..+....   ......++.++..- |  .+..|.+++
T Consensus       457 ~~~~~~~~a~~~-g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~~  532 (552)
T KOG1550|consen  457 RAFSLYSRAAAQ-GNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRYY  532 (552)
T ss_pred             HHHHHHHHHHhc-cCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHHH
Confidence            555555555443 344555555555433    235788888888877644   34455555554332 1  145677777


Q ss_pred             HHHhhc
Q 048799          315 RVVDER  320 (331)
Q Consensus       315 ~~~~~~  320 (331)
                      +...+.
T Consensus       533 ~~~~~~  538 (552)
T KOG1550|consen  533 DQASEE  538 (552)
T ss_pred             HHHHhc
Confidence            666553

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=81.58  E-value=27  Score=28.35  Aligned_cols=190  Identities=11%  Similarity=-0.051  Sum_probs=106.4

Q ss_pred             HHcCCHHHHHHHHhhCCC-CCchhHHHHHHHHHh----cCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhh----cC
Q 048799           28 VKWGELEYARSLFEEMPC-RNVVSWTGIIDGYTR----MNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQ----NG   98 (331)
Q Consensus        28 ~~~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~   98 (331)
                      ...+++..+...+..... .+......+...|..    ..+..+|...|+.+ ...|.   ......+...+..    ..
T Consensus        52 ~~~~~~~~a~~~~~~a~~~~~~~a~~~l~~~y~~g~gv~~~~~~A~~~~~~~-a~~g~---~~a~~~lg~~~~~G~gv~~  127 (292)
T COG0790          52 AYPPDYAKALKSYEKAAELGDAAALALLGQMYGAGKGVSRDKTKAADWYRCA-AADGL---AEALFNLGLMYANGRGVPL  127 (292)
T ss_pred             cccccHHHHHHHHHHhhhcCChHHHHHHHHHHHhccCccccHHHHHHHHHHH-hhccc---HHHHHhHHHHHhcCCCccc
Confidence            345666667777766653 223334444444432    34567788888766 44433   2233334444433    44


Q ss_pred             chhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhc-----C--CHhHHHHHHHHhhhcCCcHHHHHHHHHHHHc----cC
Q 048799           99 DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKC-----G--CIFSALKLFEDISVERKNLVSWTSIISGFAM----HG  167 (331)
Q Consensus        99 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g--~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~----~~  167 (331)
                      +..+|...+.++.+.|..+ .......+...|..-     -  +...|...|.++-... +......+...|..    ..
T Consensus       128 d~~~A~~~~~~Aa~~g~~~-a~~~~~~l~~~~~~g~~~~~~~~~~~~A~~~~~~aa~~~-~~~a~~~lg~~y~~G~Gv~~  205 (292)
T COG0790         128 DLVKALKYYEKAAKLGNVE-AALAMYRLGLAYLSGLQALAVAYDDKKALYLYRKAAELG-NPDAQLLLGRMYEKGLGVPR  205 (292)
T ss_pred             CHHHHHHHHHHHHHcCChh-HHHHHHHHHHHHHcChhhhcccHHHHhHHHHHHHHHHhc-CHHHHHHHHHHHHcCCCCCc
Confidence            7888888888888887654 222244454444443     1  2336888887775443 34444444444432    34


Q ss_pred             ChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccC---------------ChHHHHHHHHHHHHhcCCCCcHhhHH
Q 048799          168 MGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGG---------------LVEEGLKFFDKMVEECEVLPDIKHYG  228 (331)
Q Consensus       168 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~---------------~~~~a~~~~~~~~~~~~~~~~~~~~~  228 (331)
                      +.++|...|.+..+.|. + ...| .+. .+...|               +...|...+...... +.........
T Consensus       206 d~~~A~~wy~~Aa~~g~-~-~a~~-~~~-~~~~~g~g~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~  276 (292)
T COG0790         206 DLKKAFRWYKKAAEQGD-G-AACY-NLG-LMYLNGEGVKKAAFLTAAKEEDKKQALEWLQKACEL-GFDNACEALR  276 (292)
T ss_pred             CHHHHHHHHHHHHHCCC-H-HHHH-HHH-HHHhcCCCchhhhhcccccCCCHHHHHHHHHHHHHc-CChhHHHHHH
Confidence            78888888888877765 2 2222 222 333333               777888888888776 6555555554

>KOG4279 consensus Serine/threonine protein kinase [Signal transduction mechanisms]

Probab=81.18  E-value=41  Score=31.22  Aligned_cols=46  Identities=15%  Similarity=0.249  Sum_probs=28.2

Q ss_pred             HHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          234 LGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      +.+.|.++.-..+|+-.        +   ...+-.-.+++.+|.+..+.|.++.|..
T Consensus       354 lgrKG~leklq~YWdV~--------~---y~~asVLAnd~~kaiqAae~mfKLk~P~  399 (1226)
T KOG4279|consen  354 LGRKGALEKLQEYWDVA--------T---YFEASVLANDYQKAIQAAEMMFKLKPPV  399 (1226)
T ss_pred             hhccchHHHHHHHHhHH--------H---hhhhhhhccCHHHHHHHHHHHhccCCce
Confidence            44555555555544332        1   2334445678888888888888877754

>KOG0551 consensus Hsp90 co-chaperone CNS1 (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=80.89  E-value=6.5  Score=32.14  Aligned_cols=95  Identities=7%  Similarity=-0.086  Sum_probs=40.5

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC--cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHH
Q 048799          190 TFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP--DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGA  266 (331)
Q Consensus       190 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~  266 (331)
                      +|.-=.+-|.+.+++..|...|.+-++.-.-.|  +...|+.-.-+-.-.|++..|+.-...+....| +...|..=..+
T Consensus        83 n~KeeGN~~fK~Kryk~A~~~Yt~Glk~kc~D~dlnavLY~NRAAa~~~l~NyRs~l~Dcs~al~~~P~h~Ka~~R~Akc  162 (390)
T KOG0551|consen   83 NYKEEGNEYFKEKRYKDAVESYTEGLKKKCADPDLNAVLYTNRAAAQLYLGNYRSALNDCSAALKLKPTHLKAYIRGAKC  162 (390)
T ss_pred             HHHHHhHHHHHhhhHHHHHHHHHHHHhhcCCCccHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhHH
Confidence            344444445555555555555555444311122  223343333333344555555444444444322 22333333334


Q ss_pred             HhcCCchhHHHHHHHHHH
Q 048799          267 CSFHGNVEMGERVTRKIL  284 (331)
Q Consensus       267 ~~~~g~~~~a~~~~~~~~  284 (331)
                      +....++..|....++..
T Consensus       163 ~~eLe~~~~a~nw~ee~~  180 (390)
T KOG0551|consen  163 LLELERFAEAVNWCEEGL  180 (390)
T ss_pred             HHHHHHHHHHHHHHhhhh
Confidence            444444444444444443

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=80.71  E-value=6.8  Score=29.57  Aligned_cols=46  Identities=11%  Similarity=0.024  Sum_probs=38.8

Q ss_pred             HHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhc
Q 048799          243 AEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMER  288 (331)
Q Consensus       243 A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  288 (331)
                      ..+..++.....|++.+|..++.++...|+.++|.+..+++...-|
T Consensus       130 ~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~lyP  175 (193)
T PF11846_consen  130 YIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARRLYP  175 (193)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            3444455555579999999999999999999999999999998888

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=80.51  E-value=18  Score=28.42  Aligned_cols=96  Identities=13%  Similarity=-0.009  Sum_probs=65.6

Q ss_pred             HHHHHHHccCChHHHHHHHHHHHh------ccCCCCHH-----------HHHHHHHHHhccCChHHHHHHHHHHHHhcCC
Q 048799          158 SIISGFAMHGMGKEAVENFERMQK------VVLKPNRV-----------TFLSVLNACSHGGLVEEGLKFFDKMVEECEV  220 (331)
Q Consensus       158 ~l~~~~~~~~~~~~a~~~~~~m~~------~~~~p~~~-----------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  220 (331)
                      .-.+-+.+.|++++|..-|++.+.      ..-+|...           .+...-.++...|++-++++.-.++...  .
T Consensus       183 q~GN~lfk~~~ykEA~~~YreAi~~l~~L~lkEkP~e~eW~eLdk~~tpLllNy~QC~L~~~e~yevleh~seiL~~--~  260 (329)
T KOG0545|consen  183 QEGNRLFKLGRYKEASSKYREAIICLRNLQLKEKPGEPEWLELDKMITPLLLNYCQCLLKKEEYYEVLEHCSEILRH--H  260 (329)
T ss_pred             HhhhhhhhhccHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHhhhHHHHhHHHHHhhHHHHHHHHHHHHHHHhc--C
Confidence            334557788999999999987642      11233221           2333445566778888888888888764  3


Q ss_pred             CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc
Q 048799          221 LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT  255 (331)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  255 (331)
                      +.+...|-.-..+....=+..+|..-|....+..|
T Consensus       261 ~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~ldp  295 (329)
T KOG0545|consen  261 PGNVKAYFRRAKAHAAVWNEAEAKADLQKVLELDP  295 (329)
T ss_pred             CchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhcCh
Confidence            44777777777777777788888888888877634

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]

Probab=80.21  E-value=50  Score=30.61  Aligned_cols=254  Identities=14%  Similarity=0.029  Sum_probs=0.0

Q ss_pred             hcCChhHHHHHHHHHHhccCCCCchH----HHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCC
Q 048799           60 RMNRSNGALALFRRMVACEYTEPSEI----TILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGC  135 (331)
Q Consensus        60 ~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  135 (331)
                      ..|+..+|.+++.--+-..+.+-...    .+.++.-.++..|+-  ..+++...++..-.+ ....-.+|.-++...|-
T Consensus       369 H~G~~~~~~~ll~pYLP~~~~~~s~y~EGGalyAlGLIhA~hG~~--~~~yL~~~Lk~~~~e-~v~hG~cLGlGLa~mGS  445 (929)
T KOG2062|consen  369 HRGHENQAMKLLAPYLPKEAGEGSGYKEGGALYALGLIHANHGRG--ITDYLLQQLKTAENE-VVRHGACLGLGLAGMGS  445 (929)
T ss_pred             eccccchHHHHhhhhCCccCCCCCCccccchhhhhhccccCcCcc--HHHHHHHHHHhccch-hhhhhhhhhccchhccc


Q ss_pred             HhHHHHHHHHhhhc--CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHH---HHHHHHhccCChHHHHHH
Q 048799          136 IFSALKLFEDISVE--RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFL---SVLNACSHGGLVEEGLKF  210 (331)
Q Consensus       136 ~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~---~l~~~~~~~~~~~~a~~~  210 (331)
                      -+  .++|+.++..  ..+..+-.+-.-+.....--..-.+.+++|...-......-..   .+.-++.--|+.++|..+
T Consensus       446 a~--~eiYe~lKevLy~D~AvsGEAAgi~MGl~mlGt~~~eaiedm~~Ya~ETQHeki~RGl~vGiaL~~ygrqe~Ad~l  523 (929)
T KOG2062|consen  446 AN--EEIYEKLKEVLYNDSAVSGEAAGIAMGLLMLGTANQEAIEDMLTYAQETQHEKIIRGLAVGIALVVYGRQEDADPL  523 (929)
T ss_pred             cc--HHHHHHHHHHHhccchhhhhHHHHhhhhHhhCcCcHHHHHHHHHHhhhhhHHHHHHHHHHhHHHHHhhhhhhhHHH


Q ss_pred             HHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH-hhc
Q 048799          211 FDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILE-MER  288 (331)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~  288 (331)
                      ..+|...........-.-.+.-+|+-.|+.....+++.-+... ..|+.-+..+.-++.-..+++....+..-+.+ .+|
T Consensus       524 I~el~~dkdpilR~~Gm~t~alAy~GTgnnkair~lLh~aVsD~nDDVrRaAVialGFVl~~dp~~~~s~V~lLses~N~  603 (929)
T KOG2062|consen  524 IKELLRDKDPILRYGGMYTLALAYVGTGNNKAIRRLLHVAVSDVNDDVRRAAVIALGFVLFRDPEQLPSTVSLLSESYNP  603 (929)
T ss_pred             HHHHhcCCchhhhhhhHHHHHHHHhccCchhhHHHhhcccccccchHHHHHHHHHheeeEecChhhchHHHHHHhhhcCh


Q ss_pred             -CCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          289 -GYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       289 -~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                       -...+-..|+.+|...|. .+|..+++-|..
T Consensus       604 HVRyGaA~ALGIaCAGtG~-~eAi~lLepl~~  634 (929)
T KOG2062|consen  604 HVRYGAAMALGIACAGTGL-KEAINLLEPLTS  634 (929)
T ss_pred             hhhhhHHHHHhhhhcCCCc-HHHHHHHhhhhc

---

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	331
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-05
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	5e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 55.2 bits (131), Expect = 1e-08
 Identities = 23/170 (13%), Positives = 52/170 (30%), Gaps = 6/170 (3%)

Query: 82  PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCI---FS 138
           P E  +  +         +   Q   G   +   +     +             +     
Sbjct: 90  PWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRL-LAFFKCCLLTDQLPLAHH 148

Query: 139 ALKLFEDISVERK--NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLN 196
            L +      +RK   L  + +++ G+A  G  KE V     ++   L P+ +++ + L 
Sbjct: 149 LLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ 208

Query: 197 ACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKV 246
                      ++   + + +  +         L+    RA  L+   KV
Sbjct: 209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV 258

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 43.7 bits (101), Expect = 7e-05
 Identities = 14/123 (11%), Positives = 38/123 (30%), Gaps = 6/123 (4%)

Query: 16  NLVTWNVMITGLVKWGELEYARSLFEEMPCR----NVVSWTGIIDGYTRMNRSNGALA-L 70
            L  +N ++ G  + G  +    +   +       +++S+   +    R ++  G +   
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223

Query: 71  FRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTY 130
             +M          +    +     +   ++    +             ++ S  L D Y
Sbjct: 224 LEQMSQEGLKLQ-ALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVY 282

Query: 131 AKC 133
           AK 
Sbjct: 283 AKD 285

>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* Length = 148

 Score = 39.1 bits (91), Expect = 5e-04
 Identities = 14/127 (11%), Positives = 33/127 (25%), Gaps = 10/127 (7%)

Query: 129 TYAKCGCIFSALKLFED-ISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP- 186
              + G    A  +F+    ++  +   +  + +     G    A+ ++      V+   
Sbjct: 30  NQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYG--AVMDIX 87

Query: 187 NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKV 246
                          G + E         E     P+            R   + +A K+
Sbjct: 88  EPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEFXEL------STRVSSMLEAIKL 141

Query: 247 ASGIPSE 253
              +  E
Sbjct: 142 KKEMKHE 148

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	331
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	100.0
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	99.96
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.94
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.93
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.92
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.92
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.92
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.91
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.9
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.9
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.89
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.89
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.88
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.88
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.86
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.86
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.85
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.85
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.84
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.83
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.83
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.83
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.83
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.82
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.82
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.82
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.81
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.81
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.81
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.8
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.8
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.8
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.8
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.79
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.79
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.79
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.78
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.78
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.78
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.78
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.78
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.78
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.77
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.77
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.77
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.76
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.76
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.75
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.75
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.74
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.73
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.72
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.72
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.72
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.72
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.71
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.7
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.7
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.69
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.69
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.67
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.67
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.66
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.66
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.63
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.63
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.63
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.61
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.61
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.6
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.58
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.57
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.54
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.53
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.53
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.52
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.51
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.48
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.45
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.42
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.41
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.41
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.41
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.39
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.38
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.38
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.38
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.38
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.38
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.33
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.33
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.32
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.32
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.32
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.32
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.32
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.31
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.31
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.3
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.3
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.28
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.27
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.27
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.26
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.24
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.24
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.23
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.21
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.18
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.17
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.17
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.16
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.15
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.15
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.14
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.13
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.12
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.12
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.12
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.11
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.11
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.08
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.08
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.07
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.06
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.06
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.05
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.04
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.03
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.02
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.02
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	99.0
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.0
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.98
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.98
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.98
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.98
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.97
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.96
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.96
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.96
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.96
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.96
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.96
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.95
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.94
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.93
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.93
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.93
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.92
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.91
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.91
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.91
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.89
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.89
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.89
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.89
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.83
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.82
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.82
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.82
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.8
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.79
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.78
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.75
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.75
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.75
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.74
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.74
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.74
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.71
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.71
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.7
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.7
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.69
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.69
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.68
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.65
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.65
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.63
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.62
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.6
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.55
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.5
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.46
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.42
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.36
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.33
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.31
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.28
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.28
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.27
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.24
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.17
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.15
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.14
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.08
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	98.07
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	98.02
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.96
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.93
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.9
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.87
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.8
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.75
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.7
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.63
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.63
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.6
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.54
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.46
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.45
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.36
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.25
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	97.2
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.14
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.09
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.05
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.77
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	96.64
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.59
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.57
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.55
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.39
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	96.26
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	96.24
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.15
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	96.1
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.05
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.01
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.9
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.83
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.81
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.76
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.66
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.59
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.52
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.24
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.02
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	94.93
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.93
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	93.65
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.32
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	93.18
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	93.11
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.7
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.83
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	91.04
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	90.58
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.51
2p58_C	116	Putative type III secretion protein YSCG; type III	89.19
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	89.16
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	88.26
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	88.09
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	88.08
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	87.33
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	86.65
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	84.93
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	84.78
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	83.49
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	82.71
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	82.36
3bqo_A	211	Telomeric repeat-binding factor 1; TRF1 TRFH domai	81.58
4gq2_M	950	Nucleoporin NUP120; beta propeller alpha helical,	81.35

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.9e-33  Score=248.04  Aligned_cols=311  Identities=11%  Similarity=-0.037  Sum_probs=261.0

Q ss_pred             ccchhHHhhhcC--CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCC-------------------CchhHHHHHHHHHh
Q 048799            2 LKDGSKLFDELP--ERNLVTWNVMITGLVKWGELEYARSLFEEMPCR-------------------NVVSWTGIIDGYTR   60 (331)
Q Consensus         2 ~~~A~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~l~~~~~~   60 (331)
                      +++|+++|+.+.  +++..+++.++.+|.+.|++++|..+|+++...                   +..+|+.++.+|.+
T Consensus       133 ~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  212 (597)
T 2xpi_A          133 YARAKCLLTKEDLYNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTN  212 (597)
T ss_dssp             HHHHHHHHHHTCGGGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHH
Confidence            567788888774  667888888888888888888888888854322                   36788888888888


Q ss_pred             cCChhHHHHHHHHHHhccCCCCchHHH--------------------------------------HHHHHHHhhcCchhH
Q 048799           61 MNRSNGALALFRRMVACEYTEPSEITI--------------------------------------LAVFPAIWQNGDVRN  102 (331)
Q Consensus        61 ~~~~~~a~~~~~~~~~~~~~~~~~~~~--------------------------------------~~l~~~~~~~~~~~~  102 (331)
                      .|++++|+++|+++.....  .+...+                                      +.++..|.+.|++++
T Consensus       213 ~g~~~~A~~~~~~~~~~~p--~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  290 (597)
T 2xpi_A          213 LSNFDRAKECYKEALMVDA--KCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRR  290 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCc--hhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHH
Confidence            8888888888888854322  122222                                      223556667788888


Q ss_pred             HHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          103 CQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       103 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      |.++|+++.+.  ++ +..+++.++.+|.+.|++++|..+|+++....| +..+++.++.++.+.|++++|.++++++..
T Consensus       291 A~~~~~~~~~~--~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  367 (597)
T 2xpi_A          291 AEDYLSSINGL--EK-SSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVD  367 (597)
T ss_dssp             HHHHHHTSTTG--GG-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcC--Cc-hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence            88888888776  23 888999999999999999999999999987655 678899999999999999999999999985


Q ss_pred             ccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHH
Q 048799          182 VVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVW  260 (331)
Q Consensus       182 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~  260 (331)
                      . .+.+..++..++..|.+.|++++|.++|+++.+.  .+.+..+|+.++.+|.+.|++++|.++|+++... +.+..+|
T Consensus       368 ~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  444 (597)
T 2xpi_A          368 R-HPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTM--DPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPY  444 (597)
T ss_dssp             H-CTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHH
T ss_pred             h-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHH
Confidence            4 3457889999999999999999999999999874  2346889999999999999999999999999877 4578999


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          261 RTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       261 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      ..++.+|.+.|++++|.++|+++.+..|+++.+|..++.++.+.|++++|.++++++.+.
T Consensus       445 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  504 (597)
T 2xpi_A          445 LFLGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLL  504 (597)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999899999999999999999999999999876

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.2e-33  Score=250.64  Aligned_cols=315  Identities=8%  Similarity=-0.067  Sum_probs=241.8

Q ss_pred             ccchhHHhhhcC--CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 048799            2 LKDGSKLFDELP--ERNLVTWNVMITGLVKWGELEYARSLFEEMP--CRNVVSWTGIIDGYTRMNRSNGALALFRRMVAC   77 (331)
Q Consensus         2 ~~~A~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   77 (331)
                      +++|+++|+++.  .|+..++..++.+|.+.|++++|..+|+.+.  .++..+++.++.+|.+.|++++|.++|+++...
T Consensus       100 ~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  179 (597)
T 2xpi_A          100 YKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFCLVKLYDWQGALNLLGETNPF  179 (597)
T ss_dssp             HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTT
T ss_pred             chHHHHHHHHHHhhCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHHHHHHhhHHHHHHHHhccCCc
Confidence            456677777665  4666677777777777777777777777773  456677777777777777777777777743121


Q ss_pred             c--------------CCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHH-----------------
Q 048799           78 E--------------YTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL-----------------  126 (331)
Q Consensus        78 ~--------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-----------------  126 (331)
                      .              +.+++..+|+.++.+|.+.|++++|.++|+++.+.++.  +...+..+                 
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~~~~~~~~~~~  257 (597)
T 2xpi_A          180 RKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK--CYEAFDQLVSNHLLTADEEWDLVLK  257 (597)
T ss_dssp             C----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHTTCSCHHHHHHHHHH
T ss_pred             cccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch--hhHHHHHHHHhhcccchhHHHHHHh
Confidence            1              22335667777777777777777777777777776543  23332222                 


Q ss_pred             ---------------------HHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCC
Q 048799          127 ---------------------IDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLK  185 (331)
Q Consensus       127 ---------------------~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  185 (331)
                                           +..|.+.|++++|.++|+++...+++..+|+.++.+|.+.|++++|+++|+++.+.+ +
T Consensus       258 l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~  336 (597)
T 2xpi_A          258 LNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-P  336 (597)
T ss_dssp             SCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             cCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-c
Confidence                                 344556677777777777776655678888888888888999999999998888754 2


Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHH
Q 048799          186 PNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLL  264 (331)
Q Consensus       186 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~  264 (331)
                      .+..++..++.++.+.|++++|..+++++.+.  .+.+..++..++..|.+.|++++|.++|+++... +.+..+|..++
T Consensus       337 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~  414 (597)
T 2xpi_A          337 YNLDVYPLHLASLHESGEKNKLYLISNDLVDR--HPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFA  414 (597)
T ss_dssp             TCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            36677888888888899999999999888764  3557888999999999999999999999998766 34678999999


Q ss_pred             HHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          265 GACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      .+|.+.|++++|.++|+++.+..|++...+..++.+|.+.|++++|.++++++.+..
T Consensus       415 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  471 (597)
T 2xpi_A          415 HSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF  471 (597)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999999999999889888899999999999999999999999987754

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=1.7e-32  Score=235.06  Aligned_cols=185  Identities=10%  Similarity=0.004  Sum_probs=156.2

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCc---------hhHHHHHHhhhhhcCCCcch
Q 048799           49 VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGD---------VRNCQLIHGYGEKRGFNAFH  119 (331)
Q Consensus        49 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~  119 (331)
                      ..++.+|++|++.|++++|+++|++| ...|+.||..||++++.+|++.+.         ++.|.++|++|.+.|+.| |
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M-~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~P-d  104 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEA-RRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVP-N  104 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHH-HHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCC-C
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCC-C
Confidence            35777888888888888888888888 667888888888888888876543         577888888888888888 8


Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHhhhc--CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDISVE--RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                      ..+|++|+.+|++.|++++|.++|++|...  .|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.||.+
T Consensus       105 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~  184 (501)
T 4g26_A          105 EATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKV  184 (501)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Confidence            888888888888888888888888888766  578888888888888888888888888888888888888888888888


Q ss_pred             HhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHh
Q 048799          198 CSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGR  236 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  236 (331)
                      |++.|+.++|.+++++|.+. +..|+..||+.++..|+.
T Consensus       185 ~~~~g~~d~A~~ll~~Mr~~-g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          185 SMDTKNADKVYKTLQRLRDL-VRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH-TSSBCHHHHHHHHHHHHS
T ss_pred             HhhCCCHHHHHHHHHHHHHh-CCCcCHHHHHHHHHHHhc
Confidence            88888888888888888887 888888888888887765

>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=7e-32  Score=231.23  Aligned_cols=202  Identities=13%  Similarity=0.122  Sum_probs=176.2

Q ss_pred             HHHHHHHHHHhccCCCCch-HHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCC---------
Q 048799           66 GALALFRRMVACEYTEPSE-ITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGC---------  135 (331)
Q Consensus        66 ~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---------  135 (331)
                      .+..+.+++ +..+..+.+ ..++.++.+|++.|++++|.++|++|.+.|+.| |..+|++|+.+|++.+.         
T Consensus         8 ~~e~L~~~~-~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~p-d~~tyn~Li~~c~~~~~~~~~~~~~~   85 (501)
T 4g26_A            8 PSENLSRKA-KKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQL-SQYHYNVLLYVCSLAEAATESSPNPG   85 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCC-CHHHHHHHHHHHTTCCCCSSSSCCHH
T ss_pred             hHHHHHHHH-HHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHHhCCchhhhhhcch
Confidence            344555666 555554444 468889999999999999999999999999999 99999999999987765         


Q ss_pred             HhHHHHHHHHhhhc--CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 048799          136 IFSALKLFEDISVE--RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDK  213 (331)
Q Consensus       136 ~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  213 (331)
                      +++|.++|++|...  .||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|+.++|.++|++
T Consensus        86 l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~  165 (501)
T 4g26_A           86 LSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAH  165 (501)
T ss_dssp             HHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHH
Confidence            68899999999877  6899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC--CccHHHHHHHHHHHhcC
Q 048799          214 MVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE--ITNVVVWRTLLGACSFH  270 (331)
Q Consensus       214 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~  270 (331)
                      |.+. |+.||..+|+.|+.+|++.|++++|.+++++|.+.  .|+..||+.++..|...
T Consensus       166 M~~~-G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          166 MVES-EVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHT-TCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHhc-CCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9998 99999999999999999999999999999999877  89999999999988753

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=100.00  E-value=1.1e-29  Score=213.43  Aligned_cols=298  Identities=13%  Similarity=0.063  Sum_probs=204.7

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CC-CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHH
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMP--CR-NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFP   92 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~   92 (331)
                      +..+|..+..++.+.|++++|+..|+++.  .| +..+|..+..++.+.|++++|.+.|++++...  +.+...+..+..
T Consensus        66 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~  143 (388)
T 1w3b_A           66 LAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN--PDLYCVRSDLGN  143 (388)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--TTCTHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHH
Confidence            45556666666666666666666666554  23 23356666666666666666666666653321  123344555556


Q ss_pred             HHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHH
Q 048799           93 AIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKE  171 (331)
Q Consensus        93 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  171 (331)
                      .+...|++++|.+.|+++++..+.  +..++..++.++...|++++|...|+++....| +...|..+...+...|++++
T Consensus       144 ~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~  221 (388)
T 1w3b_A          144 LLKALGRLEEAKACYLKAIETQPN--FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDR  221 (388)
T ss_dssp             HHHTTSCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHH
Confidence            666666666666666666665332  455666666666666666666666666665544 35566666666667777777


Q ss_pred             HHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcc
Q 048799          172 AVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIP  251 (331)
Q Consensus       172 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  251 (331)
                      |+..|++..... +.+..++..+..++...|++++|...|+++.+.  .+.+..++..++..+.+.|++++|.+.|+++.
T Consensus       222 A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  298 (388)
T 1w3b_A          222 AVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTAL  298 (388)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            777776666532 224667777888888888888888888888764  23356778888888888888888888888877


Q ss_pred             cC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          252 SE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       252 ~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      .. +.+..++..++..+...|++++|.+.++++.+..|++...+..++.++.+.|++++|...++++.+.
T Consensus       299 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          299 RLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             hhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            66 4567788888888888888888888888888888888788888888888888888888888888764

>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=6.9e-29  Score=208.54  Aligned_cols=313  Identities=12%  Similarity=0.035  Sum_probs=275.9

Q ss_pred             CccchhHHhhhcC--Cc-hHHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHH
Q 048799            1 FLKDGSKLFDELP--ER-NLVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus         1 ~~~~A~~~~~~~~--~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      ++++|++.|+.+.  .| +...+..+...+.+.|++++|...++...   ..+..+|..+...+.+.|++++|+..|+++
T Consensus        14 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a   93 (388)
T 1w3b_A           14 DFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHA   93 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            4678888888765  34 56677788899999999999999998765   346678999999999999999999999999


Q ss_pred             HhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cH
Q 048799           75 VACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NL  153 (331)
Q Consensus        75 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~  153 (331)
                      ....  +.+..++..+..++...|++++|...++++.+..+.  +..++..+...+...|++++|...|+++....| +.
T Consensus        94 l~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~  169 (388)
T 1w3b_A           94 LRLK--PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD--LYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFA  169 (388)
T ss_dssp             HHHC--TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT--CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHcC--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCH
Confidence            5432  345668999999999999999999999999988654  677888999999999999999999999988766 57


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHH
Q 048799          154 VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDM  233 (331)
Q Consensus       154 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  233 (331)
                      .+|..+...+...|++++|+..|+++.+.+ +.+...+..+...+...|++++|...++++.+.  .+.+..++..++..
T Consensus       170 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~  246 (388)
T 1w3b_A          170 VAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHAVVHGNLACV  246 (388)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCCHHHHHHHHHH
Confidence            899999999999999999999999998854 235678889999999999999999999999875  23367889999999


Q ss_pred             HHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHH
Q 048799          234 LGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAER  312 (331)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  312 (331)
                      +.+.|++++|.+.|+++....| ++.+|..++.++.+.|++++|.+.++++.+..|+++..+..++.++...|++++|..
T Consensus       247 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~  326 (388)
T 1w3b_A          247 YYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVR  326 (388)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999999988744 578999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhc
Q 048799          313 LRRVVDER  320 (331)
Q Consensus       313 ~~~~~~~~  320 (331)
                      .++++.+.
T Consensus       327 ~~~~al~~  334 (388)
T 1w3b_A          327 LYRKALEV  334 (388)
T ss_dssp             HHHHHTTS
T ss_pred             HHHHHHhc
Confidence            99998774

>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=6.9e-27  Score=200.09  Aligned_cols=308  Identities=14%  Similarity=0.051  Sum_probs=260.6

Q ss_pred             HHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCC
Q 048799            7 KLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYT   80 (331)
Q Consensus         7 ~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   80 (331)
                      ..|.+..   +.+..++..++..+.+.|++++|+.+|+++.   ..+..+|..+..++...|++++|+..|++++...  
T Consensus        13 ~~~~~~~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--   90 (450)
T 2y4t_A           13 LGTENLYFQSMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK--   90 (450)
T ss_dssp             ----------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--
T ss_pred             ccccccccccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--
Confidence            3444443   3467889999999999999999999999876   3467889999999999999999999999995432  


Q ss_pred             CCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchh---HHHHHH------------HHHHHhcCCHhHHHHHHHH
Q 048799           81 EPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHI---HVSNCL------------IDTYAKCGCIFSALKLFED  145 (331)
Q Consensus        81 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~g~~~~A~~~~~~  145 (331)
                      +.+..++..+..++...|++++|...|+++.+..+.  +.   ..+..+            +..+...|++++|...|++
T Consensus        91 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~  168 (450)
T 2y4t_A           91 MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPS--ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDK  168 (450)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC--ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            356778999999999999999999999999987654  45   555555            4558999999999999999


Q ss_pred             hhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcH
Q 048799          146 ISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDI  224 (331)
Q Consensus       146 ~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  224 (331)
                      +....| +..++..++.+|.+.|++++|++.|+++.+.. +.+..++..+...+...|++++|...|+++.+.  .+.+.
T Consensus       169 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~  245 (450)
T 2y4t_A          169 ILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHK  245 (450)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChH
Confidence            987765 67889999999999999999999999998754 356788999999999999999999999999865  22344


Q ss_pred             hhHHHH------------HHHHHhcCCHHHHHHHHhhcccCCcc-----HHHHHHHHHHHhcCCchhHHHHHHHHHHHhh
Q 048799          225 KHYGCL------------IDMLGRAGRLEQAEKVASGIPSEITN-----VVVWRTLLGACSFHGNVEMGERVTRKILEME  287 (331)
Q Consensus       225 ~~~~~l------------~~~~~~~g~~~~A~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  287 (331)
                      ..+..+            +..+...|++++|...|+++....|+     ...+..++.++.+.|++++|...++++.+..
T Consensus       246 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  325 (450)
T 2y4t_A          246 RCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME  325 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            455444            78899999999999999999877454     4578889999999999999999999999999


Q ss_pred             cCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          288 RGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       288 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      |+++..+..++.++...|++++|...++++.+..
T Consensus       326 p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  359 (450)
T 2y4t_A          326 PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHN  359 (450)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS
T ss_pred             cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            9998999999999999999999999999998743

>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=4.1e-26  Score=195.30  Aligned_cols=291  Identities=10%  Similarity=0.034  Sum_probs=247.4

Q ss_pred             CccchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHH
Q 048799            1 FLKDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus         1 ~~~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      ++++|+++|+++.   +.+..+|..++.++...|++++|...|+++.   ..+..++..+..+|...|++++|...|+++
T Consensus        41 ~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  120 (450)
T 2y4t_A           41 QLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKV  120 (450)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3578899999875   4578899999999999999999999999986   235678999999999999999999999999


Q ss_pred             HhccCCCCch---HHHHHH------------HHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHH
Q 048799           75 VACEYTEPSE---ITILAV------------FPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSA  139 (331)
Q Consensus        75 ~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  139 (331)
                      ....  +.+.   ..+..+            ...+...|++++|...++++.+..+.  +..++..++.+|.+.|++++|
T Consensus       121 ~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A  196 (450)
T 2y4t_A          121 LKSN--PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVW--DAELRELRAECFIKEGEPRKA  196 (450)
T ss_dssp             HTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCGGGG
T ss_pred             HhcC--CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHHCCCHHHH
Confidence            4422  2233   455444            44588999999999999999987554  788899999999999999999


Q ss_pred             HHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCC-HHHHHHH------------HHHHhccCChH
Q 048799          140 LKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN-RVTFLSV------------LNACSHGGLVE  205 (331)
Q Consensus       140 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l------------~~~~~~~~~~~  205 (331)
                      ...|+++....| +..+|..++..|...|++++|+..|+++....  |+ ...+..+            ...+...|+++
T Consensus       197 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  274 (450)
T 2y4t_A          197 ISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYT  274 (450)
T ss_dssp             HHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHH
Confidence            999999987754 68899999999999999999999999998743  43 3444444            78899999999


Q ss_pred             HHHHHHHHHHHhcCCCCc-----HhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHH
Q 048799          206 EGLKFFDKMVEECEVLPD-----IKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERV  279 (331)
Q Consensus       206 ~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~  279 (331)
                      +|...|+++.+.   .|+     ...+..++..+.+.|++++|...++++... +.+...|..++.+|...|++++|...
T Consensus       275 ~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~  351 (450)
T 2y4t_A          275 DATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQD  351 (450)
T ss_dssp             HHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHH
Confidence            999999999875   343     457888999999999999999999998776 44689999999999999999999999


Q ss_pred             HHHHHHhhcCCCccHHHHHHH
Q 048799          280 TRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       280 ~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      ++++.+..|+++..+..+..+
T Consensus       352 ~~~al~~~p~~~~~~~~l~~~  372 (450)
T 2y4t_A          352 YETAQEHNENDQQIREGLEKA  372 (450)
T ss_dssp             HHHHHTTSSSCHHHHHHHHHH
T ss_pred             HHHHHHhCcchHHHHHHHHHH
Confidence            999999999998888888743

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.95  E-value=4e-24  Score=177.22  Aligned_cols=301  Identities=14%  Similarity=0.049  Sum_probs=252.7

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHH
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFP   92 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~   92 (331)
                      |+..+..+...+...|++++|+..|+++.   ..+..++..+...+...|++++|...|+++....  +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK--MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCcchHHHHHHH
Confidence            56778889999999999999999999876   2456789999999999999999999999985432  346678899999


Q ss_pred             HHhhcCchhHHHHHHhhhhhcCCCc-chhHHHHHH------------HHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHH
Q 048799           93 AIWQNGDVRNCQLIHGYGEKRGFNA-FHIHVSNCL------------IDTYAKCGCIFSALKLFEDISVERK-NLVSWTS  158 (331)
Q Consensus        93 ~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l------------~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~  158 (331)
                      ++...|++++|...++++.+..+.. .+...+..+            +..+...|++++|...|+++....| +...+..
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  159 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELREL  159 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHH
Confidence            9999999999999999999886510 255555555            6889999999999999999987755 6788899


Q ss_pred             HHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHH----------
Q 048799          159 IISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYG----------  228 (331)
Q Consensus       159 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------  228 (331)
                      +...+...|++++|+..++++.... +.+..++..+...+...|++++|...++++.+. . +.+...+.          
T Consensus       160 ~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~-~-~~~~~~~~~~~~~~~~~~  236 (359)
T 3ieg_A          160 RAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKL-D-QDHKRCFAHYKQVKKLNK  236 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-C-ccchHHHHHHHHHHHHHH
Confidence            9999999999999999999998753 346788889999999999999999999999875 2 22333332          


Q ss_pred             --HHHHHHHhcCCHHHHHHHHhhcccCCcc-H----HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHH
Q 048799          229 --CLIDMLGRAGRLEQAEKVASGIPSEITN-V----VVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL  301 (331)
Q Consensus       229 --~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  301 (331)
                        .++..+.+.|++++|...++++....|+ .    ..+..+..++...|++++|...++++.+..|+++..+..++.++
T Consensus       237 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  316 (359)
T 3ieg_A          237 LIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAY  316 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence              3366789999999999999998876343 2    33556788899999999999999999999999989999999999


Q ss_pred             hhhccCcchHHHHHHHhhcc
Q 048799          302 AGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       302 ~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ...|++++|...+++..+..
T Consensus       317 ~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          317 LIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC
T ss_pred             HHcCCHHHHHHHHHHHHhcC
Confidence            99999999999999988754

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.95  E-value=5e-25  Score=191.60  Aligned_cols=318  Identities=11%  Similarity=-0.041  Sum_probs=256.6

Q ss_pred             CccchhHHhhhcC--CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CC-CchhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048799            1 FLKDGSKLFDELP--ERNLVTWNVMITGLVKWGELEYARSLFEEMP--CR-NVVSWTGIIDGYTRMNRSNGALALFRRMV   75 (331)
Q Consensus         1 ~~~~A~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   75 (331)
                      ++++|++.|+++.  .|+..+|..+..++.+.|++++|...|+++.  .| +..+|..+..++...|++++|...|+++.
T Consensus        21 ~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  100 (514)
T 2gw1_A           21 KYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDLSVLS  100 (514)
T ss_dssp             CHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3578899999886  5899999999999999999999999999876  33 55789999999999999999999999885


Q ss_pred             hccCCC--------------------------------------------------------------------------
Q 048799           76 ACEYTE--------------------------------------------------------------------------   81 (331)
Q Consensus        76 ~~~~~~--------------------------------------------------------------------------   81 (331)
                      ...+..                                                                          
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  180 (514)
T 2gw1_A          101 LNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANY  180 (514)
T ss_dssp             HSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSC
T ss_pred             hcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHh
Confidence            433210                                                                          


Q ss_pred             ---CchHHHHHHHHHHh---hcCchhHHHHHHhhhhh-----cCCC-------cchhHHHHHHHHHHHhcCCHhHHHHHH
Q 048799           82 ---PSEITILAVFPAIW---QNGDVRNCQLIHGYGEK-----RGFN-------AFHIHVSNCLIDTYAKCGCIFSALKLF  143 (331)
Q Consensus        82 ---~~~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~-----~~~~-------~~~~~~~~~l~~~~~~~g~~~~A~~~~  143 (331)
                         .+...+......+.   +.|++++|...++++.+     ....       |.+..++..++..+...|++++|...|
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  260 (514)
T 2gw1_A          181 DESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDI  260 (514)
T ss_dssp             CSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence               01223333333333   38999999999999888     3111       325678888899999999999999999


Q ss_pred             HHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc
Q 048799          144 EDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD  223 (331)
Q Consensus       144 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  223 (331)
                      +++....|+..++..+...+...|++++|+..++++.... +.+...+..+...+...|++++|...++++.+.  .+.+
T Consensus       261 ~~~l~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~  337 (514)
T 2gw1_A          261 KKAIELFPRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKEL--DPEN  337 (514)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHT--CSSC
T ss_pred             HHHHhhCccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--Chhh
Confidence            9998776667778888899999999999999999987753 335667888888899999999999999998864  2336


Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc------cHHH
Q 048799          224 IKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG------DYVL  296 (331)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~  296 (331)
                      ...+..++..+...|++++|...++.+... +.+...+..+...+...|++++|...++++.+..|+++.      .+..
T Consensus       338 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  417 (514)
T 2gw1_A          338 IFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVG  417 (514)
T ss_dssp             SHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHH
Confidence            678888888899999999999999988776 335678888889999999999999999999988887755      7888


Q ss_pred             HHHHHhh---hccCcchHHHHHHHhhcc
Q 048799          297 MYNILAG---VWRYGDAERLRRVVDERN  321 (331)
Q Consensus       297 l~~~~~~---~g~~~~a~~~~~~~~~~~  321 (331)
                      ++.++..   .|++++|...++.+.+..
T Consensus       418 l~~~~~~~~~~~~~~~A~~~~~~a~~~~  445 (514)
T 2gw1_A          418 KATLLTRNPTVENFIEATNLLEKASKLD  445 (514)
T ss_dssp             HHHHHHTSCCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhhhhcCCHHHHHHHHHHHHHhC
Confidence            9999998   899999999998887643

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=7.2e-24  Score=184.29  Aligned_cols=301  Identities=10%  Similarity=-0.055  Sum_probs=258.7

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHH
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMP--CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPA   93 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~   93 (331)
                      ....+......+.+.|++++|+..|+++.  .|+..+|..+..++...|++++|+..+++++...  +.+..++..+..+
T Consensus         5 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~   82 (514)
T 2gw1_A            5 YALALKDKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK--PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC--hHHHHHHHHHHHH
Confidence            45678888999999999999999999987  5888999999999999999999999999995532  3566789999999


Q ss_pred             HhhcCchhHHHHHHhhhhhcCCCc--------------------------------------------------------
Q 048799           94 IWQNGDVRNCQLIHGYGEKRGFNA--------------------------------------------------------  117 (331)
Q Consensus        94 ~~~~~~~~~a~~~~~~~~~~~~~~--------------------------------------------------------  117 (331)
                      +...|++++|...|+++.+.++..                                                        
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVT  162 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHH
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhH
Confidence            999999999999999987765411                                                        


Q ss_pred             ---------------------chhHHHHHHHHHHHh---cCCHhHHHHHHHHhhh-----c----------CCcHHHHHH
Q 048799          118 ---------------------FHIHVSNCLIDTYAK---CGCIFSALKLFEDISV-----E----------RKNLVSWTS  158 (331)
Q Consensus       118 ---------------------~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~-----~----------~~~~~~~~~  158 (331)
                                           .+...+..+...+..   .|++++|...|+++..     .          +.+..++..
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (514)
T 2gw1_A          163 SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEH  242 (514)
T ss_dssp             HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHH
Confidence                                 123444444444554   8999999999999987     3          224567888


Q ss_pred             HHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC
Q 048799          159 IISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG  238 (331)
Q Consensus       159 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  238 (331)
                      +...+...|++++|+..|+++....  |+...+..+...+...|++++|...++++.+.  .+.+...+..+...+...|
T Consensus       243 ~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~  318 (514)
T 2gw1_A          243 TGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKL--DSNNSSVYYHRGQMNFILQ  318 (514)
T ss_dssp             HHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTT--CTTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhc--CcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999998865  44888889999999999999999999999864  3446788999999999999


Q ss_pred             CHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHH
Q 048799          239 RLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVV  317 (331)
Q Consensus       239 ~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  317 (331)
                      ++++|...++++... +.+...+..+...+...|++++|...++++.+..|+++..+..++.++...|++++|...++++
T Consensus       319 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  398 (514)
T 2gw1_A          319 NYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLA  398 (514)
T ss_dssp             CTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999999999999877 3457889999999999999999999999999999999999999999999999999999999998


Q ss_pred             hhccc
Q 048799          318 DERNA  322 (331)
Q Consensus       318 ~~~~~  322 (331)
                      .+...
T Consensus       399 ~~~~~  403 (514)
T 2gw1_A          399 IELEN  403 (514)
T ss_dssp             HHHHH
T ss_pred             HHhhh
Confidence            87654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.94  E-value=1.9e-23  Score=173.17  Aligned_cols=297  Identities=9%  Similarity=0.008  Sum_probs=247.1

Q ss_pred             CccchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CC-CchhHHHHHHHHHhcCChhHHHHHHHHH
Q 048799            1 FLKDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMP--CR-NVVSWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus         1 ~~~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      ++++|++.|+++.   +.+..++..+...+...|++++|...|+++.  .| +...|..+...+...|++++|...|+++
T Consensus        18 ~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~   97 (359)
T 3ieg_A           18 QLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKV   97 (359)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            3578889998875   4467899999999999999999999999876  33 5678999999999999999999999999


Q ss_pred             HhccCCCC----chHHHHHH------------HHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhH
Q 048799           75 VACEYTEP----SEITILAV------------FPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFS  138 (331)
Q Consensus        75 ~~~~~~~~----~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  138 (331)
                      ..   ..|    +...+..+            ...+...|++++|...++++.+..+.  +..++..+..++...|++++
T Consensus        98 ~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~  172 (359)
T 3ieg_A           98 LK---SNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVW--DAELRELRAECFIKEGEPRK  172 (359)
T ss_dssp             HT---SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHH
T ss_pred             Hh---cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC--chHHHHHHHHHHHHCCCHHH
Confidence            44   234    34444444            57888999999999999999988654  77889999999999999999


Q ss_pred             HHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHH------------HHHHHHhccCChH
Q 048799          139 ALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFL------------SVLNACSHGGLVE  205 (331)
Q Consensus       139 A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~------------~l~~~~~~~~~~~  205 (331)
                      |...++++....| +..++..+...+...|++++|...|++..+... .+...+.            .+...+...|+++
T Consensus       173 A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  251 (359)
T 3ieg_A          173 AISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYT  251 (359)
T ss_dssp             HHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHH
Confidence            9999999988765 678899999999999999999999999987532 2233222            2366788999999


Q ss_pred             HHHHHHHHHHHhcCCCCcH----hhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHH
Q 048799          206 EGLKFFDKMVEECEVLPDI----KHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVT  280 (331)
Q Consensus       206 ~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~  280 (331)
                      +|...++++.+. . +.+.    ..+..+...+...|++++|...++++....| +...+..+..++...|++++|...+
T Consensus       252 ~A~~~~~~~~~~-~-~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~  329 (359)
T 3ieg_A          252 DATSKYESVMKT-E-PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDY  329 (359)
T ss_dssp             HHHHHHHHHHHH-C-CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhc-C-CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999876 2 2233    2355678899999999999999999987734 7889999999999999999999999


Q ss_pred             HHHHHhhcCCCccHHHHHHHHhhhc
Q 048799          281 RKILEMERGYGGDYVLMYNILAGVW  305 (331)
Q Consensus       281 ~~~~~~~~~~~~~~~~l~~~~~~~g  305 (331)
                      +++.+.+|++...+..+..+....+
T Consensus       330 ~~a~~~~p~~~~~~~~l~~~~~~~~  354 (359)
T 3ieg_A          330 EAAQEHNENDQQIREGLEKAQRLLK  354 (359)
T ss_dssp             HHHHTTCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCCCChHHHHHHHHHHHHHH
Confidence            9999999998888877777765544

>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=99.93  E-value=1.9e-23  Score=171.25  Aligned_cols=289  Identities=11%  Similarity=-0.022  Sum_probs=242.0

Q ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHH
Q 048799           15 RNLVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVF   91 (331)
Q Consensus        15 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~   91 (331)
                      .+...+..++..+...|++++|..+|+++.   ..+...+..++..+...|++++|...++++....  +.+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY--PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHH
Confidence            455667788888999999999999999876   2345677778888999999999999999985432  35677888899


Q ss_pred             HHHhhcC-chhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCCh
Q 048799           92 PAIWQNG-DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMG  169 (331)
Q Consensus        92 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~  169 (331)
                      ..+...| ++++|...++++.+..+.  +...+..++.++...|++++|...|+++....| +...+..+...+...|++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKT--YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTT--CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCc--cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhH
Confidence            9999999 999999999999987644  677888999999999999999999999987755 467788888999999999


Q ss_pred             HHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcC-------CCCcHhhHHHHHHHHHhcCCHHH
Q 048799          170 KEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECE-------VLPDIKHYGCLIDMLGRAGRLEQ  242 (331)
Q Consensus       170 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~  242 (331)
                      ++|+..++++.+.. +.+...+..+...+...|++++|...++++.+...       .+.....+..+...+...|++++
T Consensus       176 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          176 KLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            99999999988753 34577888899999999999999999999887521       13346788899999999999999


Q ss_pred             HHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHH-hhhccCc
Q 048799          243 AEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL-AGVWRYG  308 (331)
Q Consensus       243 A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~  308 (331)
                      |...++++... +.+...+..+..++...|++++|.+.++++.+..|+++..+..++.++ ...|+.+
T Consensus       255 A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          255 ALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            99999998876 445788899999999999999999999999999999988888898888 4555543

>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=99.93  E-value=7.4e-24  Score=176.46  Aligned_cols=285  Identities=10%  Similarity=-0.079  Sum_probs=232.0

Q ss_pred             HHHHcCCHHHHHH-HHhhCCC-----C--CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhc
Q 048799           26 GLVKWGELEYARS-LFEEMPC-----R--NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQN   97 (331)
Q Consensus        26 ~~~~~g~~~~A~~-~~~~~~~-----~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   97 (331)
                      .+.-.|++++|.. .|++...     |  +...+..+...+...|++++|...|++++...  +.+..++..+..++...
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~  111 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGTTQAEN  111 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHC
Confidence            3455689999998 8886652     2  35678899999999999999999999995532  45677899999999999


Q ss_pred             CchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHH---------------HHH
Q 048799           98 GDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWTS---------------IIS  161 (331)
Q Consensus        98 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~---------------l~~  161 (331)
                      |++++|...++++++..+.  +..++..++.++...|++++|...|+++....|+ ...+..               .+.
T Consensus       112 g~~~~A~~~~~~al~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (368)
T 1fch_A          112 EQELLAISALRRCLELKPD--NQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILG  189 (368)
T ss_dssp             TCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTH
T ss_pred             cCHHHHHHHHHHHHhcCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHH
Confidence            9999999999999998654  7888999999999999999999999999877553 222221               233


Q ss_pred             HHHccCChHHHHHHHHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCH
Q 048799          162 GFAMHGMGKEAVENFERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL  240 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  240 (331)
                      .+...|++++|+..|+++....... +..++..+...+...|++++|...++++.+.  .+.+...+..++..+...|++
T Consensus       190 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~  267 (368)
T 1fch_A          190 SLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQS  267 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCH
Confidence            3448899999999999998854221 4788999999999999999999999999875  244678999999999999999


Q ss_pred             HHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC-----------CccHHHHHHHHhhhccCc
Q 048799          241 EQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY-----------GGDYVLMYNILAGVWRYG  308 (331)
Q Consensus       241 ~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~g~~~  308 (331)
                      ++|...++++... +.+...+..+..++...|++++|...++++.+..|++           ...+..++.++...|+++
T Consensus       268 ~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  347 (368)
T 1fch_A          268 EEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSD  347 (368)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGG
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChH
Confidence            9999999998876 4467899999999999999999999999999988877           678999999999999999


Q ss_pred             chHHHHHH
Q 048799          309 DAERLRRV  316 (331)
Q Consensus       309 ~a~~~~~~  316 (331)
                      +|..++++
T Consensus       348 ~A~~~~~~  355 (368)
T 1fch_A          348 AYGAADAR  355 (368)
T ss_dssp             GHHHHHTT
T ss_pred             hHHHhHHH
Confidence            99988764

>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=1.6e-23  Score=183.24  Aligned_cols=313  Identities=10%  Similarity=-0.007  Sum_probs=182.4

Q ss_pred             CccchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHH
Q 048799            1 FLKDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus         1 ~~~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      ++++|++.|+++.   +.+..+|..+..+|.+.|++++|+..|+++.   ..+..++..+..++...|++++|+..|+.+
T Consensus        40 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~  119 (537)
T 3fp2_A           40 NFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLSVL  119 (537)
T ss_dssp             CCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4678999999876   4578889999999999999999999999876   235678888889999999999998887533


Q ss_pred             HhccCC--------------------------------------------------------------------------
Q 048799           75 VACEYT--------------------------------------------------------------------------   80 (331)
Q Consensus        75 ~~~~~~--------------------------------------------------------------------------   80 (331)
                       ...+.                                                                          
T Consensus       120 -~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  198 (537)
T 3fp2_A          120 -SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSD  198 (537)
T ss_dssp             -C-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHH
T ss_pred             -hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHH
Confidence             21110                                                                          


Q ss_pred             ---------------------------------CCc--------hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcch
Q 048799           81 ---------------------------------EPS--------EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFH  119 (331)
Q Consensus        81 ---------------------------------~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  119 (331)
                                                       .|+        ..++..+...+...|++++|...++++.+..+   +
T Consensus       199 ~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~---~  275 (537)
T 3fp2_A          199 ALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLHP---T  275 (537)
T ss_dssp             HHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC---C
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC---C
Confidence                                             011        11233333444445555555555555555422   2


Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNAC  198 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  198 (331)
                      ..++..+...+...|++++|...|+++....| +..+|..+...+...|++++|+..|+++.... +.+...+..+...+
T Consensus       276 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  354 (537)
T 3fp2_A          276 PNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLL  354 (537)
T ss_dssp             HHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            34444555555555555555555555544433 34455555555555555666655555555432 11234455555555


Q ss_pred             hccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-------cHHHHHHHHHHHhcC-
Q 048799          199 SHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-------NVVVWRTLLGACSFH-  270 (331)
Q Consensus       199 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-------~~~~~~~l~~~~~~~-  270 (331)
                      ...|++++|...++++.+.  .+.+...+..+...+...|++++|.+.++++....|       ....+.....++... 
T Consensus       355 ~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~  432 (537)
T 3fp2_A          355 YKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQS  432 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHh
Confidence            5566666666666555543  122344555555556666666666666655544311       111223333444444 


Q ss_pred             ---------CchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          271 ---------GNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       271 ---------g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                               |++++|...++++.+..|+++..+..++.++...|++++|...+++..+.
T Consensus       433 ~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          433 SQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             TC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence                     66666666666666666666666666666666666666666666665553

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.92  E-value=2.3e-23  Score=173.40  Aligned_cols=264  Identities=8%  Similarity=-0.090  Sum_probs=222.2

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHH
Q 048799           47 NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL  126 (331)
Q Consensus        47 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  126 (331)
                      +...+..+...+.+.|++++|+..|++++...  +.+..++..+..++...|++++|...|+++++..+.  +..++..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~l  139 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD--PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPN--NLKALMAL  139 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--CHHHHHHH
Confidence            45668999999999999999999999995532  456789999999999999999999999999998644  78899999


Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhcCCc-HHH----------HHHHHHHHHccCChHHHHHHHHHHHhccCC-CCHHHHHHH
Q 048799          127 IDTYAKCGCIFSALKLFEDISVERKN-LVS----------WTSIISGFAMHGMGKEAVENFERMQKVVLK-PNRVTFLSV  194 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~----------~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~l  194 (331)
                      +.+|...|++++|...|+++....|+ ...          +..+...+...|++++|++.|+++...... ++..++..+
T Consensus       140 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  219 (365)
T 4eqf_A          140 AVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHH
T ss_pred             HHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHH
Confidence            99999999999999999999876553 222          334578899999999999999999886422 157889999


Q ss_pred             HHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCch
Q 048799          195 LNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNV  273 (331)
Q Consensus       195 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~  273 (331)
                      ...+...|++++|...++++.+.  .+.+..++..++.+|...|++++|...|+++....| +..++..+..+|...|++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            99999999999999999999875  344788999999999999999999999999987744 588999999999999999


Q ss_pred             hHHHHHHHHHHHhhcC------------CCccHHHHHHHHhhhccCcchHHHHHH
Q 048799          274 EMGERVTRKILEMERG------------YGGDYVLMYNILAGVWRYGDAERLRRV  316 (331)
Q Consensus       274 ~~a~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  316 (331)
                      ++|...++++.+..|+            +...+..+..++...|+.+.+.++.++
T Consensus       298 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          298 REAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999999998876            356788999999999999888776654

>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=99.92  E-value=1.8e-22  Score=165.45  Aligned_cols=269  Identities=9%  Similarity=-0.048  Sum_probs=234.5

Q ss_pred             CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHH
Q 048799           46 RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNC  125 (331)
Q Consensus        46 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  125 (331)
                      .+...+..++..+...|++++|+.+|+++....  +.+...+..++.++...|++++|...++++.+..+.  +..++..
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~   95 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD--PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPS--NPVSWFA   95 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT--STHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC--CHHHHHH
Confidence            466778888999999999999999999995543  344556667888889999999999999999998554  7788899


Q ss_pred             HHHHHHhcC-CHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCC
Q 048799          126 LIDTYAKCG-CIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGL  203 (331)
Q Consensus       126 l~~~~~~~g-~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~  203 (331)
                      +...+...| ++++|...|+++....| +..+|..+...+...|++++|+..|+++.+... .+...+..+...+...|+
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~  174 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNN  174 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhh
Confidence            999999999 99999999999988766 578899999999999999999999999987542 345667778999999999


Q ss_pred             hHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC----------CccHHHHHHHHHHHhcCCch
Q 048799          204 VEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE----------ITNVVVWRTLLGACSFHGNV  273 (331)
Q Consensus       204 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----------~p~~~~~~~l~~~~~~~g~~  273 (331)
                      +++|...++++.+.  .+.+...+..++..+...|++++|...++++...          +....++..+..++...|++
T Consensus       175 ~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  252 (330)
T 3hym_B          175 SKLAERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKY  252 (330)
T ss_dssp             HHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCH
Confidence            99999999999864  3447788999999999999999999999988764          22357899999999999999


Q ss_pred             hHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          274 EMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       274 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ++|...++++.+..|+++..+..++.++...|++++|...+++..+..
T Consensus       253 ~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  300 (330)
T 3hym_B          253 AEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR  300 (330)
T ss_dssp             HHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC
T ss_pred             HHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC
Confidence            999999999999999999999999999999999999999999887643

>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=99.92  E-value=2.3e-22  Score=175.90  Aligned_cols=300  Identities=10%  Similarity=-0.008  Sum_probs=244.7

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHH
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFP   92 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~   92 (331)
                      ....|..+...+.+.|++++|+..|+++.   ..++.+|..+..++.+.|++++|+..|++++...  +.+..++..+..
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~  101 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK--PDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHH
Confidence            45678889999999999999999999986   2467889999999999999999999999985532  356788999999


Q ss_pred             HHhhcCchhHHHHHHhhhhhcCCCcchhH---------------------------------------------------
Q 048799           93 AIWQNGDVRNCQLIHGYGEKRGFNAFHIH---------------------------------------------------  121 (331)
Q Consensus        93 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---------------------------------------------------  121 (331)
                      ++...|++++|...|+ .....+...+..                                                   
T Consensus       102 ~~~~~g~~~~A~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  180 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLS-VLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEV  180 (537)
T ss_dssp             HHHHHTCHHHHHHHHH-HHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHH
T ss_pred             HHHHcCCHHHHHHHHH-HHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHH
Confidence            9999999999999986 333222110100                                                   


Q ss_pred             ---------------HHHHHHHHHH--------hcCCHhHHHHHHHHhhhcCCc--------HHHHHHHHHHHHccCChH
Q 048799          122 ---------------VSNCLIDTYA--------KCGCIFSALKLFEDISVERKN--------LVSWTSIISGFAMHGMGK  170 (331)
Q Consensus       122 ---------------~~~~l~~~~~--------~~g~~~~A~~~~~~~~~~~~~--------~~~~~~l~~~~~~~~~~~  170 (331)
                                     ....+...+.        ..|++++|..+|+++....|+        ..++..+...+...|+++
T Consensus       181 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~  260 (537)
T 3fp2_A          181 SSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLL  260 (537)
T ss_dssp             HTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHH
Confidence                           1112221111        125789999999999877664        235677778889999999


Q ss_pred             HHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhc
Q 048799          171 EAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGI  250 (331)
Q Consensus       171 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (331)
                      +|+..|+++...  .|+...+..+...+...|++++|...++++.+.  .+.+..++..+...+...|++++|...++++
T Consensus       261 ~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  336 (537)
T 3fp2_A          261 DAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDL--NPEYPPTYYHRGQMYFILQDYKNAKEDFQKA  336 (537)
T ss_dssp             HHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhcc--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            999999999885  466888999999999999999999999999875  2446788999999999999999999999999


Q ss_pred             ccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          251 PSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       251 ~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      ....| +...+..+..++...|++++|...++++.+..|+++..+..++.++...|++++|...++++.+...
T Consensus       337 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~  409 (537)
T 3fp2_A          337 QSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEE  409 (537)
T ss_dssp             HHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC
Confidence            87733 5688999999999999999999999999999999999999999999999999999999999887654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.91  E-value=2.5e-21  Score=155.50  Aligned_cols=272  Identities=10%  Similarity=0.001  Sum_probs=219.6

Q ss_pred             HHHHHHcCCHHHHHHHHhhCCCCC--c--hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCc
Q 048799           24 ITGLVKWGELEYARSLFEEMPCRN--V--VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGD   99 (331)
Q Consensus        24 ~~~~~~~g~~~~A~~~~~~~~~~~--~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   99 (331)
                      +.-....|+++.|+..++.....+  .  .....+.++|...|+++.|+..++..     .+|+..++..+...+...++
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~-----~~~~~~a~~~la~~~~~~~~   80 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS-----SAPELQAVRMFAEYLASHSR   80 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT-----SCHHHHHHHHHHHHHHCSTT
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc-----CChhHHHHHHHHHHHcCCCc
Confidence            344567899999999998876433  2  34566788999999999999866542     45677888889999999999


Q ss_pred             hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHH
Q 048799          100 VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERM  179 (331)
Q Consensus       100 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  179 (331)
                      .++|++.++++...+..|.+..++..+..++...|++++|++.+++    +.+..++..++..+.+.|++++|.+.|+++
T Consensus        81 ~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~----~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  156 (291)
T 3mkr_A           81 RDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ----GDSLECMAMTVQILLKLDRLDLARKELKKM  156 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT----CCSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999999988775565778888899999999999999999987    457788999999999999999999999999


Q ss_pred             HhccCCCCHHHH---HHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-Cc
Q 048799          180 QKVVLKPNRVTF---LSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-IT  255 (331)
Q Consensus       180 ~~~~~~p~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p  255 (331)
                      .+..  |+....   ..++..+...|++++|..+|+++.+.  .+.+...++.+..++.+.|++++|...++++... +.
T Consensus       157 ~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~  232 (291)
T 3mkr_A          157 QDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSG  232 (291)
T ss_dssp             HHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            8864  553211   22334445669999999999999985  4568889999999999999999999999998877 44


Q ss_pred             cHHHHHHHHHHHhcCCchhH-HHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHH
Q 048799          256 NVVVWRTLLGACSFHGNVEM-GERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAER  312 (331)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  312 (331)
                      ++.++..++..+...|+.++ +.++++++.+.+|+++.+    .....+.+.++++..
T Consensus       233 ~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~----~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          233 HPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFI----KEYRAKENDFDRLVL  286 (291)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHH----HHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHH----HHHHHHHHHHHHHHH
Confidence            68899999999999999976 678999999999998543    334455555555443

>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=99.90  E-value=2.2e-22  Score=167.54  Aligned_cols=282  Identities=14%  Similarity=0.080  Sum_probs=209.8

Q ss_pred             cCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHH-HHHHHHhccCCCC--chHHHHHHHHHHhhcCchhHHHHH
Q 048799           30 WGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALA-LFRRMVACEYTEP--SEITILAVFPAIWQNGDVRNCQLI  106 (331)
Q Consensus        30 ~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~  106 (331)
                      .+.++.+...|+.+...+..       ++...|++++|++ .|++........|  +...+..+...+...|++++|...
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~   86 (368)
T 1fch_A           14 VDFWDKLQAELEEMAKRDAE-------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLL   86 (368)
T ss_dssp             ---------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHcCCch-------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHH
Confidence            34445555555555433322       2344588999998 8887633222222  345678899999999999999999


Q ss_pred             HhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCC
Q 048799          107 HGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLK  185 (331)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  185 (331)
                      ++++++..+.  +..++..++.++...|++++|...|+++....| +..++..+...+...|++++|+..++++....  
T Consensus        87 ~~~al~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--  162 (368)
T 1fch_A           87 FEAAVQQDPK--HMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYT--  162 (368)
T ss_dssp             HHHHHHSCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--
T ss_pred             HHHHHHhCCC--CHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--
Confidence            9999988654  788899999999999999999999999987765 67889999999999999999999999998754  


Q ss_pred             CCHH-HHHH---------------HHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhh
Q 048799          186 PNRV-TFLS---------------VLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASG  249 (331)
Q Consensus       186 p~~~-~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  249 (331)
                      |+.. .+..               .+..+...|++++|...++++.+.....++..++..++..+...|++++|...+++
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  242 (368)
T 1fch_A          163 PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTA  242 (368)
T ss_dssp             TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3221 1111               23334488999999999999987622112578899999999999999999999999


Q ss_pred             cccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          250 IPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       250 ~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      +... +.+...+..++.++...|++++|...++++.+..|+++..+..++.++.+.|++++|...+++..+...
T Consensus       243 al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  316 (368)
T 1fch_A          243 ALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQR  316 (368)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            8876 446789999999999999999999999999999999989999999999999999999999999887644

>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=99.90  E-value=1.4e-21  Score=159.86  Aligned_cols=266  Identities=11%  Similarity=-0.062  Sum_probs=215.4

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHH
Q 048799           47 NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL  126 (331)
Q Consensus        47 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  126 (331)
                      +...+..+...+...|++++|..+|+++....  +.+..++..+..++...|++++|...++++.+..+.  +..++..+
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~--~~~~~~~l   95 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK--DIAVHAAL   95 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcC--CHHHHHHH
Confidence            34456777788888888888888888874432  346677778888888888888888888888887543  67778888


Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHH--------------HH-HHHccCChHHHHHHHHHHHhccCCCCHHH
Q 048799          127 IDTYAKCGCIFSALKLFEDISVERKN-LVSWTSI--------------IS-GFAMHGMGKEAVENFERMQKVVLKPNRVT  190 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  190 (331)
                      +.++...|++++|...++++....|+ ...+..+              .. .+...|++++|++.++++.+.. +.+...
T Consensus        96 a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  174 (327)
T 3cv0_A           96 AVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQL  174 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHH
Confidence            88899999999999999888776553 3333333              22 3778889999999999998754 346788


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhc
Q 048799          191 FLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSF  269 (331)
Q Consensus       191 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~  269 (331)
                      +..+...+...|++++|...++++.+.  .+.+...+..++..+...|++++|.+.++++... +.+...+..+..++..
T Consensus       175 ~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~  252 (327)
T 3cv0_A          175 HASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSN  252 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            889999999999999999999999875  2346788999999999999999999999998776 4467889999999999


Q ss_pred             CCchhHHHHHHHHHHHhhcC------------CCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          270 HGNVEMGERVTRKILEMERG------------YGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       270 ~g~~~~a~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      .|++++|.+.++++.+..|+            ....+..++.++...|++++|..++++..+
T Consensus       253 ~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          253 MSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             hccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            99999999999999999888            667888999999999999999988865443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.89  E-value=2.1e-21  Score=161.60  Aligned_cols=236  Identities=11%  Similarity=0.001  Sum_probs=201.5

Q ss_pred             chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHH
Q 048799           83 SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIIS  161 (331)
Q Consensus        83 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~  161 (331)
                      +...+..+...+.+.|++++|...|+++++..+.  +..++..++.++...|++++|...|+++....| +..+|..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPG--DAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            4556888999999999999999999999998654  788999999999999999999999999988766 5789999999


Q ss_pred             HHHccCChHHHHHHHHHHHhccCCCCH-----------HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHH
Q 048799          162 GFAMHGMGKEAVENFERMQKVVLKPNR-----------VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCL  230 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-----------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  230 (331)
                      +|...|++++|+..|+++.+..  |+.           ..+..+...+...|++++|..+++++.+.....++..++..+
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            9999999999999999998743  332           233445788999999999999999999862221268899999


Q ss_pred             HHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcc
Q 048799          231 IDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGD  309 (331)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  309 (331)
                      +..|...|++++|.+.++++... +.+..+|..++.++...|++++|...++++.+..|+++..+..++.++...|++++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHH
Confidence            99999999999999999999877 44688999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhhccc
Q 048799          310 AERLRRVVDERNA  322 (331)
Q Consensus       310 a~~~~~~~~~~~~  322 (331)
                      |...+++..+...
T Consensus       300 A~~~~~~al~~~~  312 (365)
T 4eqf_A          300 AVSNFLTALSLQR  312 (365)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCc
Confidence            9999999987653

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.89  E-value=8.8e-21  Score=152.29  Aligned_cols=250  Identities=8%  Similarity=0.026  Sum_probs=207.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhccCCCCch--HHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh
Q 048799           55 IDGYTRMNRSNGALALFRRMVACEYTEPSE--ITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK  132 (331)
Q Consensus        55 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  132 (331)
                      ++.....|++..|+..+++. ..  ..|+.  .....+.+++...|+++.|+..++..    ..| +..++..+...+..
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~-~~--~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~-~~~a~~~la~~~~~   77 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRV-KP--SSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAP-ELQAVRMFAEYLAS   77 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHS-CC--CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCH-HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHhc-cc--CCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CCh-hHHHHHHHHHHHcC
Confidence            34566789999999999886 32  23443  35566789999999999999877652    233 78888999999999


Q ss_pred             cCCHhHHHHHHHHhhhc--CC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHH
Q 048799          133 CGCIFSALKLFEDISVE--RK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLK  209 (331)
Q Consensus       133 ~g~~~~A~~~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  209 (331)
                      .|+.++|++.++++...  .| +...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|.+
T Consensus        78 ~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~  151 (291)
T 3mkr_A           78 HSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARK  151 (291)
T ss_dssp             STTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999998754  35 566777888999999999999999987      4678889999999999999999999


Q ss_pred             HHHHHHHhcCCCCcHhhH---HHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          210 FFDKMVEECEVLPDIKHY---GCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      .++++.+.   .|+....   ..++..+...|++++|..+|+++... +.++..++.+..++.+.|++++|+..++++++
T Consensus       152 ~l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~  228 (291)
T 3mkr_A          152 ELKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALD  228 (291)
T ss_dssp             HHHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999876   3543211   22334445569999999999999887 55788999999999999999999999999999


Q ss_pred             hhcCCCccHHHHHHHHhhhccCcc-hHHHHHHHhhcc
Q 048799          286 MERGYGGDYVLMYNILAGVWRYGD-AERLRRVVDERN  321 (331)
Q Consensus       286 ~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~  321 (331)
                      .+|+++.++..++..+...|+.++ +.++++++.+..
T Consensus       229 ~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          229 KDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             hCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            999999999999999999999976 568888887644

>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=99.88  E-value=2.9e-22  Score=164.87  Aligned_cols=279  Identities=10%  Similarity=0.045  Sum_probs=137.6

Q ss_pred             CccchhHHhhhcCCchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCC
Q 048799            1 FLKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYT   80 (331)
Q Consensus         1 ~~~~A~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   80 (331)
                      ++++|.++++++.+|+  +|..|+.++.+.|++++|++.|.+.  +|..+|..++.++...|++++|+..++.. .+.  
T Consensus        18 ~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~a-rk~--   90 (449)
T 1b89_A           18 NLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMA-RKK--   90 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHH-HHh--
Confidence            3688999999996664  8999999999999999999999764  57779999999999999999999987766 332  


Q ss_pred             CCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHH
Q 048799           81 EPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSII  160 (331)
Q Consensus        81 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~  160 (331)
                      .+++.+.+.++.+|.+.|+++++.++++.       | +..+|..++..|...|++++|...|..+       ..|..++
T Consensus        91 ~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~-------p-n~~a~~~IGd~~~~~g~yeeA~~~Y~~a-------~n~~~LA  155 (449)
T 1b89_A           91 ARESYVETELIFALAKTNRLAELEEFING-------P-NNAHIQQVGDRCYDEKMYDAAKLLYNNV-------SNFGRLA  155 (449)
T ss_dssp             ------------------CHHHHTTTTTC-------C-----------------CTTTHHHHHHHT-------TCHHHHH
T ss_pred             CccchhHHHHHHHHHHhCCHHHHHHHHcC-------C-cHHHHHHHHHHHHHcCCHHHHHHHHHHh-------hhHHHHH
Confidence            35577888999999999999999888852       4 6679999999999999999999999987       4799999


Q ss_pred             HHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCH
Q 048799          161 SGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL  240 (331)
Q Consensus       161 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  240 (331)
                      .++.+.|++++|++.++++      .++.+|..++.+|...|+++.|......+    .  ..+.-...++..|.+.|++
T Consensus       156 ~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L----~--~~ad~l~~lv~~Yek~G~~  223 (449)
T 1b89_A          156 STLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI----V--VHADELEELINYYQDRGYF  223 (449)
T ss_dssp             HHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT----T--TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH----H--hCHhhHHHHHHHHHHCCCH
Confidence            9999999999999999987      37889999999999999999996554432    2  2333455688999999999


Q ss_pred             HHHHHHHhhcccC-CccHHHHHHHHHHHhcC--CchhHHHHHHHHHHHhhc-----CCCccHHHHHHHHhhhccCcchHH
Q 048799          241 EQAEKVASGIPSE-ITNVVVWRTLLGACSFH--GNVEMGERVTRKILEMER-----GYGGDYVLMYNILAGVWRYGDAER  312 (331)
Q Consensus       241 ~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~--g~~~~a~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~a~~  312 (331)
                      ++|..+++..... +-....|+-+..+|++-  ++..+.++.|..-....|     .....|..+...|.+.++++.|..
T Consensus       224 eEai~lLe~aL~le~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~  303 (449)
T 1b89_A          224 EELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  303 (449)
T ss_dssp             HHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHH
Confidence            9999999998877 44677888887777754  455555555554444555     677899999999999999998876


Q ss_pred             H
Q 048799          313 L  313 (331)
Q Consensus       313 ~  313 (331)
                      .
T Consensus       304 t  304 (449)
T 1b89_A          304 T  304 (449)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.88  E-value=1e-20  Score=154.65  Aligned_cols=267  Identities=9%  Similarity=-0.043  Sum_probs=223.6

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCC---CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHH
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMP---CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFP   92 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~   92 (331)
                      +...+..+...+...|++++|..+|+++.   ..+...+..+...+...|++++|...++++...  .+.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcCCHHHHHHHHH
Confidence            44567788899999999999999999876   246678889999999999999999999998553  2356778899999


Q ss_pred             HHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHH--------------HH-HHHhcCCHhHHHHHHHHhhhcCC-cHHHH
Q 048799           93 AIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL--------------ID-TYAKCGCIFSALKLFEDISVERK-NLVSW  156 (331)
Q Consensus        93 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~g~~~~A~~~~~~~~~~~~-~~~~~  156 (331)
                      ++...|++++|...++++.+..+.  +...+..+              .. .+...|++++|...++++....| +..++
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQ--YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT--TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCc--cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHH
Confidence            999999999999999999987554  33344333              33 47788999999999999987765 67889


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHh
Q 048799          157 TSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGR  236 (331)
Q Consensus       157 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  236 (331)
                      ..+...+...|++++|++.++++.+.. +.+..++..+...+...|++++|...++++.+.  .+.+...+..+...+..
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~  252 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDI--NPGYVRVMYNMAVSYSN  252 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHH
Confidence            999999999999999999999998753 345788899999999999999999999999875  23467889999999999


Q ss_pred             cCCHHHHHHHHhhcccCCc-------------cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          237 AGRLEQAEKVASGIPSEIT-------------NVVVWRTLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       237 ~g~~~~A~~~~~~~~~~~p-------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      .|++++|.+.++++....|             +...|..+..++...|++++|..+++++.+..|+
T Consensus       253 ~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~  318 (327)
T 3cv0_A          253 MSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEPFAK  318 (327)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcch
Confidence            9999999999999877633             4788999999999999999999999988775443

>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=99.86  E-value=3.2e-22  Score=164.62  Aligned_cols=252  Identities=12%  Similarity=0.057  Sum_probs=118.5

Q ss_pred             HHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHH
Q 048799           28 VKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIH  107 (331)
Q Consensus        28 ~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  107 (331)
                      -+.|++++|.++++++..|  .+|..|+.++.+.|++++|++.|.+.       +|..+|..++.++...|++++|+.++
T Consensus        14 ~~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika-------~D~~~y~~V~~~ae~~g~~EeAi~yl   84 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYL   84 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC-------CCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            4678899999999999655  48999999999999999999999764       67779999999999999999999998


Q ss_pred             hhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCC
Q 048799          108 GYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN  187 (331)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  187 (331)
                      +..++.  .+ ++.+.+.|+.+|.+.|+++++.++++     .|+..+|+.++..|...|++++|...|..+        
T Consensus        85 ~~ark~--~~-~~~i~~~Li~~Y~Klg~l~e~e~f~~-----~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a--------  148 (449)
T 1b89_A           85 QMARKK--AR-ESYVETELIFALAKTNRLAELEEFIN-----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV--------  148 (449)
T ss_dssp             ---------------------------CHHHHTTTTT-----CC----------------CTTTHHHHHHHT--------
T ss_pred             HHHHHh--Cc-cchhHHHHHHHHHHhCCHHHHHHHHc-----CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh--------
Confidence            888875  33 56778899999999999999998875     477789999999999999999999999977        


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHH
Q 048799          188 RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGAC  267 (331)
Q Consensus       188 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~  267 (331)
                       ..|..++.++.+.|++++|.+.+.++       .++.+|..++.+|...|+++.|......+..   ++.-...++..|
T Consensus       149 -~n~~~LA~~L~~Lg~yq~AVea~~KA-------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~---~ad~l~~lv~~Y  217 (449)
T 1b89_A          149 -SNFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACVDGKEFRLAQMCGLHIVV---HADELEELINYY  217 (449)
T ss_dssp             -TCHHHHHHHHHTTTCHHHHHHHHHHH-------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTTT---CHHHHHHHHHHH
T ss_pred             -hhHHHHHHHHHHhccHHHHHHHHHHc-------CCchhHHHHHHHHHHcCcHHHHHHHHHHHHh---CHhhHHHHHHHH
Confidence             35999999999999999999999987       2789999999999999999999888777653   333355689999


Q ss_pred             hcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHH
Q 048799          268 SFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRV  316 (331)
Q Consensus       268 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  316 (331)
                      .+.|++++|+.+++..+.+++.+...|..++.+|++. +.++..+.++.
T Consensus       218 ek~G~~eEai~lLe~aL~le~ah~~~ftel~il~~ky-~p~k~~ehl~~  265 (449)
T 1b89_A          218 QDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF-KPQKMREHLEL  265 (449)
T ss_dssp             HHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTT-CHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHhc-CHHHHHHHHHH
Confidence            9999999999999999998888888899999888865 33444444443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.86  E-value=3.3e-19  Score=153.40  Aligned_cols=309  Identities=11%  Similarity=-0.065  Sum_probs=210.0

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCC-------C---C-CchhHHHHHHHHHh--cCChhHHHHHHHHHHhccCCCC
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMP-------C---R-NVVSWTGIIDGYTR--MNRSNGALALFRRMVACEYTEP   82 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~---~-~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~   82 (331)
                      ...+|+.+..+|...|++++|...+++..       .   + ...++..+..++..  .+++++|+..|++.+...  |.
T Consensus        93 ~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~--p~  170 (472)
T 4g1t_A           93 SLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK--PK  170 (472)
T ss_dssp             THHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--TT
T ss_pred             HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--CC
Confidence            46789999999999999999999888753       1   1 23456666666554  457999999999986533  23


Q ss_pred             chHHHHHHHHH---HhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh----cCCHhHHHHHHHHhhhcCC-cHH
Q 048799           83 SEITILAVFPA---IWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK----CGCIFSALKLFEDISVERK-NLV  154 (331)
Q Consensus        83 ~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~-~~~  154 (331)
                      ++..+..+..+   +...++.++|++.++++++..+.  +..++..+...+..    .|++++|.+.+++.....| +..
T Consensus       171 ~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~--~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~  248 (472)
T 4g1t_A          171 NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD--NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTD  248 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS--CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHH
T ss_pred             CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc--chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHH
Confidence            34455555444   34567888999999999988654  66666666655554    4678899999999887765 577


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhcc-------------------CChHHHHHHHHHHH
Q 048799          155 SWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHG-------------------GLVEEGLKFFDKMV  215 (331)
Q Consensus       155 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~  215 (331)
                      ++..+...|...|++++|+..+++..+.. +-+..++..+..+|...                   +..+.|...+++..
T Consensus       249 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  327 (472)
T 4g1t_A          249 VLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKAD  327 (472)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHh
Confidence            89999999999999999999999998753 23456666666555322                   33567888888877


Q ss_pred             HhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHH----HHHHHHH-HHhcCCchhHHHHHHHHHHHh----
Q 048799          216 EECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVV----VWRTLLG-ACSFHGNVEMGERVTRKILEM----  286 (331)
Q Consensus       216 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~----~~~~l~~-~~~~~g~~~~a~~~~~~~~~~----  286 (331)
                      +.  .+.+...+..+...|...|++++|...|+++....|+..    .+..+.. .+...|++++|+..|++++++    
T Consensus       328 ~~--~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~  405 (472)
T 4g1t_A          328 EA--NDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKS  405 (472)
T ss_dssp             HH--CTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCC
T ss_pred             hc--CCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCccc
Confidence            64  234667888899999999999999999999876633322    2333333 345788999999988887653    


Q ss_pred             --------------------hcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccccCCCCCCCC
Q 048799          287 --------------------ERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNALKFPGRSLV  331 (331)
Q Consensus       287 --------------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~sw~  331 (331)
                                          +|+++.++..++.+|...|++++|++.+++..+.+.......+|+
T Consensus       406 ~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          406 REKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-----------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence                                577788999999999999999999999999999887777778875

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.85  E-value=1.7e-19  Score=142.31  Aligned_cols=226  Identities=8%  Similarity=-0.020  Sum_probs=154.6

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCc--ch---hHHH
Q 048799           49 VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNA--FH---IHVS  123 (331)
Q Consensus        49 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~---~~~~  123 (331)
                      ..|..+...+...|++++|+..|+++....   .+..++..+..++...|++++|...++++++..+..  ..   ..++
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            456677777777888888888887774433   566677777777777778888877777777653221  00   4667


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCC
Q 048799          124 NCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGL  203 (331)
Q Consensus       124 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~  203 (331)
                      ..++.++...|++++|...|+++....|+..       .+...|++++|+..++++.... +.+...+..+...+...|+
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEHRTAD-------ILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCHH-------HHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCchhH-------HHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcC
Confidence            7777777777777777777777776666532       3445566777777777776532 1234556667777777777


Q ss_pred             hHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHH
Q 048799          204 VEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRK  282 (331)
Q Consensus       204 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (331)
                      +++|...++++.+.  .+.+...+..+...+...|++++|...++++... +.+...|..+..++...|++++|...+++
T Consensus       155 ~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  232 (258)
T 3uq3_A          155 WPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDA  232 (258)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            77777777777664  2335666777777777777777777777777655 33466677777777777777777777777


Q ss_pred             HHHhh
Q 048799          283 ILEME  287 (331)
Q Consensus       283 ~~~~~  287 (331)
                      +.+..
T Consensus       233 a~~~~  237 (258)
T 3uq3_A          233 ARTKD  237 (258)
T ss_dssp             HHHHH
T ss_pred             HHHhC
Confidence            77766

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.85  E-value=2.6e-19  Score=141.21  Aligned_cols=224  Identities=10%  Similarity=-0.036  Sum_probs=156.4

Q ss_pred             hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc--------HHH
Q 048799           84 EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN--------LVS  155 (331)
Q Consensus        84 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--------~~~  155 (331)
                      ...+..+...+...|++++|...++++++..  . +..++..++.++...|++++|...|+++....|+        ..+
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~-~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--K-DITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--C-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--c-cHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            3456667777777777777777777777766  3 6667777777777777777777777777655332        466


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHH
Q 048799          156 WTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLG  235 (331)
Q Consensus       156 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  235 (331)
                      |..+...+...|++++|+..|+++...  .|+..       .+...|++++|...++++...  .+.+...+..+...+.
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~-------~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~  150 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTE--HRTAD-------ILTKLRNAEKELKKAEAEAYV--NPEKAEEARLEGKEYF  150 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHH-------HHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhc--CchhH-------HHHHHhHHHHHHHHHHHHHHc--CcchHHHHHHHHHHHH
Confidence            777777777777777777777777663  34432       344556677777777777653  2224566677777777


Q ss_pred             hcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHH
Q 048799          236 RAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLR  314 (331)
Q Consensus       236 ~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  314 (331)
                      ..|++++|...++++... +.+...+..+..++...|++++|...++++.+..|+++..+..++.++...|++++|...+
T Consensus       151 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          151 TKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            777777777777777665 3356677777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHhhcc
Q 048799          315 RVVDERN  321 (331)
Q Consensus       315 ~~~~~~~  321 (331)
                      ++..+..
T Consensus       231 ~~a~~~~  237 (258)
T 3uq3_A          231 DAARTKD  237 (258)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhC
Confidence            7766543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.84  E-value=2.8e-19  Score=142.59  Aligned_cols=246  Identities=9%  Similarity=-0.087  Sum_probs=197.1

Q ss_pred             HhcCChhHHHHHHHHHHhccCCC--CchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCH
Q 048799           59 TRMNRSNGALALFRRMVACEYTE--PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCI  136 (331)
Q Consensus        59 ~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  136 (331)
                      ...|++++|+..|+++.......  .+..++..+..++...|++++|...++++++..+.  +..++..++.++...|++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~--~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD--MPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHTTCH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC--cHHHHHHHHHHHHHccCH
Confidence            34588999999999985542211  24567888999999999999999999999988654  778899999999999999


Q ss_pred             hHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 048799          137 FSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMV  215 (331)
Q Consensus       137 ~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  215 (331)
                      ++|...|+++....| +..++..+...|...|++++|+..|+++.+..  |+.......+..+...|++++|...+++..
T Consensus        94 ~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           94 DAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            999999999988765 57889999999999999999999999998743  554444455555677799999999998888


Q ss_pred             HhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-----cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          216 EECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-----NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       216 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      ..  .+++...+ .++..+...++.++|...+..+....|     +...+..+..++...|++++|...++++.+.+|++
T Consensus       172 ~~--~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  248 (275)
T 1xnf_A          172 EK--SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN  248 (275)
T ss_dssp             HH--SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT
T ss_pred             hc--CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchh
Confidence            75  23444444 467778888999999999999887733     25788889999999999999999999999988866


Q ss_pred             CccHHHHHHHHhhhccCcchHHHH
Q 048799          291 GGDYVLMYNILAGVWRYGDAERLR  314 (331)
Q Consensus       291 ~~~~~~l~~~~~~~g~~~~a~~~~  314 (331)
                         +.....++...|++++|.+.+
T Consensus       249 ---~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 ---FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             ---CHHHHHHHHHHHHHHHC----
T ss_pred             ---HHHHHHHHHHHHHHHhhHHHH
Confidence               344467788889999988776

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.83  E-value=7.8e-19  Score=134.93  Aligned_cols=197  Identities=14%  Similarity=-0.042  Sum_probs=109.7

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                      +...+..+...+.+.|++++|...|+++....| +...+..+..++.+.|++++|+..|++..+.. +.+...+..+...
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~   82 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEA   82 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            334444444455555555555555555444433 34444444455555555555555555544422 1123344444444


Q ss_pred             Hhcc-----------CChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHH
Q 048799          198 CSHG-----------GLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGA  266 (331)
Q Consensus       198 ~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~  266 (331)
                      +...           |++++|...+++..+.  -+.+...+..+...+...|++++|...|+++.....++..+..+..+
T Consensus        83 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la~~  160 (217)
T 2pl2_A           83 YVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALAEL  160 (217)
T ss_dssp             HHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_pred             HHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHHHH
Confidence            4444           7777777777777654  12255666677777777777777777777765433456667777777


Q ss_pred             HhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHh
Q 048799          267 CSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVD  318 (331)
Q Consensus       267 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  318 (331)
                      +...|++++|...++++.+.+|+++..+..++.++...|++++|...+++..
T Consensus       161 ~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          161 YLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            7777888888888888877777777777777778888888888877776653

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.83  E-value=2.3e-18  Score=137.06  Aligned_cols=249  Identities=11%  Similarity=-0.084  Sum_probs=144.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcc-hhHHHHHHHHH
Q 048799           51 WTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAF-HIHVSNCLIDT  129 (331)
Q Consensus        51 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~  129 (331)
                      +......+...|++++|+..|++++...  +.+...+..+..++...|++++|+..++++++.+..+. ....+..++.+
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKK--YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTT--CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            3444555566666666666666653322  12233555555566666666666666666665322110 12235566666


Q ss_pred             HHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHH
Q 048799          130 YAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGL  208 (331)
Q Consensus       130 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  208 (331)
                      +...|++++|...|+++....| +..+|..+...|...|++++|+..|++..+. .+.+...+..+...+...+++++|.
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~  162 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP-TTTDPKVFYELGQAYYYNKEYVKAD  162 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS-SCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc-CCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666655544 3456666666666666666666666666553 1223444554552233344666777


Q ss_pred             HHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC---HHHHHHHHhhcccC---Ccc------HHHHHHHHHHHhcCCchhHH
Q 048799          209 KFFDKMVEECEVLPDIKHYGCLIDMLGRAGR---LEQAEKVASGIPSE---ITN------VVVWRTLLGACSFHGNVEMG  276 (331)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~---~p~------~~~~~~l~~~~~~~g~~~~a  276 (331)
                      ..|+++.+.  .+.+...+..+...+...|+   +++|...++++...   .|+      ...|..+...|...|++++|
T Consensus       163 ~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          163 SSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            766666654  12235555556666666665   55566655555443   122      25677788888889999999


Q ss_pred             HHHHHHHHHhhcCCCccHHHHHHHHhhh
Q 048799          277 ERVTRKILEMERGYGGDYVLMYNILAGV  304 (331)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~  304 (331)
                      .+.++++.+.+|+++.....+.......
T Consensus       241 ~~~~~~al~~~p~~~~a~~~l~~~~~~~  268 (272)
T 3u4t_A          241 DAAWKNILALDPTNKKAIDGLKMKLEHH  268 (272)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHC------
T ss_pred             HHHHHHHHhcCccHHHHHHHhhhhhccc
Confidence            9999999998898877666665554433

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.83  E-value=5.6e-17  Score=140.16  Aligned_cols=300  Identities=11%  Similarity=0.023  Sum_probs=139.5

Q ss_pred             cchhHHhhhcC-CchHHHHHHHHHHHHH----cCCHHHHHHHHhhCCC-CCchhHHHHHHHHHh----cCChhHHHHHHH
Q 048799            3 KDGSKLFDELP-ERNLVTWNVMITGLVK----WGELEYARSLFEEMPC-RNVVSWTGIIDGYTR----MNRSNGALALFR   72 (331)
Q Consensus         3 ~~A~~~~~~~~-~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~   72 (331)
                      ++|.+.|++.. ..+..++..|...|..    .+++++|..+|++..+ .++..+..|...|..    .+++++|+..|+
T Consensus        60 ~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~  139 (490)
T 2xm6_A           60 TQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFR  139 (490)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            34444444433 2244445555555555    5555555555555432 233444445555544    455555555555


Q ss_pred             HHHhccCCCCchHHHHHHHHHHhh----cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh----cCCHhHHHHHHH
Q 048799           73 RMVACEYTEPSEITILAVFPAIWQ----NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK----CGCIFSALKLFE  144 (331)
Q Consensus        73 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~  144 (331)
                      +... .+   +...+..+...|..    .++.++|.+.|++..+.+    +...+..|...|..    .+++++|...|+
T Consensus       140 ~a~~-~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~----~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~  211 (490)
T 2xm6_A          140 LAAE-QG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG----NVWSCNQLGYMYSRGLGVERNDAISAQWYR  211 (490)
T ss_dssp             HHHH-TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHH-CC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHhcCCCCCcCHHHHHHHHH
Confidence            5422 11   23344444444443    445555555555544432    23334444444444    444555555544


Q ss_pred             HhhhcCCcHHHHHHHHHHHH------------------------------------c----cCChHHHHHHHHHHHhccC
Q 048799          145 DISVERKNLVSWTSIISGFA------------------------------------M----HGMGKEAVENFERMQKVVL  184 (331)
Q Consensus       145 ~~~~~~~~~~~~~~l~~~~~------------------------------------~----~~~~~~a~~~~~~m~~~~~  184 (331)
                      +.... .+..++..+...|.                                    .    .+++++|+..|++..+.| 
T Consensus       212 ~a~~~-~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~-  289 (490)
T 2xm6_A          212 KSATS-GDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG-  289 (490)
T ss_dssp             HHHHT-TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT-
T ss_pred             HHHHC-CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC-
Confidence            44322 12233333333333                                    3    344444444444443322 


Q ss_pred             CCCHHHHHHHHHHHhcc-----CChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC---CHHHHHHHHhhcccCCcc
Q 048799          185 KPNRVTFLSVLNACSHG-----GLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG---RLEQAEKVASGIPSEITN  256 (331)
Q Consensus       185 ~p~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~  256 (331)
                        +...+..+...|...     +++++|...|++..+. +   +...+..+...|...|   ++++|.++|+++.+. .+
T Consensus       290 --~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~-~~  362 (490)
T 2xm6_A          290 --NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ-G---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK-GE  362 (490)
T ss_dssp             --CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT-TC
T ss_pred             --CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc-C---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC-CC
Confidence              222333344444333     4455555555544443 2   2233444444444433   455555555555443 34


Q ss_pred             HHHHHHHHHHHhc----CCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh----hccCcchHHHHHHHhhcc
Q 048799          257 VVVWRTLLGACSF----HGNVEMGERVTRKILEMERGYGGDYVLMYNILAG----VWRYGDAERLRRVVDERN  321 (331)
Q Consensus       257 ~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  321 (331)
                      +..+..+...|..    .+++++|...|+++.+.  +++..+..++.+|..    .++.++|...+++..+.+
T Consensus       363 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~--~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          363 KAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQ--GLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhC--CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            4455555555555    55566666666665542  234455556666555    556666666666655544

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.83  E-value=5.8e-17  Score=140.08  Aligned_cols=271  Identities=10%  Similarity=0.016  Sum_probs=198.9

Q ss_pred             cchhHHhhhcC-CchHHHHHHHHHHHHH----cCCHHHHHHHHhhCC-CCCchhHHHHHHHHHh----cCChhHHHHHHH
Q 048799            3 KDGSKLFDELP-ERNLVTWNVMITGLVK----WGELEYARSLFEEMP-CRNVVSWTGIIDGYTR----MNRSNGALALFR   72 (331)
Q Consensus         3 ~~A~~~~~~~~-~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~-~~~~~~~~~l~~~~~~----~~~~~~a~~~~~   72 (331)
                      ++|.+.|++.. ..+..++..|...|..    .+++++|...|++.. ..+..++..|...|..    .+++++|...|+
T Consensus       132 ~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~  211 (490)
T 2xm6_A          132 AESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAISAQWYR  211 (490)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHHHHHHH
Confidence            44555555544 2244455555555555    556666666666544 2345566666666666    677777777777


Q ss_pred             HHHhccCCCCchHHHHHHHHHHhh----cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh----cCCHhHHHHHHH
Q 048799           73 RMVACEYTEPSEITILAVFPAIWQ----NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK----CGCIFSALKLFE  144 (331)
Q Consensus        73 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~  144 (331)
                      +... .   .+...+..+...+..    .++.++|..+|++..+.+    +...+..+...|..    .++.++|...|+
T Consensus       212 ~a~~-~---~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~  283 (490)
T 2xm6_A          212 KSAT-S---GDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG----NSIAQFRLGYILEQGLAGAKEPLKALEWYR  283 (490)
T ss_dssp             HHHH-T---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT----CHHHHHHHHHHHHHTTTSSCCHHHHHHHHH
T ss_pred             HHHH-C---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Confidence            7632 2   234556666666654    677888888888777664    34456667777777    788999999998


Q ss_pred             HhhhcCCcHHHHHHHHHHHHcc-----CChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccC---ChHHHHHHHHHHHH
Q 048799          145 DISVERKNLVSWTSIISGFAMH-----GMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGG---LVEEGLKFFDKMVE  216 (331)
Q Consensus       145 ~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~  216 (331)
                      +.... .+..++..+...|...     +++++|+..|++..+.|   +...+..+...|...|   +.++|.++|++..+
T Consensus       284 ~a~~~-~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~  359 (490)
T 2xm6_A          284 KSAEQ-GNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAA  359 (490)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHH
Confidence            88644 3556777788888877     89999999999998865   4456777777777766   78999999999987


Q ss_pred             hcCCCCcHhhHHHHHHHHHh----cCCHHHHHHHHhhcccCCccHHHHHHHHHHHhc----CCchhHHHHHHHHHHHhhc
Q 048799          217 ECEVLPDIKHYGCLIDMLGR----AGRLEQAEKVASGIPSEITNVVVWRTLLGACSF----HGNVEMGERVTRKILEMER  288 (331)
Q Consensus       217 ~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  288 (331)
                      .    .+...+..+...|..    .+++++|.++|+++.+. .++..+..+...|..    .+++++|...|+++.+.+|
T Consensus       360 ~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~-~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          360 K----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQ-GLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             T----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             C----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhC-CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            5    367788889999988    89999999999998876 467788889998887    8999999999999999887


Q ss_pred             CC
Q 048799          289 GY  290 (331)
Q Consensus       289 ~~  290 (331)
                      +.
T Consensus       435 ~~  436 (490)
T 2xm6_A          435 NL  436 (490)
T ss_dssp             CH
T ss_pred             CC
Confidence            63

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.82  E-value=2.3e-17  Score=144.04  Aligned_cols=316  Identities=10%  Similarity=0.023  Sum_probs=217.5

Q ss_pred             ccchhHHhhhcC---CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CCCchhHHHHHHH-HHhcCChhHHHH----HH
Q 048799            2 LKDGSKLFDELP---ERNLVTWNVMITGLVKWGELEYARSLFEEMP--CRNVVSWTGIIDG-YTRMNRSNGALA----LF   71 (331)
Q Consensus         2 ~~~A~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~-~~~~~~~~~a~~----~~   71 (331)
                      +++|.++|+++.   +.+...|..++..+.+.|++++|..+|+++.  .|++..|..++.. ....|++++|.+    +|
T Consensus        28 ~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~  107 (530)
T 2ooe_A           28 IDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYVRETKGKLPSYKEKMAQAY  107 (530)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHccchhhHHHHHHHHH
Confidence            466778888765   3366778888888888888888888888876  3666666666643 234566666654    66


Q ss_pred             HHHHhccCCCC-chHHHHHHHHHHhh---------cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHH------------
Q 048799           72 RRMVACEYTEP-SEITILAVFPAIWQ---------NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDT------------  129 (331)
Q Consensus        72 ~~~~~~~~~~~-~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~------------  129 (331)
                      ++.+...|..| +...|...+.....         .|+++.|..+|+++++..... ....|......            
T Consensus       108 ~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~-~~~~~~~~~~~e~~~~~~~~~~~  186 (530)
T 2ooe_A          108 DFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMIN-IEQLWRDYNKYEEGINIHLAKKM  186 (530)
T ss_dssp             HHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTT-HHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             HHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhh-HHHHHHHHHHHHHhhchhHHHHH
Confidence            66544434433 34556655554433         678888888888887732111 12222211110            


Q ss_pred             -----------------------------------------------------HHhc----CCH----hHHHHHHHHhhh
Q 048799          130 -----------------------------------------------------YAKC----GCI----FSALKLFEDISV  148 (331)
Q Consensus       130 -----------------------------------------------------~~~~----g~~----~~A~~~~~~~~~  148 (331)
                                                                           ....    ++.    .++..+|+++..
T Consensus       187 l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~  266 (530)
T 2ooe_A          187 IEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLL  266 (530)
T ss_dssp             HHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHH
Confidence                                                                 0000    111    244456666655


Q ss_pred             cCC-cHHHHHHHHHHHHc-------cCChH-------HHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 048799          149 ERK-NLVSWTSIISGFAM-------HGMGK-------EAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDK  213 (331)
Q Consensus       149 ~~~-~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  213 (331)
                      ..| +...|..++..+.+       .|+++       +|..+|++..+.-.+.+...+..++..+.+.|++++|..+|++
T Consensus       267 ~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~  346 (530)
T 2ooe_A          267 VLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNR  346 (530)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            544 56677777777664       68876       8999999887522333577888888888899999999999999


Q ss_pred             HHHhcCCCCc-H-hhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc-HHHHHHHHHH-HhcCCchhHHHHHHHHHHHhhcC
Q 048799          214 MVEECEVLPD-I-KHYGCLIDMLGRAGRLEQAEKVASGIPSEITN-VVVWRTLLGA-CSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       214 ~~~~~~~~~~-~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      +.+.   .|+ . ..|..++..+.+.|++++|.++|+++....|. ...|...+.. +...|++++|..+|+++++..|+
T Consensus       347 al~~---~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~  423 (530)
T 2ooe_A          347 LLAI---EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD  423 (530)
T ss_dssp             HHHS---SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTT
T ss_pred             HhCc---cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCC
Confidence            9864   443 2 57888888888899999999999998887332 3333332222 33589999999999999999999


Q ss_pred             CCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          290 YGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       290 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ++..+..++..+.+.|+.++|..+|++....+
T Consensus       424 ~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          424 IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSC
T ss_pred             CHHHHHHHHHHHHhCCCHhhHHHHHHHHHhcc
Confidence            88899999999999999999999999987753

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.82  E-value=2.9e-18  Score=131.78  Aligned_cols=195  Identities=13%  Similarity=0.070  Sum_probs=86.8

Q ss_pred             chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHH
Q 048799           83 SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIIS  161 (331)
Q Consensus        83 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~  161 (331)
                      +...+..+...+...|++++|...++++++..+.  +..++..+..++.+.|++++|+..|+++....| +...+..+..
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~--~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~   81 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKENPQ--DPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSE   81 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence            3344444444444444444444444444444222  444444444444445555555554444444433 2344444444


Q ss_pred             HHHcc-----------CChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHH
Q 048799          162 GFAMH-----------GMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCL  230 (331)
Q Consensus       162 ~~~~~-----------~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  230 (331)
                      ++...           |++++|+..|++..+.. +-+...+..+..++...|++++|...|+++.+. .  .+...+..+
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~--~~~~~~~~l  157 (217)
T 2pl2_A           82 AYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALAL-E--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C--CCHHHHHHH
T ss_pred             HHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-c--cchHHHHHH
Confidence            44444           55555555555554422 112344444555555555555555555555544 3  344455555


Q ss_pred             HHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHH
Q 048799          231 IDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKI  283 (331)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~  283 (331)
                      ..+|...|++++|...|+++....| +...+..+..++...|++++|...+++.
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            5555555555555555555544422 3445555555555555555555555543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.82  E-value=4e-20  Score=164.22  Aligned_cols=152  Identities=15%  Similarity=0.100  Sum_probs=125.2

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-----CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVE-----RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLS  193 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  193 (331)
                      ...+|++||++|++.|++++|.++|.+|.+.     .||+.+||+||.+|++.|++++|.++|++|...|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            4568999999999999999999999887642     69999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCCh-HHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC---CccHHHHHHHHHHHhc
Q 048799          194 VLNACSHGGLV-EEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE---ITNVVVWRTLLGACSF  269 (331)
Q Consensus       194 l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~l~~~~~~  269 (331)
                      +|.++|+.|+. ++|.++|++|.+. |+.||..+|+.++....+.+-++.+.++...+...   .|...+...|.+.|.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~  284 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAK  284 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHcc
Confidence            99999999985 7899999999999 99999999999998777654444444443333322   1123444455666665


Q ss_pred             CC
Q 048799          270 HG  271 (331)
Q Consensus       270 ~g  271 (331)
                      .+
T Consensus       285 d~  286 (1134)
T 3spa_A          285 DG  286 (1134)
T ss_dssp             CS
T ss_pred             CC
Confidence            55

>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=99.81  E-value=2.5e-17  Score=129.52  Aligned_cols=205  Identities=8%  Similarity=-0.053  Sum_probs=149.9

Q ss_pred             hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHH
Q 048799           84 EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISG  162 (331)
Q Consensus        84 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~  162 (331)
                      ...+..+...+...|++++|...++++.+..+.  +..++..++.++...|++++|...|+++....| +...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~--~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS--SADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC--hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHH
Confidence            345666666777777777777777777766433  566777777778888888888888877766644 56677777777


Q ss_pred             HHccCChHHHHHHHHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHH
Q 048799          163 FAMHGMGKEAVENFERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLE  241 (331)
Q Consensus       163 ~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  241 (331)
                      +...|++++|++.++++...+..| +...+..+...+...|++++|...++++.+. . +.+...+..++..+...|+++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~~~~la~~~~~~g~~~  192 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRL-N-RNQPSVALEMADLLYKEREYV  192 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-SCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-C-cccHHHHHHHHHHHHHcCCHH
Confidence            778888888888888776632334 4556677777778888888888888887764 2 335677777888888888888


Q ss_pred             HHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc
Q 048799          242 QAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG  292 (331)
Q Consensus       242 ~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  292 (331)
                      +|...++.+... +.+...+..+...+...|++++|.+.++++.+..|+++.
T Consensus       193 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  244 (252)
T 2ho1_A          193 PARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLE  244 (252)
T ss_dssp             HHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHH
T ss_pred             HHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHH
Confidence            888888887766 445667777778888888888888888888887777643

>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=99.81  E-value=1.1e-17  Score=138.68  Aligned_cols=249  Identities=10%  Similarity=-0.023  Sum_probs=203.1

Q ss_pred             chhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCc-hhHHHHHHhhhhhcCCCcchhHHHHHH
Q 048799           48 VVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGD-VRNCQLIHGYGEKRGFNAFHIHVSNCL  126 (331)
Q Consensus        48 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l  126 (331)
                      ...|+.+...+...|++++|+..+++++...  +-+...|..+..++...|+ +++|+..++++++..+.  +..+|..+
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 RDVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK--NYQVWHHR  172 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT--CHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC--CHHHHHHH
Confidence            3567888888999999999999999985532  3456788888999999996 99999999999998655  78889999


Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhc-cCCh
Q 048799          127 IDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSH-GGLV  204 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~-~~~~  204 (331)
                      ..++...|++++|+..|+++....| +..+|..+..++...|++++|+..|+++++.. +-+...|+.+..++.. .|..
T Consensus       173 g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          173 RVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcc
Confidence            9999999999999999999988766 67889999999999999999999999998854 2356788888888888 5655


Q ss_pred             HHH-----HHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC--CHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCC-----
Q 048799          205 EEG-----LKFFDKMVEECEVLPDIKHYGCLIDMLGRAG--RLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHG-----  271 (331)
Q Consensus       205 ~~a-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g-----  271 (331)
                      ++|     +..++++++.  -+-+...|..+...+...|  ++++|.+.+.++ .. ..+...+..++.+|.+.|     
T Consensus       252 ~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhccccc
Confidence            777     4888888864  2336778888888888888  689999999888 44 456788888888888764     


Q ss_pred             ----chhHHHHHHHHH-HHhhcCCCccHHHHHHHHhhh
Q 048799          272 ----NVEMGERVTRKI-LEMERGYGGDYVLMYNILAGV  304 (331)
Q Consensus       272 ----~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~  304 (331)
                          ..++|.++++++ .+.+|.....|..++..+...
T Consensus       329 ~~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          329 NKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence                358999999999 888998888888887776544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.81  E-value=2.6e-18  Score=134.28  Aligned_cols=215  Identities=11%  Similarity=0.000  Sum_probs=152.8

Q ss_pred             CchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHH
Q 048799           82 PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSII  160 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~  160 (331)
                      .....+..+...+...|++++|...++++++..+.  +..++..++.++...|++++|...|+++....| +..++..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE--DAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc--cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHH
Confidence            34456666777777888888888888888776443  667777888888888888888888888876654 567788888


Q ss_pred             HHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCH
Q 048799          161 SGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL  240 (331)
Q Consensus       161 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  240 (331)
                      ..+...|++++|++.++++.+.. +.+...+..+...+...|++++|...++++.+.  .+.+...+..+...+...|++
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            88888888888888888887653 345667777888888888899998888888764  234677788888888889999


Q ss_pred             HHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHH
Q 048799          241 EQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL  301 (331)
Q Consensus       241 ~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  301 (331)
                      ++|...++++... +.+..++..+..++...|++++|...++++.+..|+++..+..+....
T Consensus       176 ~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~  237 (243)
T 2q7f_A          176 DEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLLG  237 (243)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC--
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHHH
Confidence            9999998888766 345778888889999999999999999999998888866666554443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.80  E-value=5.4e-18  Score=142.74  Aligned_cols=296  Identities=14%  Similarity=0.043  Sum_probs=229.8

Q ss_pred             CchHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CCC-----chhHHHHHHHHHhcCChhHHHHHHHHHHhcc---CCCC-
Q 048799           14 ERNLVTWNVMITGLVKWGELEYARSLFEEMP--CRN-----VVSWTGIIDGYTRMNRSNGALALFRRMVACE---YTEP-   82 (331)
Q Consensus        14 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-   82 (331)
                      ++....+......+...|++++|...|++..  .|+     ...|..+...+...|++++|...++++....   +..| 
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            3456677788899999999999999999876  233     3578889999999999999999999874321   1112 


Q ss_pred             chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCC----cchhHHHHHHHHHHHhcCC--------------------HhH
Q 048799           83 SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFN----AFHIHVSNCLIDTYAKCGC--------------------IFS  138 (331)
Q Consensus        83 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~--------------------~~~  138 (331)
                      ...++..+...+...|++++|...++++.+....    +....++..+...|...|+                    +++
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~  165 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQA  165 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHH
Confidence            2457788889999999999999999988765221    1124578889999999999                    999


Q ss_pred             HHHHHHHhhhc------CC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccC-CCC----HHHHHHHHHHHhccCChHH
Q 048799          139 ALKLFEDISVE------RK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVL-KPN----RVTFLSVLNACSHGGLVEE  206 (331)
Q Consensus       139 A~~~~~~~~~~------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~~~~  206 (331)
                      |...+++....      .+ ...++..+...+...|++++|+..+++...... .++    ..++..+...+...|++++
T Consensus       166 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  245 (406)
T 3sf4_A          166 AVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFET  245 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHH
Confidence            99999887654      11 245788888999999999999999998875321 122    2478888899999999999


Q ss_pred             HHHHHHHHHHhcCCCCc----HhhHHHHHHHHHhcCCHHHHHHHHhhcccC---Ccc----HHHHHHHHHHHhcCCchhH
Q 048799          207 GLKFFDKMVEECEVLPD----IKHYGCLIDMLGRAGRLEQAEKVASGIPSE---ITN----VVVWRTLLGACSFHGNVEM  275 (331)
Q Consensus       207 a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~p~----~~~~~~l~~~~~~~g~~~~  275 (331)
                      |...+++..+...-.++    ..++..+...|...|++++|...++++...   .++    ..++..+...+...|++++
T Consensus       246 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  325 (406)
T 3sf4_A          246 ASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQ  325 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHH
Confidence            99999998754111111    557788899999999999999999988765   222    5678888999999999999


Q ss_pred             HHHHHHHHHHhhcC------CCccHHHHHHHHhhhccCcc
Q 048799          276 GERVTRKILEMERG------YGGDYVLMYNILAGVWRYGD  309 (331)
Q Consensus       276 a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~  309 (331)
                      |...++++.+..+.      ...++..++.++...|+...
T Consensus       326 A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          326 AMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHH
Confidence            99999999986432      23567778889988887744

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.80  E-value=3.6e-17  Score=130.11  Aligned_cols=247  Identities=9%  Similarity=-0.018  Sum_probs=195.9

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHhhCC--C-CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc--hHHHHHHH
Q 048799           17 LVTWNVMITGLVKWGELEYARSLFEEMP--C-RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS--EITILAVF   91 (331)
Q Consensus        17 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~   91 (331)
                      ...+......+...|++++|+..|++..  . .+...+..+..++...|++++|+..++++.. .+..|+  ..+|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~-~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFS-KVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHT-TSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh-ccCchhHHHHHHHHHH
Confidence            3445667888999999999999999875  2 3556899999999999999999999999955 332222  33588899


Q ss_pred             HHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChH
Q 048799           92 PAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGK  170 (331)
Q Consensus        92 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  170 (331)
                      .++...|++++|+..++++.+..+.  +..++..++.+|...|++++|...|+++....| +...|..+...+...++++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRDTT--RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT--CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcCcc--cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998654  678899999999999999999999999988766 5677888873444456999


Q ss_pred             HHHHHHHHHHhccCCCCHHHHHHHHHHHhccCC---hHHHHHHHHHHHHhcCCCCc------HhhHHHHHHHHHhcCCHH
Q 048799          171 EAVENFERMQKVVLKPNRVTFLSVLNACSHGGL---VEEGLKFFDKMVEECEVLPD------IKHYGCLIDMLGRAGRLE  241 (331)
Q Consensus       171 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~  241 (331)
                      +|++.|+++.+.. +.+...+..+...+...|+   +++|...++++.+...-.|+      ...+..+...|...|+++
T Consensus       160 ~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  238 (272)
T 3u4t_A          160 KADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKV  238 (272)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHH
Confidence            9999999998853 2346777778888888888   88899999998876333344      257788899999999999


Q ss_pred             HHHHHHhhcccCCc-cHHHHHHHHHHH
Q 048799          242 QAEKVASGIPSEIT-NVVVWRTLLGAC  267 (331)
Q Consensus       242 ~A~~~~~~~~~~~p-~~~~~~~l~~~~  267 (331)
                      +|.+.++++....| +...+..+....
T Consensus       239 ~A~~~~~~al~~~p~~~~a~~~l~~~~  265 (272)
T 3u4t_A          239 KADAAWKNILALDPTNKKAIDGLKMKL  265 (272)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHC---
T ss_pred             HHHHHHHHHHhcCccHHHHHHHhhhhh
Confidence            99999999987744 455555554443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.80  E-value=4.7e-17  Score=125.51  Aligned_cols=207  Identities=9%  Similarity=-0.096  Sum_probs=141.0

Q ss_pred             chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHH
Q 048799           83 SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIIS  161 (331)
Q Consensus        83 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~  161 (331)
                      +...+..+...+...|++++|...++++.+..+.  +..++..++.++...|++++|...|+++....| +..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPK--NELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc--chHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            3455666666677777777777777776665433  556666777777777777777777777765544 4566777777


Q ss_pred             HHHcc-CChHHHHHHHHHHHhccCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC
Q 048799          162 GFAMH-GMGKEAVENFERMQKVVLKPN-RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR  239 (331)
Q Consensus       162 ~~~~~-~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (331)
                      .+... |++++|+..++++.+.+..|+ ...+..+...+...|++++|...++++.+.  .+.+...+..++..+...|+
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCC
Confidence            77777 777777777777766322232 456666777777777777777777777664  22346667777777777777


Q ss_pred             HHHHHHHHhhcccC-C-ccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCcc
Q 048799          240 LEQAEKVASGIPSE-I-TNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGD  293 (331)
Q Consensus       240 ~~~A~~~~~~~~~~-~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  293 (331)
                      +++|...++++... + .+...+..+...+...|+.+.+..+++.+.+..|+++..
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  218 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEEL  218 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHH
Confidence            77777777777665 3 456666666667777777777777777777777776443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.80  E-value=8.2e-18  Score=141.63  Aligned_cols=274  Identities=12%  Similarity=0.029  Sum_probs=215.9

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc--hHHHHHHHHHHhhcCchhHHHHHHhhhhhc----CCCcchh
Q 048799           47 NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS--EITILAVFPAIWQNGDVRNCQLIHGYGEKR----GFNAFHI  120 (331)
Q Consensus        47 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~  120 (331)
                      ....+..+...+...|++++|...|++++......|.  ...+..+...+...|++++|...++++.+.    +..+...
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            4456677888899999999999999999654322121  356788889999999999999999987654    3333346


Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC---c----HHHHHHHHHHHHccCC--------------------hHHHH
Q 048799          121 HVSNCLIDTYAKCGCIFSALKLFEDISVERK---N----LVSWTSIISGFAMHGM--------------------GKEAV  173 (331)
Q Consensus       121 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~----~~~~~~l~~~~~~~~~--------------------~~~a~  173 (331)
                      .++..+...+...|++++|...++++....+   +    ..++..+...|...|+                    +++|+
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~  167 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAV  167 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHH
Confidence            7888899999999999999999998876522   1    4578888899999999                    99999


Q ss_pred             HHHHHHHhcc--C--CC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc----HhhHHHHHHHHHhcCCHHHHH
Q 048799          174 ENFERMQKVV--L--KP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD----IKHYGCLIDMLGRAGRLEQAE  244 (331)
Q Consensus       174 ~~~~~m~~~~--~--~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~  244 (331)
                      ..+++.....  .  .| ...++..+...+...|++++|...+++..+...-.++    ..++..+...|...|++++|.
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  247 (406)
T 3sf4_A          168 DFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  247 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            9998876521  1  11 2356788888999999999999999998764211122    347888899999999999999


Q ss_pred             HHHhhcccC---Ccc----HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC------CccHHHHHHHHhhhccCcchH
Q 048799          245 KVASGIPSE---ITN----VVVWRTLLGACSFHGNVEMGERVTRKILEMERGY------GGDYVLMYNILAGVWRYGDAE  311 (331)
Q Consensus       245 ~~~~~~~~~---~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~a~  311 (331)
                      ..++++...   .++    ..++..+...+...|++++|...++++.+..+..      ...+..++.++...|++++|.
T Consensus       248 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  327 (406)
T 3sf4_A          248 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAM  327 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            999988755   111    5678888999999999999999999999865543      347788999999999999999


Q ss_pred             HHHHHHhhc
Q 048799          312 RLRRVVDER  320 (331)
Q Consensus       312 ~~~~~~~~~  320 (331)
                      ..+++..+.
T Consensus       328 ~~~~~al~~  336 (406)
T 3sf4_A          328 HFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887654

>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=99.79  E-value=2.7e-16  Score=125.22  Aligned_cols=227  Identities=11%  Similarity=-0.047  Sum_probs=178.6

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhh----cCchhHHHHHHhhhhhcCCCcchhHH
Q 048799           47 NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQ----NGDVRNCQLIHGYGEKRGFNAFHIHV  122 (331)
Q Consensus        47 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (331)
                      ++.++..+...+...|++++|...|++...    +.+...+..+...+..    .+++++|...|++..+.+    +...
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~----~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~----~~~a   76 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACD----LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN----YSNG   76 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHH----CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC----CHHH
Confidence            556777888888888999999999988844    2345677778888888    888999999998888775    4566


Q ss_pred             HHHHHHHHHh----cCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHc----cCChHHHHHHHHHHHhccCCCCHHHHHHH
Q 048799          123 SNCLIDTYAK----CGCIFSALKLFEDISVERKNLVSWTSIISGFAM----HGMGKEAVENFERMQKVVLKPNRVTFLSV  194 (331)
Q Consensus       123 ~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  194 (331)
                      +..+...|..    .+++++|...|++..... +..++..+...|..    .+++++|+..|++..+.+   +...+..+
T Consensus        77 ~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           77 CHLLGNLYYSGQGVSQNTNKALQYYSKACDLK-YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC-CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            7778888888    888999998888887653 67778888888888    888889998888888754   45566677


Q ss_pred             HHHHhc----cCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHh----cCCHHHHHHHHhhcccCCccHHHHHHHHHH
Q 048799          195 LNACSH----GGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGR----AGRLEQAEKVASGIPSEITNVVVWRTLLGA  266 (331)
Q Consensus       195 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~  266 (331)
                      ...|..    .+++++|...|++..+. +   +...+..+...|..    .+++++|...|+++.+.. +...+..+...
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-~~~a~~~l~~~  227 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDL-K---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE-NGGGCFNLGAM  227 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT-CHHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC-CHHHHHHHHHH
Confidence            777776    88888888888888765 3   45677778888888    888888888888877662 36677777888


Q ss_pred             Hhc----CCchhHHHHHHHHHHHhhcCC
Q 048799          267 CSF----HGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       267 ~~~----~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      |..    .+++++|.+.++++.+.+|++
T Consensus       228 ~~~g~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          228 QYNGEGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             HHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHcCCCcccCHHHHHHHHHHHHHcCCHH
Confidence            887    888888888888888877654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.79  E-value=9.7e-18  Score=141.62  Aligned_cols=269  Identities=11%  Similarity=-0.024  Sum_probs=160.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc--hHHHHHHHHHHhhcCchhHHHHHHhhhhhc----CCCcchhHHHH
Q 048799           51 WTGIIDGYTRMNRSNGALALFRRMVACEYTEPS--EITILAVFPAIWQNGDVRNCQLIHGYGEKR----GFNAFHIHVSN  124 (331)
Q Consensus        51 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~  124 (331)
                      +..+...+...|++++|+..|++++......+.  ...+..+..++...|++++|...++++++.    +..+....++.
T Consensus        51 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  130 (411)
T 4a1s_A           51 LALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSG  130 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHH
Confidence            444555666777777777777776443211111  135566666666777777777776666543    22222455666


Q ss_pred             HHHHHHHhcCCHhHHHHHHHHhhhc------CC-cHHHHHHHHHHHHccCC-----------------hHHHHHHHHHHH
Q 048799          125 CLIDTYAKCGCIFSALKLFEDISVE------RK-NLVSWTSIISGFAMHGM-----------------GKEAVENFERMQ  180 (331)
Q Consensus       125 ~l~~~~~~~g~~~~A~~~~~~~~~~------~~-~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~m~  180 (331)
                      .+...|...|++++|...|+++...      .+ ...++..+...|...|+                 +++|++.+++..
T Consensus       131 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al  210 (411)
T 4a1s_A          131 NLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENL  210 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            6777777777777777777666543      11 23456666666777777                 777777666654


Q ss_pred             hc----cCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc----HhhHHHHHHHHHhcCCHHHHHHHHhhcc
Q 048799          181 KV----VLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD----IKHYGCLIDMLGRAGRLEQAEKVASGIP  251 (331)
Q Consensus       181 ~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~  251 (331)
                      ..    +..+ ...++..+...+...|++++|...+++..+...-.++    ...+..+...|...|++++|...++++.
T Consensus       211 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  290 (411)
T 4a1s_A          211 KLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTL  290 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            32    1111 1235566666677777777777777766553110111    2256666677777777777777777665


Q ss_pred             cCCc-------cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC------CccHHHHHHHHhhhccCcchHHHHHHHh
Q 048799          252 SEIT-------NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY------GGDYVLMYNILAGVWRYGDAERLRRVVD  318 (331)
Q Consensus       252 ~~~p-------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~a~~~~~~~~  318 (331)
                      ...+       ...++..+...+...|++++|...++++.+..+..      ...+..++.++...|++++|...+++..
T Consensus       291 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  370 (411)
T 4a1s_A          291 ALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHL  370 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            5411       14556666677777777777777777777654332      2256667777777777777777776654


Q ss_pred             h
Q 048799          319 E  319 (331)
Q Consensus       319 ~  319 (331)
                      +
T Consensus       371 ~  371 (411)
T 4a1s_A          371 Q  371 (411)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.79  E-value=6.5e-16  Score=123.02  Aligned_cols=223  Identities=9%  Similarity=-0.049  Sum_probs=124.6

Q ss_pred             hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh----cCCHhHHHHHHHHhhhcCCcHHHHHHH
Q 048799           84 EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK----CGCIFSALKLFEDISVERKNLVSWTSI  159 (331)
Q Consensus        84 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l  159 (331)
                      +.++..+...+...|++++|...|++..+.+    +..++..+...|..    .+++++|...|++..... +..++..+
T Consensus         6 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-~~~a~~~l   80 (273)
T 1ouv_A            6 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK----ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN-YSNGCHLL   80 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-CHHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC-CHHHHHHH
Confidence            4445555555556666666666666655521    33445555556665    666666666666554433 44555555


Q ss_pred             HHHHHc----cCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHhcCCCCcHhhHHHHH
Q 048799          160 ISGFAM----HGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSH----GGLVEEGLKFFDKMVEECEVLPDIKHYGCLI  231 (331)
Q Consensus       160 ~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  231 (331)
                      ...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|++..+. +   +...+..+.
T Consensus        81 g~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg  153 (273)
T 1ouv_A           81 GNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCTILG  153 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHH
T ss_pred             HHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHH
Confidence            555555    666666666666655543   44455555555555    56666666666665553 2   344455555


Q ss_pred             HHHHh----cCCHHHHHHHHhhcccCCccHHHHHHHHHHHhc----CCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh
Q 048799          232 DMLGR----AGRLEQAEKVASGIPSEITNVVVWRTLLGACSF----HGNVEMGERVTRKILEMERGYGGDYVLMYNILAG  303 (331)
Q Consensus       232 ~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  303 (331)
                      ..|..    .+++++|...|+++.+. .+...+..+...|..    .+++++|...++++.+.+|  +..+..++.+|..
T Consensus       154 ~~~~~~~~~~~~~~~A~~~~~~a~~~-~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~  230 (273)
T 1ouv_A          154 SLYDAGRGTPKDLKKALASYDKACDL-KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GGGCFNLGAMQYN  230 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHT
T ss_pred             HHHHcCCCCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHc
Confidence            55555    56666666666655544 234455555555555    5666666666666655433  3455555666655


Q ss_pred             ----hccCcchHHHHHHHhhcc
Q 048799          304 ----VWRYGDAERLRRVVDERN  321 (331)
Q Consensus       304 ----~g~~~~a~~~~~~~~~~~  321 (331)
                          .+++++|.+.+++..+.+
T Consensus       231 g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          231 GEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             TSSSSCCSTTHHHHHHHHHHHT
T ss_pred             CCCcccCHHHHHHHHHHHHHcC
Confidence                566666666665555443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.78  E-value=2.3e-17  Score=135.02  Aligned_cols=268  Identities=12%  Similarity=0.003  Sum_probs=163.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhccCCCCc--hHHHHHHHHHHhhcCchhHHHHHHhhhhhc----CCCcchhHHHHHH
Q 048799           53 GIIDGYTRMNRSNGALALFRRMVACEYTEPS--EITILAVFPAIWQNGDVRNCQLIHGYGEKR----GFNAFHIHVSNCL  126 (331)
Q Consensus        53 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l  126 (331)
                      .....+...|++++|...|+++.......|.  ...+..+...+...|++++|...++++.+.    +..+....++..+
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   89 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNL   89 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHH
Confidence            3444555666666666666665332111111  234555556666666666666666654432    2222234556666


Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhcC---Cc----HHHHHHHHHHHHccCC--------------------hHHHHHHHHHH
Q 048799          127 IDTYAKCGCIFSALKLFEDISVER---KN----LVSWTSIISGFAMHGM--------------------GKEAVENFERM  179 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~~---~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~m  179 (331)
                      ...+...|++++|...++++....   ++    ..++..+...+...|+                    +++|++.+++.
T Consensus        90 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  169 (338)
T 3ro2_A           90 GNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEEN  169 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHH
Confidence            677777777777777776664431   11    2356666666666777                    77777776665


Q ss_pred             Hhc----cCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC----cHhhHHHHHHHHHhcCCHHHHHHHHhhc
Q 048799          180 QKV----VLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP----DIKHYGCLIDMLGRAGRLEQAEKVASGI  250 (331)
Q Consensus       180 ~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (331)
                      ...    +..| ....+..+...+...|++++|...++++.+...-.+    ....+..+...+...|++++|...++++
T Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  249 (338)
T 3ro2_A          170 LSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKT  249 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            432    1111 123566667777777788888777777664311111    1236667777777888888888887776


Q ss_pred             ccC---Ccc----HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC------CccHHHHHHHHhhhccCcchHHHHHHH
Q 048799          251 PSE---ITN----VVVWRTLLGACSFHGNVEMGERVTRKILEMERGY------GGDYVLMYNILAGVWRYGDAERLRRVV  317 (331)
Q Consensus       251 ~~~---~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~a~~~~~~~  317 (331)
                      ...   .++    ..++..+...+...|++++|...++++.+..+..      ...+..++.++...|++++|...+++.
T Consensus       250 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  329 (338)
T 3ro2_A          250 LLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKH  329 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            544   111    4566777778888888888888888887754432      236667888888888888888888877


Q ss_pred             hhc
Q 048799          318 DER  320 (331)
Q Consensus       318 ~~~  320 (331)
                      .+.
T Consensus       330 ~~~  332 (338)
T 3ro2_A          330 LEI  332 (338)
T ss_dssp             HHC
T ss_pred             HHH
Confidence            654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.78  E-value=7.1e-17  Score=124.48  Aligned_cols=203  Identities=12%  Similarity=0.041  Sum_probs=178.6

Q ss_pred             cchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHH
Q 048799          117 AFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVL  195 (331)
Q Consensus       117 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~  195 (331)
                      |.+..++..++..+...|++++|...|+++....| +...+..+...+...|++++|.+.++++.... +.+..++..+.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~   83 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYG   83 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            33778888999999999999999999999987765 57889999999999999999999999998753 34677888999


Q ss_pred             HHHhcc-CChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCc
Q 048799          196 NACSHG-GLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGN  272 (331)
Q Consensus       196 ~~~~~~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~  272 (331)
                      ..+... |++++|...++++.+. +..| +...+..+...+...|++++|...++++....| +...+..+..++...|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALAD-PTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTS-TTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCC
Confidence            999999 9999999999999873 3344 467888999999999999999999999887734 57889999999999999


Q ss_pred             hhHHHHHHHHHHHhhc-CCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          273 VEMGERVTRKILEMER-GYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       273 ~~~a~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      +++|...++++.+..| +++..+..++..+...|+.++|..+++.+.+..
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            9999999999999999 888888888889999999999999999887643

>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=99.78  E-value=2.6e-17  Score=136.54  Aligned_cols=231  Identities=10%  Similarity=0.027  Sum_probs=199.4

Q ss_pred             hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCC-HhHHHHHHHHhhhcCC-cHHHHHHHHH
Q 048799           84 EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGC-IFSALKLFEDISVERK-NLVSWTSIIS  161 (331)
Q Consensus        84 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~~-~~~~~~~l~~  161 (331)
                      ...|..+..++...|++++|+..++++++..+.  +..+|+.+..++...|+ +++|+..|+++....| +..+|+.+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~--~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA--NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCcc--CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHH
Confidence            457778888899999999999999999998655  78899999999999997 9999999999998876 6789999999


Q ss_pred             HHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHh-cCCH
Q 048799          162 GFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGR-AGRL  240 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~  240 (331)
                      ++...|++++|+..|++++... +-+...|..+..++...|++++|+..++++++.  -+-+...|+.+..++.. .|..
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            9999999999999999999854 236788999999999999999999999999975  23378899999999999 6665


Q ss_pred             HHH-----HHHHhhcccCCc-cHHHHHHHHHHHhcCC--chhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhc-------
Q 048799          241 EQA-----EKVASGIPSEIT-NVVVWRTLLGACSFHG--NVEMGERVTRKILEMERGYGGDYVLMYNILAGVW-------  305 (331)
Q Consensus       241 ~~A-----~~~~~~~~~~~p-~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-------  305 (331)
                      ++|     ...++++....| +...|..+..++...|  ++++|++.+.++ +.+|+++..+..++.+|.+.|       
T Consensus       252 ~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            777     588888877744 6788999999999888  689999999998 778888888999999999875       


Q ss_pred             --cCcchHHHHHHH-hhc
Q 048799          306 --RYGDAERLRRVV-DER  320 (331)
Q Consensus       306 --~~~~a~~~~~~~-~~~  320 (331)
                        ..++|.++++++ .+.
T Consensus       331 ~~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          331 EDILNKALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence              258899999988 553

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.78  E-value=6.8e-18  Score=134.49  Aligned_cols=242  Identities=8%  Similarity=-0.181  Sum_probs=186.0

Q ss_pred             HHcCCHHHHHHHHhhCCCC-------CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCch
Q 048799           28 VKWGELEYARSLFEEMPCR-------NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDV  100 (331)
Q Consensus        28 ~~~g~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  100 (331)
                      ...|++++|+..|+++.+.       +..+|..+...+...|++++|...|++++...  +.+..++..+..++...|++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR--PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHccCH
Confidence            3457889999999887642       35678888999999999999999999985432  34678889999999999999


Q ss_pred             hHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 048799          101 RNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQ  180 (331)
Q Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  180 (331)
                      ++|...++++++..+.  +..++..++.++...|++++|...|+++....|+.......+..+...|++++|+..+++..
T Consensus        94 ~~A~~~~~~al~~~~~--~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           94 DAAYEAFDSVLELDPT--YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHHCTT--CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcc--ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            9999999999988544  67888899999999999999999999998877765555555555667799999999998877


Q ss_pred             hccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-----cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc
Q 048799          181 KVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-----DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT  255 (331)
Q Consensus       181 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  255 (331)
                      ... +++...+ .++..+...++.++|...+..+.+.   .|     +...+..+...|...|++++|...|+++....|
T Consensus       172 ~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  246 (275)
T 1xnf_A          172 EKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATD---NTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  246 (275)
T ss_dssp             HHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCS---HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             hcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcc---cccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCc
Confidence            653 3343334 3666777888888999988887643   22     257788899999999999999999999988745


Q ss_pred             cHHHHHHHHHHHhcCCchhHHHHHH
Q 048799          256 NVVVWRTLLGACSFHGNVEMGERVT  280 (331)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~a~~~~  280 (331)
                      +.  +.....++...|++++|++.+
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            32  233355667778888888776

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.78  E-value=5.4e-16  Score=135.35  Aligned_cols=213  Identities=8%  Similarity=-0.051  Sum_probs=172.0

Q ss_pred             HHHHHHhhhhhcCCCcchhHHHHHHHHHHHh-------cCCHh-------HHHHHHHHhhh-cCC-cHHHHHHHHHHHHc
Q 048799          102 NCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK-------CGCIF-------SALKLFEDISV-ERK-NLVSWTSIISGFAM  165 (331)
Q Consensus       102 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~A~~~~~~~~~-~~~-~~~~~~~l~~~~~~  165 (331)
                      .+..+|++++...  |.++.+|..++..+.+       .|+++       +|..+|+++.. ..| +...|..++..+.+
T Consensus       256 ~a~~~y~~al~~~--p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~  333 (530)
T 2ooe_A          256 RVMFAYEQCLLVL--GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  333 (530)
T ss_dssp             HHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            5566777777763  3377888888888876       69987       99999999986 455 57889999999999


Q ss_pred             cCChHHHHHHHHHHHhccCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHH-HHhcCCHH
Q 048799          166 HGMGKEAVENFERMQKVVLKPN--RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDM-LGRAGRLE  241 (331)
Q Consensus       166 ~~~~~~a~~~~~~m~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~-~~~~g~~~  241 (331)
                      .|++++|..+|+++.+  ..|+  ...|..++..+.+.|+.++|..+|++..+.   +| +...+...+.. +...|+++
T Consensus       334 ~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~---~~~~~~~~~~~a~~~~~~~~~~~  408 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED---ARTRHHVYVTAALMEYYCSKDKS  408 (530)
T ss_dssp             TTCHHHHHHHHHHHHH--SSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC---TTCCTHHHHHHHHHHHHHTCCHH
T ss_pred             cCCHHHHHHHHHHHhC--ccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---cCCchHHHHHHHHHHHHHcCChh
Confidence            9999999999999988  4454  257888888888999999999999999864   33 33334333322 34689999


Q ss_pred             HHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc----cHHHHHHHHhhhccCcchHHHHHH
Q 048799          242 QAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG----DYVLMYNILAGVWRYGDAERLRRV  316 (331)
Q Consensus       242 ~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~a~~~~~~  316 (331)
                      +|..+|+.+....| ++..|..++..+.+.|+.++|..+|+++.+..|.++.    .|...+......|+.+.+..+.++
T Consensus       409 ~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r  488 (530)
T 2ooe_A          409 VAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  488 (530)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999887744 6899999999999999999999999999997665544    677778888889999999999988


Q ss_pred             Hhhcc
Q 048799          317 VDERN  321 (331)
Q Consensus       317 ~~~~~  321 (331)
                      +.+.-
T Consensus       489 ~~~~~  493 (530)
T 2ooe_A          489 RFTAF  493 (530)
T ss_dssp             HHHHT
T ss_pred             HHHHC
Confidence            86643

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.78  E-value=2.4e-16  Score=135.51  Aligned_cols=300  Identities=9%  Similarity=-0.101  Sum_probs=220.9

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCC-----------CC-CchhHHHHHHHHHhcCChhHHHHHHHHHHhcc-----
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMP-----------CR-NVVSWTGIIDGYTRMNRSNGALALFRRMVACE-----   78 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----   78 (331)
                      ....|+.|..++...|++++|++.|++..           .| ...+|+.+..+|...|++++|...+++.....     
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            45689999999999999999999998753           12 34689999999999999999999998874321     


Q ss_pred             CCC-CchHHHHHHHHHHhh--cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHH---HhcCCHhHHHHHHHHhhhcCC-
Q 048799           79 YTE-PSEITILAVFPAIWQ--NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTY---AKCGCIFSALKLFEDISVERK-  151 (331)
Q Consensus        79 ~~~-~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~g~~~~A~~~~~~~~~~~~-  151 (331)
                      ... ....++..+..++..  .+++++|+..|+++++..+.  ++..+..+..++   ...++.++|++.++++....| 
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~--~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~  207 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK--NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD  207 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc
Confidence            111 224566666555544  45799999999999998654  666666666554   456788899999999887766 


Q ss_pred             cHHHHHHHHHHHH----ccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhH
Q 048799          152 NLVSWTSIISGFA----MHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHY  227 (331)
Q Consensus       152 ~~~~~~~l~~~~~----~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  227 (331)
                      +..++..+...+.    ..+++++|.+.+++..... +.+...+..+...|...|++++|...++++.+.  .+.+..++
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~  284 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLH  284 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHH
Confidence            4666666655544    3467889999999987753 346677888999999999999999999999875  23356677


Q ss_pred             HHHHHHHHhc-------------------CCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhh
Q 048799          228 GCLIDMLGRA-------------------GRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEME  287 (331)
Q Consensus       228 ~~l~~~~~~~-------------------g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  287 (331)
                      ..+...|...                   +..+.|...++.+... +.+...+..+...+...|++++|+..|+++++..
T Consensus       285 ~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~  364 (472)
T 4g1t_A          285 CQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKE  364 (472)
T ss_dssp             HHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcC
Confidence            7776665432                   3356777778777665 3345778889999999999999999999999877


Q ss_pred             cCCCc---cHHHHHH-HHhhhccCcchHHHHHHHhhc
Q 048799          288 RGYGG---DYVLMYN-ILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       288 ~~~~~---~~~~l~~-~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      |++..   .+..++. .+...|++++|+..+++..+.
T Consensus       365 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i  401 (472)
T 4g1t_A          365 LTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI  401 (472)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS
T ss_pred             CCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            65422   2334443 345678899999988877653

>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=99.77  E-value=6.9e-17  Score=127.02  Aligned_cols=200  Identities=9%  Similarity=-0.101  Sum_probs=178.3

Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNAC  198 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  198 (331)
                      ...+..++..+...|++++|...|+++....| +..++..+...+...|++++|++.|+++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            67888999999999999999999999987755 67889999999999999999999999998754 34677888899999


Q ss_pred             hccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHH
Q 048799          199 SHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMG  276 (331)
Q Consensus       199 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a  276 (331)
                      ...|++++|.++++++.+. +..| +...+..++..+...|++++|.+.++++... +.+...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQD-TLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTC-TTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhC-ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999999873 3445 5678888999999999999999999998876 34578899999999999999999


Q ss_pred             HHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          277 ERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ...++++.+..|++...+..++.++...|++++|.+.++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999999999999888889999999999999999999999998754

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.77  E-value=2.1e-19  Score=159.72  Aligned_cols=150  Identities=9%  Similarity=0.058  Sum_probs=121.0

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCC-------CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHH
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMP-------CRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITIL   88 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   88 (331)
                      -..+|++||++|++.|++++|.++|++|.       .||+.+||+||.+|++.|++++|.++|++| ...|+.||..||+
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM-~~~G~~PDvvTYn  204 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMV-KDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHH-HHTTCCCCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCcHHHHH
Confidence            34689999999999999999999997753       689999999999999999999999999999 8889999999999


Q ss_pred             HHHHHHhhcCch-hHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc---CCcHHHHHHHHHHHH
Q 048799           89 AVFPAIWQNGDV-RNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE---RKNLVSWTSIISGFA  164 (331)
Q Consensus        89 ~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~  164 (331)
                      +++.++++.|+. ++|.++|++|.+.|+.| |..+|+.++....+.+-++...++...+.-.   .|...+...|.+.|.
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~P-D~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s  283 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKL-QALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA  283 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCS-HHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHC
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCC-ChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHc
Confidence            999999999985 78999999999999999 9999999887666554333333222222111   112445556667777


Q ss_pred             ccC
Q 048799          165 MHG  167 (331)
Q Consensus       165 ~~~  167 (331)
                      +.+
T Consensus       284 ~d~  286 (1134)
T 3spa_A          284 KDG  286 (1134)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            655

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.77  E-value=3.1e-17  Score=128.18  Aligned_cols=200  Identities=9%  Similarity=-0.002  Sum_probs=161.8

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                      ....+..++..+...|++++|...|+++....| +...+..+...+...|++++|+..++++.+.. +.+...+..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            556777888999999999999999999988765 67889999999999999999999999998753 3467888889999


Q ss_pred             HhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHH
Q 048799          198 CSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMG  276 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a  276 (331)
                      +...|++++|...++++.+.  .+.+...+..++..+...|++++|...++++... +.+...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999875  2447788899999999999999999999998877 44678899999999999999999


Q ss_pred             HHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          277 ERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ...++++.+..|+++..+..++.++...|++++|...++++.+..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            999999999999988899999999999999999999999987754

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.76  E-value=9e-17  Score=135.67  Aligned_cols=272  Identities=10%  Similarity=0.039  Sum_probs=213.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHhhCC--CCC-c----hhHHHHHHHHHhcCChhHHHHHHHHHHhcc---C-CCCchH
Q 048799           17 LVTWNVMITGLVKWGELEYARSLFEEMP--CRN-V----VSWTGIIDGYTRMNRSNGALALFRRMVACE---Y-TEPSEI   85 (331)
Q Consensus        17 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~-~~~~~~   85 (331)
                      ...+..+...+...|++++|+..|+++.  .|+ .    ..|..+...+...|++++|...+++.+...   + .+....
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            3445567788999999999999999876  233 2    478889999999999999999999884421   1 122345


Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhc----CCCcchhHHHHHHHHHHHhcCC-----------------HhHHHHHHH
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKR----GFNAFHIHVSNCLIDTYAKCGC-----------------IFSALKLFE  144 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~-----------------~~~A~~~~~  144 (331)
                      ++..+...+...|++++|...++++.+.    +..+....++..+...|...|+                 +++|...++
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            7888889999999999999999988765    2223256688899999999999                 999999998


Q ss_pred             Hhhhc-----C-C-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccC-CCC----HHHHHHHHHHHhccCChHHHHHHHH
Q 048799          145 DISVE-----R-K-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVL-KPN----RVTFLSVLNACSHGGLVEEGLKFFD  212 (331)
Q Consensus       145 ~~~~~-----~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~  212 (331)
                      +....     . + ...++..+...+...|++++|+..+++...... .++    ...+..+...+...|++++|...++
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            87553     1 1 245788888999999999999999998876321 112    2367888999999999999999999


Q ss_pred             HHHHhcCCCC----cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC---Cc----cHHHHHHHHHHHhcCCchhHHHHHHH
Q 048799          213 KMVEECEVLP----DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE---IT----NVVVWRTLLGACSFHGNVEMGERVTR  281 (331)
Q Consensus       213 ~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~p----~~~~~~~l~~~~~~~g~~~~a~~~~~  281 (331)
                      ++.+...-..    ...++..+...|...|++++|...++++...   .+    ...++..+..+|...|++++|...++
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            9876411111    2567888899999999999999999988765   11    24578888999999999999999999


Q ss_pred             HHHHhhc
Q 048799          282 KILEMER  288 (331)
Q Consensus       282 ~~~~~~~  288 (331)
                      ++.++.+
T Consensus       368 ~al~~~~  374 (411)
T 4a1s_A          368 QHLQLAX  374 (411)
T ss_dssp             HHHHHCC
T ss_pred             HHHHHHh
Confidence            9998644

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.76  E-value=1.4e-17  Score=142.88  Aligned_cols=213  Identities=8%  Similarity=-0.091  Sum_probs=181.3

Q ss_pred             chhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCH-hHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHH
Q 048799           99 DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCI-FSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENF  176 (331)
Q Consensus        99 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  176 (331)
                      .++++.+.++.......  .+...+..+..++...|++ ++|+..|+++....| +..+|..+..+|...|++++|++.|
T Consensus        83 ~~~~al~~l~~~~~~~~--~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSAQ--VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTCC--CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCc--hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            35666677776665543  3778888899999999999 999999999987766 4788999999999999999999999


Q ss_pred             HHHHhccCCCCHHHHHHHHHHHhcc---------CChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhc--------CC
Q 048799          177 ERMQKVVLKPNRVTFLSVLNACSHG---------GLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRA--------GR  239 (331)
Q Consensus       177 ~~m~~~~~~p~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~  239 (331)
                      ++..+.  .|+...+..+...+...         |++++|...++++.+.  .+.+...+..+..+|...        |+
T Consensus       161 ~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          161 SGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccch
Confidence            998874  47778888889999998         9999999999999875  234678888999999888        99


Q ss_pred             HHHHHHHHhhcccCCc----cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHH
Q 048799          240 LEQAEKVASGIPSEIT----NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRR  315 (331)
Q Consensus       240 ~~~A~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  315 (331)
                      +++|.+.|+++....|    +...|..+..+|...|++++|.+.|+++.+.+|+++..+..+..++...|++++|...+.
T Consensus       237 ~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          237 SQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999888644    788999999999999999999999999999999998889999999999999998887554


Q ss_pred             HH
Q 048799          316 VV  317 (331)
Q Consensus       316 ~~  317 (331)
                      ++
T Consensus       317 ~~  318 (474)
T 4abn_A          317 KT  318 (474)
T ss_dssp             TC
T ss_pred             cc
Confidence            43

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.75  E-value=1.2e-16  Score=130.75  Aligned_cols=273  Identities=15%  Similarity=0.068  Sum_probs=209.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHhhCC--CCC-----chhHHHHHHHHHhcCChhHHHHHHHHHHhcc---CCCC-chH
Q 048799           17 LVTWNVMITGLVKWGELEYARSLFEEMP--CRN-----VVSWTGIIDGYTRMNRSNGALALFRRMVACE---YTEP-SEI   85 (331)
Q Consensus        17 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~   85 (331)
                      ...+......+...|++++|...|+++.  .|+     ...+..+...+...|++++|...+++.....   +..| ...
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            3445566788899999999999999876  233     3578889999999999999999999874321   1112 245


Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhcCC----CcchhHHHHHHHHHHHhcCC--------------------HhHHHH
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKRGF----NAFHIHVSNCLIDTYAKCGC--------------------IFSALK  141 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~--------------------~~~A~~  141 (331)
                      ++..+...+...|++++|...++++.+...    .+....++..+...+...|+                    +++|..
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            778888999999999999999998876422    11124478889999999999                    999999


Q ss_pred             HHHHhhhc------CC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccC-CCC----HHHHHHHHHHHhccCChHHHHH
Q 048799          142 LFEDISVE------RK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVL-KPN----RVTFLSVLNACSHGGLVEEGLK  209 (331)
Q Consensus       142 ~~~~~~~~------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~  209 (331)
                      .+++....      .+ ...++..+...+...|++++|+..+++...... .++    ..++..+...+...|++++|..
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            99887543      11 245688888999999999999999998865321 111    2377888889999999999999


Q ss_pred             HHHHHHHhcCCCCc----HhhHHHHHHHHHhcCCHHHHHHHHhhcccC---Cc----cHHHHHHHHHHHhcCCchhHHHH
Q 048799          210 FFDKMVEECEVLPD----IKHYGCLIDMLGRAGRLEQAEKVASGIPSE---IT----NVVVWRTLLGACSFHGNVEMGER  278 (331)
Q Consensus       210 ~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~p----~~~~~~~l~~~~~~~g~~~~a~~  278 (331)
                      .+++..+...-.++    ..++..+...+...|++++|...++++...   ..    ...++..+...+...|++++|..
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            99998764111111    557788889999999999999999988665   11    14577888999999999999999


Q ss_pred             HHHHHHHhhcC
Q 048799          279 VTRKILEMERG  289 (331)
Q Consensus       279 ~~~~~~~~~~~  289 (331)
                      .++++.+..+.
T Consensus       325 ~~~~a~~~~~~  335 (338)
T 3ro2_A          325 FAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHC---
T ss_pred             HHHHHHHHHHh
Confidence            99999986543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.75  E-value=4.9e-17  Score=136.08  Aligned_cols=292  Identities=7%  Similarity=-0.023  Sum_probs=210.9

Q ss_pred             HHHHcCCHHHHHHHHhhCCC--------CCchhHHHHHHH--HHhcCChhHHH-----------HHHHHHHhccCCCCch
Q 048799           26 GLVKWGELEYARSLFEEMPC--------RNVVSWTGIIDG--YTRMNRSNGAL-----------ALFRRMVACEYTEPSE   84 (331)
Q Consensus        26 ~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~l~~~--~~~~~~~~~a~-----------~~~~~~~~~~~~~~~~   84 (331)
                      .+.+.+++++|..+++++.+        ++...|..++..  ....++++.+.           +.++.+ ....  ++.
T Consensus        21 ~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i-~~~~--~~~   97 (383)
T 3ulq_A           21 MYIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEI-DKKQ--ARL   97 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHH-HHHT--HHH
T ss_pred             HHHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHH-HhcC--CCc
Confidence            35789999999999988741        233334444332  22233444444           666666 3221  111


Q ss_pred             HH------HHHHHHHHhhcCchhHHHHHHhhhhhc----CCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc---CC
Q 048799           85 IT------ILAVFPAIWQNGDVRNCQLIHGYGEKR----GFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE---RK  151 (331)
Q Consensus        85 ~~------~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~  151 (331)
                      ..      +......+...|++++|...++++.+.    +..+....++..++.+|...|++++|...++++...   .+
T Consensus        98 ~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~  177 (383)
T 3ulq_A           98 TGLLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHE  177 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCS
T ss_pred             hhHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCc
Confidence            22      223566778999999999999998875    222224578889999999999999999999988764   11


Q ss_pred             -----cHHHHHHHHHHHHccCChHHHHHHHHHHHhccC-CCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHhc---
Q 048799          152 -----NLVSWTSIISGFAMHGMGKEAVENFERMQKVVL-KPN----RVTFLSVLNACSHGGLVEEGLKFFDKMVEEC---  218 (331)
Q Consensus       152 -----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---  218 (331)
                           ...+++.+...|...|++++|+..|++..+... .++    ..++..+...|...|++++|...+++..+..   
T Consensus       178 ~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~  257 (383)
T 3ulq_A          178 AYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEES  257 (383)
T ss_dssp             TTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhh
Confidence                 245788889999999999999999998875321 111    2478889999999999999999999988721   


Q ss_pred             CC-CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-----Ccc-HHHHHHHHHHHhcCCc---hhHHHHHHHHHHHhhc
Q 048799          219 EV-LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-----ITN-VVVWRTLLGACSFHGN---VEMGERVTRKILEMER  288 (331)
Q Consensus       219 ~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~-~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~  288 (331)
                      +. +....++..+...|.+.|++++|...++++...     .|. ...+..+...+...|+   +++|..++++.. ..|
T Consensus       258 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~-~~~  336 (383)
T 3ulq_A          258 NILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKM-LYA  336 (383)
T ss_dssp             TCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTT-CHH
T ss_pred             ccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCc-CHH
Confidence            12 334677889999999999999999999988765     122 2335667788889998   677777776652 234


Q ss_pred             CCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          289 GYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       289 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      .....+..++..|...|++++|...+++..+..
T Consensus       337 ~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          337 DLEDFAIDVAKYYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            444677889999999999999999999887643

>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=99.74  E-value=3.6e-15  Score=137.03  Aligned_cols=240  Identities=13%  Similarity=0.066  Sum_probs=169.7

Q ss_pred             HcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHh
Q 048799           29 KWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHG  108 (331)
Q Consensus        29 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  108 (331)
                      ..|++++|.++.++..  +..+|..+..++...|++++|++.|.+.       .|...|..++.++.+.|++++|.+.+.
T Consensus      1088 ~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYiKA-------dD~say~eVa~~~~~lGkyEEAIeyL~ 1158 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQ 1158 (1630)
T ss_pred             HHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHHhc-------CChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            5566666666666553  3456777777777777777777777554       455667777777777777777777777


Q ss_pred             hhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCH
Q 048799          109 YGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNR  188 (331)
Q Consensus       109 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  188 (331)
                      ...+...   ++.+.+.++.+|++.+++++...+.     ..++...|..+...|...|++++|..+|...         
T Consensus      1159 mArk~~~---e~~Idt~LafaYAKl~rleele~fI-----~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA--------- 1221 (1630)
T 1xi4_A         1159 MARKKAR---ESYVETELIFALAKTNRLAELEEFI-----NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV--------- 1221 (1630)
T ss_pred             HHHhhcc---cccccHHHHHHHHhhcCHHHHHHHH-----hCCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------
Confidence            7666542   2223334777777777777533332     2445556666777777788888888887764         


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHh
Q 048799          189 VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACS  268 (331)
Q Consensus       189 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~  268 (331)
                      ..|..+..++++.|+++.|.+.+++..       +..+|..+..+|...|++..|......+..   ++..+..++..|.
T Consensus      1222 ~ny~rLA~tLvkLge~q~AIEaarKA~-------n~~aWkev~~acve~~Ef~LA~~cgl~Iiv---~~deLeeli~yYe 1291 (1630)
T 1xi4_A         1222 SNFGRLASTLVHLGEYQAAVDGARKAN-------STRTWKEVCFACVDGKEFRLAQMCGLHIVV---HADELEELINYYQ 1291 (1630)
T ss_pred             hHHHHHHHHHHHhCCHHHHHHHHHHhC-------CHHHHHHHHHHHhhhhHHHHHHHHHHhhhc---CHHHHHHHHHHHH
Confidence            257777777888888888877777652       456777777777778888888777665332   5666778888899


Q ss_pred             cCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhh
Q 048799          269 FHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGV  304 (331)
Q Consensus       269 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  304 (331)
                      +.|.+++|+.+++..+.++|.+...|..++.+|.+.
T Consensus      1292 ~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy 1327 (1630)
T 1xi4_A         1292 DRGYFEELITMLEAALGLERAHMGMFTELAILYSKF 1327 (1630)
T ss_pred             HcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhC
Confidence            999999999999999988888878887788777764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.73  E-value=3.8e-16  Score=130.65  Aligned_cols=235  Identities=7%  Similarity=-0.075  Sum_probs=184.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhccCCCCc----hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCC-----CcchhHHHH
Q 048799           54 IIDGYTRMNRSNGALALFRRMVACEYTEPS----EITILAVFPAIWQNGDVRNCQLIHGYGEKRGF-----NAFHIHVSN  124 (331)
Q Consensus        54 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~  124 (331)
                      ....+...|++++|+..|++........++    ..++..+..++...|++++|...+.++.+...     .+....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            566788999999999999998543221232    45788899999999999999999999876421     222356788


Q ss_pred             HHHHHHHhcCCHhHHHHHHHHhhhcC---C----cHHHHHHHHHHHHccCChHHHHHHHHHHHhc----cC-CCCHHHHH
Q 048799          125 CLIDTYAKCGCIFSALKLFEDISVER---K----NLVSWTSIISGFAMHGMGKEAVENFERMQKV----VL-KPNRVTFL  192 (331)
Q Consensus       125 ~l~~~~~~~g~~~~A~~~~~~~~~~~---~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~~~~~  192 (331)
                      .++.+|...|++++|...|+++....   +    ...++..+...|...|++++|++.|++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            89999999999999999999887552   1    1247888999999999999999999998762    23 33467788


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhc---CCCCcHhhHHHHHHHHHhcCC---HHHHHHHHhhcccCCccHHHHHHHHHH
Q 048799          193 SVLNACSHGGLVEEGLKFFDKMVEEC---EVLPDIKHYGCLIDMLGRAGR---LEQAEKVASGIPSEITNVVVWRTLLGA  266 (331)
Q Consensus       193 ~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~l~~~  266 (331)
                      .+...+...|++++|...+++..+..   +.+.....+..+...+...|+   +++|..++++..........+..+...
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  348 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKY  348 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            99999999999999999999987641   111123345677888888999   899999999885443345678889999


Q ss_pred             HhcCCchhHHHHHHHHHHHhhc
Q 048799          267 CSFHGNVEMGERVTRKILEMER  288 (331)
Q Consensus       267 ~~~~g~~~~a~~~~~~~~~~~~  288 (331)
                      |...|++++|...++++.+...
T Consensus       349 y~~~g~~~~A~~~~~~al~~~~  370 (383)
T 3ulq_A          349 YHERKNFQKASAYFLKVEQVRQ  370 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999998543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.72  E-value=1.4e-14  Score=117.36  Aligned_cols=222  Identities=8%  Similarity=-0.029  Sum_probs=169.4

Q ss_pred             hHHHHHHHHHHhccCCCCchHHHHHHHHHHh-------hcCch-------hHHHHHHhhhhh-cCCCcchhHHHHHHHHH
Q 048799           65 NGALALFRRMVACEYTEPSEITILAVFPAIW-------QNGDV-------RNCQLIHGYGEK-RGFNAFHIHVSNCLIDT  129 (331)
Q Consensus        65 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~-~~~~~~~~~~~~~l~~~  129 (331)
                      ++|..+|++++...  +.++..|..++..+.       ..|++       ++|..+|+++++ ..+.  +..+|..++..
T Consensus        33 ~~a~~~~~~al~~~--p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~--~~~~~~~~~~~  108 (308)
T 2ond_A           33 KRVMFAYEQCLLVL--GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKK--NMLLYFAYADY  108 (308)
T ss_dssp             HHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTT--CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcc--cHHHHHHHHHH
Confidence            57778888875433  345566766666654       34775       889999998888 4433  67788888889


Q ss_pred             HHhcCCHhHHHHHHHHhhhcCCc-HH-HHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHH-hccCChHH
Q 048799          130 YAKCGCIFSALKLFEDISVERKN-LV-SWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNAC-SHGGLVEE  206 (331)
Q Consensus       130 ~~~~g~~~~A~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~-~~~~~~~~  206 (331)
                      +.+.|++++|..+|+++....|+ .. .|..++..+.+.|++++|..+|++..+.. +++...|....... ...|+.++
T Consensus       109 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          109 EESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             HHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHH
Confidence            99999999999999998877664 43 78888888888899999999999888753 23344444333332 23689999


Q ss_pred             HHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC---Cc--cHHHHHHHHHHHhcCCchhHHHHHHH
Q 048799          207 GLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE---IT--NVVVWRTLLGACSFHGNVEMGERVTR  281 (331)
Q Consensus       207 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~p--~~~~~~~l~~~~~~~g~~~~a~~~~~  281 (331)
                      |..+|+++.+.  .+.+...|..++..+.+.|++++|..+|+++...   .|  ....|..++..+.+.|+.+.|..+++
T Consensus       188 A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~  265 (308)
T 2ond_A          188 AFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEK  265 (308)
T ss_dssp             HHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999998875  2346788888889899999999999999998874   33  36788888888888999999999999


Q ss_pred             HHHHhhcCCCcc
Q 048799          282 KILEMERGYGGD  293 (331)
Q Consensus       282 ~~~~~~~~~~~~  293 (331)
                      ++.+..|++...
T Consensus       266 ~a~~~~p~~~~~  277 (308)
T 2ond_A          266 RRFTAFREEYEG  277 (308)
T ss_dssp             HHHHHTTTTTSS
T ss_pred             HHHHHccccccc
Confidence            999988876544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.72  E-value=1.3e-15  Score=113.82  Aligned_cols=169  Identities=11%  Similarity=0.047  Sum_probs=119.1

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                      +..+|..++..|...|++++|+..|+++.+..| +..+|..+..+|.+.|++++|+..+.+..... +.+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            556677777777777777777777777776655 46677777777777777777777777766543 2344556666666


Q ss_pred             HhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHH
Q 048799          198 CSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMG  276 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a  276 (331)
                      +...++++.|...+.+..+.  .+.+...+..+...|.+.|++++|.+.|+++... +.+..+|..+..+|.+.|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            77777777777777777654  2335666777777777777777777777777665 33567777777777777777777


Q ss_pred             HHHHHHHHHhhcCC
Q 048799          277 ERVTRKILEMERGY  290 (331)
Q Consensus       277 ~~~~~~~~~~~~~~  290 (331)
                      ++.|+++++.+|++
T Consensus       161 ~~~~~~al~~~p~~  174 (184)
T 3vtx_A          161 VKYFKKALEKEEKK  174 (184)
T ss_dssp             HHHHHHHHHTTHHH
T ss_pred             HHHHHHHHhCCccC
Confidence            77777777777654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.72  E-value=8.8e-17  Score=130.29  Aligned_cols=168  Identities=11%  Similarity=0.027  Sum_probs=100.1

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhcc------CCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhc------CCC
Q 048799           49 VSWTGIIDGYTRMNRSNGALALFRRMVACE------YTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKR------GFN  116 (331)
Q Consensus        49 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~  116 (331)
                      .++..+...+...|++++|...|+++....      ..+....++..+..++...|++++|...++++++.      +..
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            456667777777777777777777763310      11223445666666667777777777777766654      222


Q ss_pred             cchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC--------C-cHHHHHHHHHHHHccCChHHHHHHHHHHHhc-----
Q 048799          117 AFHIHVSNCLIDTYAKCGCIFSALKLFEDISVER--------K-NLVSWTSIISGFAMHGMGKEAVENFERMQKV-----  182 (331)
Q Consensus       117 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-----  182 (331)
                      +....++..+...+...|++++|...|+++....        | ...++..+...+...|++++|++.|+++...     
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            3245566666667777777777777666665431        2 2345556666666666677776666666543     


Q ss_pred             -cCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 048799          183 -VLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       183 -~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  216 (331)
                       +..| ...++..+...+...|++++|...++++.+
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             1122 223455566666666666666666666654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.72  E-value=1.5e-16  Score=128.95  Aligned_cols=252  Identities=11%  Similarity=0.007  Sum_probs=164.6

Q ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHhhCCC--------C---CchhHHHHHHHHHhcCChhHHHHHHHHHHhcc-----C
Q 048799           16 NLVTWNVMITGLVKWGELEYARSLFEEMPC--------R---NVVSWTGIIDGYTRMNRSNGALALFRRMVACE-----Y   79 (331)
Q Consensus        16 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~   79 (331)
                      +..++..+...+...|++++|..+|+++.+        .   ...++..+...+...|++++|...+++++...     +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            567888899999999999999999988753        1   23467888889999999999999999985431     1


Q ss_pred             -CCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhc------CCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc---
Q 048799           80 -TEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKR------GFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE---  149 (331)
Q Consensus        80 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---  149 (331)
                       .+....++..+...+...|++++|...++++.+.      +..+....++..+...+...|++++|...|+++...   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence             2233567888888999999999999999998875      333435677888999999999999999999988764   


Q ss_pred             -----CC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc
Q 048799          150 -----RK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD  223 (331)
Q Consensus       150 -----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  223 (331)
                           .| ...++..+...|...|++++|+..++++.+..  |... +..+-   ......   .             ..
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--~~~~-~~~~~---~~~~~~---~-------------~~  243 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRA--HERE-FGSVD---DENKPI---W-------------MH  243 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HHHH-HC---------CCH---H-------------HH
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--HHhc-CCCCC---cchHHH---H-------------HH
Confidence                 33 34578888899999999999999999887632  1100 00000   000000   0             01


Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          224 IKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      ...+..+...+...+.+.+|...+.......| ...++..+..+|...|++++|.+.++++.++.|.
T Consensus       244 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          244 AEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             HHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            11112222233344455555555555554422 3466777777777777777777777777776553

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.71  E-value=1.1e-14  Score=118.08  Aligned_cols=216  Identities=8%  Similarity=-0.049  Sum_probs=178.2

Q ss_pred             hHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh-------cCCH-------hHHHHHHHHhhh-cCC-cHHHHHHHHHHHH
Q 048799          101 RNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK-------CGCI-------FSALKLFEDISV-ERK-NLVSWTSIISGFA  164 (331)
Q Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~-------~~A~~~~~~~~~-~~~-~~~~~~~l~~~~~  164 (331)
                      ++|..+|+++++..+.  ++.+|..++..+..       .|++       ++|..+|+++.. ..| +...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~p~--~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGH--HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC--CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            6788899999987443  78888888888764       5886       999999999998 466 5678999999999


Q ss_pred             ccCChHHHHHHHHHHHhccCCCC-HH-HHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHH-hcCCHH
Q 048799          165 MHGMGKEAVENFERMQKVVLKPN-RV-TFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLG-RAGRLE  241 (331)
Q Consensus       165 ~~~~~~~a~~~~~~m~~~~~~p~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~  241 (331)
                      +.|++++|.++|+++.+  ..|+ .. .|..++..+.+.|++++|..+|+++.+.  .+++...|...+.... ..|+++
T Consensus       111 ~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~  186 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKS  186 (308)
T ss_dssp             HTTCHHHHHHHHHHHHT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHH
T ss_pred             hcCCHHHHHHHHHHHHh--ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHH
Confidence            99999999999999988  4454 33 7888999999999999999999999864  2334555554443322 379999


Q ss_pred             HHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHh---hcC-CCccHHHHHHHHhhhccCcchHHHHHH
Q 048799          242 QAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEM---ERG-YGGDYVLMYNILAGVWRYGDAERLRRV  316 (331)
Q Consensus       242 ~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~  316 (331)
                      +|.++|+++... +.+...|..++..+.+.|++++|..+|+++++.   .|+ ....|..++..+.+.|+.++|..++++
T Consensus       187 ~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          187 VAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999877 446889999999999999999999999999985   443 556788889999999999999999999


Q ss_pred             Hhhccc
Q 048799          317 VDERNA  322 (331)
Q Consensus       317 ~~~~~~  322 (331)
                      +.+...
T Consensus       267 a~~~~p  272 (308)
T 2ond_A          267 RFTAFR  272 (308)
T ss_dssp             HHHHTT
T ss_pred             HHHHcc
Confidence            887554

>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=99.70  E-value=2.2e-14  Score=131.97  Aligned_cols=277  Identities=9%  Similarity=0.055  Sum_probs=217.0

Q ss_pred             ccchhHHhhhcCCchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCC
Q 048799            2 LKDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTE   81 (331)
Q Consensus         2 ~~~A~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   81 (331)
                      +++|.++.+++.  +..+|..+..++...|++++|++.|.+.  .|...|..++.++.+.|++++|.+.|..... ..  
T Consensus      1092 ldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk-~~-- 1164 (1630)
T 1xi4_A         1092 LDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARK-KA-- 1164 (1630)
T ss_pred             HHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHh-hc--
Confidence            455666666554  4567889999999999999999999775  6778889999999999999999999998733 32  


Q ss_pred             CchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHH
Q 048799           82 PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIIS  161 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~  161 (331)
                      +++.....++.+|++.+++++...+.    +   .+ +...+..++..|...|++++|..+|..+       ..|..+..
T Consensus      1165 ~e~~Idt~LafaYAKl~rleele~fI----~---~~-n~ad~~~iGd~le~eg~YeeA~~~Y~kA-------~ny~rLA~ 1229 (1630)
T 1xi4_A         1165 RESYVETELIFALAKTNRLAELEEFI----N---GP-NNAHIQQVGDRCYDEKMYDAAKLLYNNV-------SNFGRLAS 1229 (1630)
T ss_pred             ccccccHHHHHHHHhhcCHHHHHHHH----h---CC-CHHHHHHHHHHHHhcCCHHHHHHHHHhh-------hHHHHHHH
Confidence            33333335888999999988644443    1   22 4456667999999999999999999986       48999999


Q ss_pred             HHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHH
Q 048799          162 GFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLE  241 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  241 (331)
                      .|.+.|++++|++.+++.      .+..+|..+..+|...|++..|.......      ..+...+..++..|.+.|.++
T Consensus      1230 tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~I------iv~~deLeeli~yYe~~G~fe 1297 (1630)
T 1xi4_A         1230 TLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI------VVHADELEELINYYQDRGYFE 1297 (1630)
T ss_pred             HHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhh------hcCHHHHHHHHHHHHHcCCHH
Confidence            999999999999999876      35688998999999999999998766543      235667778999999999999


Q ss_pred             HHHHHHhhcccC-CccHHHHHHHHHHHhcC--CchhHHHHHHHHHHHhhc-----CCCccHHHHHHHHhhhccCcchHH
Q 048799          242 QAEKVASGIPSE-ITNVVVWRTLLGACSFH--GNVEMGERVTRKILEMER-----GYGGDYVLMYNILAGVWRYGDAER  312 (331)
Q Consensus       242 ~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~--g~~~~a~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~a~~  312 (331)
                      +|..+++..... +-+...|.-+...+++.  ++..++.++|..-....|     .....|..+...|.+.|+++.|..
T Consensus      1298 EAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1298 ELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             HHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            999999988776 33456676677666653  455556666655444333     455778999999999999999874

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.70  E-value=2.1e-15  Score=112.64  Aligned_cols=168  Identities=13%  Similarity=0.043  Sum_probs=149.9

Q ss_pred             CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHH
Q 048799          151 KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCL  230 (331)
Q Consensus       151 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  230 (331)
                      .++..|..+...|...|++++|++.|++..+.. +-+...+..+..++...|++++|...+..+...  .+.+...+..+
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~   79 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYIL   79 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHH
Confidence            457789999999999999999999999998854 236778889999999999999999999999875  33467778888


Q ss_pred             HHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcc
Q 048799          231 IDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGD  309 (331)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  309 (331)
                      ...+...++++.|...+.++... +.+...+..+..++...|++++|++.|+++.+.+|.++..+..++.+|.+.|++++
T Consensus        80 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           80 GSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            88999999999999999998877 44678899999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhhcc
Q 048799          310 AERLRRVVDERN  321 (331)
Q Consensus       310 a~~~~~~~~~~~  321 (331)
                      |.+.+++..+..
T Consensus       160 A~~~~~~al~~~  171 (184)
T 3vtx_A          160 AVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCC
Confidence            999999987754

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.69  E-value=9.5e-15  Score=124.60  Aligned_cols=190  Identities=13%  Similarity=-0.030  Sum_probs=143.8

Q ss_pred             hhHHHHHHHHHHHhcC---CHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHcc----CChHHHHHHHHHHHhccCCCCHHH
Q 048799          119 HIHVSNCLIDTYAKCG---CIFSALKLFEDISVERK-NLVSWTSIISGFAMH----GMGKEAVENFERMQKVVLKPNRVT  190 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~----~~~~~a~~~~~~m~~~~~~p~~~~  190 (331)
                      ++..+..|...|...|   +.++|+..|++.....+ +...+..+...|...    +++++|+..|++.. .|   +...
T Consensus       175 ~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a  250 (452)
T 3e4b_A          175 TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPAS  250 (452)
T ss_dssp             CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHH
T ss_pred             CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHH
Confidence            3347778888888888   89999999998877644 555556777777655    68999999999887 33   3444


Q ss_pred             HHHHHHH-H--hccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC-----CHHHHHHHHhhcccCCccHHHHHH
Q 048799          191 FLSVLNA-C--SHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG-----RLEQAEKVASGIPSEITNVVVWRT  262 (331)
Q Consensus       191 ~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~A~~~~~~~~~~~p~~~~~~~  262 (331)
                      +..|... +  ...+++++|..+|++..+. |   +...+..|...|. .|     ++++|.++|+++.  ..++..+..
T Consensus       251 ~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa--~g~~~A~~~  323 (452)
T 3e4b_A          251 WVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV--GREVAADYY  323 (452)
T ss_dssp             HHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT--TTCHHHHHH
T ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh--CCCHHHHHH
Confidence            5555555 3  4588999999999998876 4   6667777777776 55     9999999999988  357777888


Q ss_pred             HHHHHhc----CCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh----hccCcchHHHHHHHhhcc
Q 048799          263 LLGACSF----HGNVEMGERVTRKILEMERGYGGDYVLMYNILAG----VWRYGDAERLRRVVDERN  321 (331)
Q Consensus       263 l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  321 (331)
                      |...|..    ..++++|...|+++.+  ++++.....++.+|..    ..+..+|...++...+.|
T Consensus       324 Lg~~y~~G~g~~~d~~~A~~~~~~Aa~--~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g  388 (452)
T 3e4b_A          324 LGQIYRRGYLGKVYPQKALDHLLTAAR--NGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD  388 (452)
T ss_dssp             HHHHHHTTTTSSCCHHHHHHHHHHHHT--TTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCCCCcCHHHHHHHHHHHHh--hChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC
Confidence            8877765    3488999999998875  5667888888888864    346777888887776655

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.69  E-value=3.5e-15  Score=124.54  Aligned_cols=305  Identities=9%  Similarity=-0.045  Sum_probs=212.1

Q ss_pred             CchHHHHHHHHHHH--HHcCCHHHHHHHHhhCCC--------CCchhHHHHHHH--HHhcCChhHHH---------HHHH
Q 048799           14 ERNLVTWNVMITGL--VKWGELEYARSLFEEMPC--------RNVVSWTGIIDG--YTRMNRSNGAL---------ALFR   72 (331)
Q Consensus        14 ~p~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~--------~~~~~~~~l~~~--~~~~~~~~~a~---------~~~~   72 (331)
                      -|+..+-+.|-.-|  .+.+++++|..+++++.+        .+...|..|+..  ..-.+....+.         +.++
T Consensus         7 ~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~   86 (378)
T 3q15_A            7 IPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLE   86 (378)
T ss_dssp             BCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHH
Confidence            35555656666555  889999999999987641        233344444432  11223333333         6666


Q ss_pred             HHHhccCCCCch----HHHHHHHHHHhhcCchhHHHHHHhhhhhcC----CCcchhHHHHHHHHHHHhcCCHhHHHHHHH
Q 048799           73 RMVACEYTEPSE----ITILAVFPAIWQNGDVRNCQLIHGYGEKRG----FNAFHIHVSNCLIDTYAKCGCIFSALKLFE  144 (331)
Q Consensus        73 ~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  144 (331)
                      .+ .....+.+.    ..+......+...|++++|...++++.+..    ..+....++..++.+|...|+++.|...++
T Consensus        87 ~i-~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~  165 (378)
T 3q15_A           87 TI-ETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHIL  165 (378)
T ss_dssp             HH-HGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HH-hccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            65 322111111    123345556778999999999999987652    222245688889999999999999999999


Q ss_pred             Hhhhc---CC-----cHHHHHHHHHHHHccCChHHHHHHHHHHHhcc--CC---CCHHHHHHHHHHHhccCChHHHHHHH
Q 048799          145 DISVE---RK-----NLVSWTSIISGFAMHGMGKEAVENFERMQKVV--LK---PNRVTFLSVLNACSHGGLVEEGLKFF  211 (331)
Q Consensus       145 ~~~~~---~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~---p~~~~~~~l~~~~~~~~~~~~a~~~~  211 (331)
                      ++...   .+     ...+++.+...|...|++++|++.|++..+..  ..   ....++..+..+|...|++++|...+
T Consensus       166 ~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~  245 (378)
T 3q15_A          166 QALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHF  245 (378)
T ss_dssp             HHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            88654   11     24578889999999999999999999887631  11   12356788899999999999999999


Q ss_pred             HHHHHhc---CCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-----Cc-cHHHHHHHHHHHhcCCc---hhHHHHH
Q 048799          212 DKMVEEC---EVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-----IT-NVVVWRTLLGACSFHGN---VEMGERV  279 (331)
Q Consensus       212 ~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p-~~~~~~~l~~~~~~~g~---~~~a~~~  279 (331)
                      ++..+..   +.+....++..+...+.+.|++++|...++++...     .| ....+..+...+...|+   +.+|+..
T Consensus       246 ~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~  325 (378)
T 3q15_A          246 QKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSY  325 (378)
T ss_dssp             HHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            9988621   22224677888999999999999999999987654     22 23456666677778888   6777777


Q ss_pred             HHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          280 TRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       280 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      +++.. ..|.....+..++..|...|++++|...+++..+.
T Consensus       326 ~~~~~-~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          326 FEKKN-LHAYIEACARSAAAVFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHTT-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCC-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            66532 22333456778999999999999999999887653

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.67  E-value=4.9e-15  Score=127.16  Aligned_cols=214  Identities=11%  Similarity=-0.030  Sum_probs=180.5

Q ss_pred             ChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCch-hHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHH
Q 048799           63 RSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDV-RNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALK  141 (331)
Q Consensus        63 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  141 (331)
                      .+++++..+++. ... .+.+...+..+..++...|++ ++|+..|+++++..+.  +..++..+..+|...|++++|..
T Consensus        83 ~~~~al~~l~~~-~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~--~~~a~~~lg~~~~~~g~~~~A~~  158 (474)
T 4abn_A           83 EMEKTLQQMEEV-LGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE--LVEAWNQLGEVYWKKGDVTSAHT  158 (474)
T ss_dssp             HHHHHHHHHHHH-HTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHH-hcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC--CHHHHHHHHHHHHHcCCHHHHHH
Confidence            356677777766 322 235677888999999999999 9999999999998654  78899999999999999999999


Q ss_pred             HHHHhhhcCCcHHHHHHHHHHHHcc---------CChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhcc--------CCh
Q 048799          142 LFEDISVERKNLVSWTSIISGFAMH---------GMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHG--------GLV  204 (331)
Q Consensus       142 ~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~--------~~~  204 (331)
                      .|+++....|+..++..+...+...         |++++|++.|++..+.. +.+...+..+..+|...        |++
T Consensus       159 ~~~~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          159 CFSGALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            9999998888888899999999999         99999999999998853 33577888899999888        999


Q ss_pred             HHHHHHHHHHHHhcCCC---CcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHH
Q 048799          205 EEGLKFFDKMVEECEVL---PDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVT  280 (331)
Q Consensus       205 ~~a~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~  280 (331)
                      ++|...|+++.+. . +   .+...+..+..+|...|++++|.+.|+++....| +...+..+..++...|++++|.+.+
T Consensus       238 ~~A~~~~~~al~~-~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          238 QQALSAYAQAEKV-D-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHH-C-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh-C-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999875 2 2   3778899999999999999999999999887734 5678888889999999998888766


Q ss_pred             HHH
Q 048799          281 RKI  283 (331)
Q Consensus       281 ~~~  283 (331)
                      .++
T Consensus       316 ~~~  318 (474)
T 4abn_A          316 GKT  318 (474)
T ss_dssp             TTC
T ss_pred             ccc
Confidence            544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.67  E-value=1.2e-15  Score=130.25  Aligned_cols=300  Identities=10%  Similarity=-0.019  Sum_probs=193.9

Q ss_pred             ccchhHHhhhcCC-chHHHHHHHHHHHHHcCCH---HHHHHHHhhCCCCCchhHHHHHHHHHhcC-----ChhHHHHHHH
Q 048799            2 LKDGSKLFDELPE-RNLVTWNVMITGLVKWGEL---EYARSLFEEMPCRNVVSWTGIIDGYTRMN-----RSNGALALFR   72 (331)
Q Consensus         2 ~~~A~~~~~~~~~-p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~   72 (331)
                      +++|.++|++..+ .+..++..|...|...|+.   ++|..+|++..+.++..+..|...+...+     ++++|+..|+
T Consensus        19 ~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~   98 (452)
T 3e4b_A           19 TVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGATEAEHHEAESLLK   98 (452)
T ss_dssp             HHHHHHHHHHHHHHTCCTGGGTCC----------------------------CHHHHHHHHHTC--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCcCHHHHHHHHH
Confidence            4567777776653 2444555666666677777   88888888877666677777777555554     6788888888


Q ss_pred             HHHhccCCCCchHHHHHHHHHHhhcCchh---HHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHH----HHHH
Q 048799           73 RMVACEYTEPSEITILAVFPAIWQNGDVR---NCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALK----LFED  145 (331)
Q Consensus        73 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~----~~~~  145 (331)
                      +... .+. ++  .+..+...|...+..+   .+.+.+......|    ++.....|...|...+.++++..    +++.
T Consensus        99 ~Aa~-~g~-~~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g----~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~  170 (452)
T 3e4b_A           99 KAFA-NGE-GN--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG----YPEAGLAQVLLYRTQGTYDQHLDDVERICKA  170 (452)
T ss_dssp             HHHH-TTC-SS--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT----CTTHHHHHHHHHHHHTCGGGGHHHHHHHHHH
T ss_pred             HHHH-CCC-HH--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCcccCHHHHHHHHHH
Confidence            8743 332 22  5556666666555433   3444444444444    33456677888888885555444    4444


Q ss_pred             hhhcCCcHHHHHHHHHHHHccC---ChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhcc----CChHHHHHHHHHHHHhc
Q 048799          146 ISVERKNLVSWTSIISGFAMHG---MGKEAVENFERMQKVVLKPNRVTFLSVLNACSHG----GLVEEGLKFFDKMVEEC  218 (331)
Q Consensus       146 ~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~  218 (331)
                      .....|  .++..+...|...|   +.++|++.|++..+.|. ++...+..+...|...    +++++|..+|++.. . 
T Consensus       171 a~~~~~--~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~-  245 (452)
T 3e4b_A          171 ALNTTD--ICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P-  245 (452)
T ss_dssp             HTTTCT--THHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G-
T ss_pred             HHcCCH--HHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C-
Confidence            433333  48888888898899   99999999999988763 4555555677777655    78999999999986 3 


Q ss_pred             CCCCcHhhHHHHHHH-H--HhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCC-----chhHHHHHHHHHHHhhcCC
Q 048799          219 EVLPDIKHYGCLIDM-L--GRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHG-----NVEMGERVTRKILEMERGY  290 (331)
Q Consensus       219 ~~~~~~~~~~~l~~~-~--~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g-----~~~~a~~~~~~~~~~~~~~  290 (331)
                      +   +...+..+... +  ...|++++|.++|++..+. .++..+..+...|. .|     ++++|.+.|+++.   |++
T Consensus       246 g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa---~g~  317 (452)
T 3e4b_A          246 G---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-DQPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV---GRE  317 (452)
T ss_dssp             G---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT---TTC
T ss_pred             C---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh---CCC
Confidence            3   55566677766 4  4689999999999998765 46777778888877 45     9999999999998   888


Q ss_pred             CccHHHHHHHHhh----hccCcchHHHHHHHhhccc
Q 048799          291 GGDYVLMYNILAG----VWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       291 ~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  322 (331)
                      +..+..++.+|..    ..+.++|...+++..+.|.
T Consensus       318 ~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          318 VAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             HHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            8899999988876    3388889999998877653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.66  E-value=3.2e-13  Score=112.45  Aligned_cols=292  Identities=10%  Similarity=-0.035  Sum_probs=180.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhCC----CCCc----hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCch----HHH
Q 048799           20 WNVMITGLVKWGELEYARSLFEEMP----CRNV----VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSE----ITI   87 (331)
Q Consensus        20 ~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~   87 (331)
                      .......+...|++++|...+++..    ..+.    .+++.+...+...|++++|...+++........++.    .++
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            3445556677888888888877643    1121    145666677778888888888888774422212222    234


Q ss_pred             HHHHHHHhhcCchhHHHHHHhhhhhcC----CC--cchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC------cHHH
Q 048799           88 LAVFPAIWQNGDVRNCQLIHGYGEKRG----FN--AFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK------NLVS  155 (331)
Q Consensus        88 ~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~------~~~~  155 (331)
                      ..+...+...|++++|...+++..+..    ..  |.....+..+...+...|++++|...+++.....+      ...+
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            556677778888888888888776532    11  21344566677778888888888888887765422      2345


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhccCCCC--HHHHH----HHHHHHhccCChHHHHHHHHHHHHhcCCCC---cHhh
Q 048799          156 WTSIISGFAMHGMGKEAVENFERMQKVVLKPN--RVTFL----SVLNACSHGGLVEEGLKFFDKMVEECEVLP---DIKH  226 (331)
Q Consensus       156 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~  226 (331)
                      +..+...+...|++++|...+++.......++  .....    ..+..+...|++++|...+++.... ...+   ....
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~-~~~~~~~~~~~  255 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKP-EFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCC-CCTTCGGGHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCC-CCCcchhhHHH
Confidence            66677777888888888888887765322211  11111    1223366778888888888776543 2111   1224


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccC---Cc---cH-HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHH
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSE---IT---NV-VVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYN  299 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~---~p---~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  299 (331)
                      +..+...+...|++++|...++.+...   .+   +. ..+..+..++...|+.++|...++++.+..+.....     .
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~~g~~-----~  330 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFI-----S  330 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCC-----H
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccccHH-----H
Confidence            556677777888888888888776544   11   11 355556677777888888888888888766654221     2


Q ss_pred             HHhhhccCcchHHHHHHHhh
Q 048799          300 ILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       300 ~~~~~g~~~~a~~~~~~~~~  319 (331)
                      .+...|  +....+++.+..
T Consensus       331 ~~~~~g--~~~~~ll~~~~~  348 (373)
T 1hz4_A          331 HFVIEG--EAMAQQLRQLIQ  348 (373)
T ss_dssp             HHHTTH--HHHHHHHHHHHH
T ss_pred             HHHHcc--HHHHHHHHHHHh
Confidence            233344  345555555544

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.66  E-value=9.6e-14  Score=115.85  Aligned_cols=235  Identities=11%  Similarity=-0.017  Sum_probs=181.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhccCCCCc----hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCC-----CcchhHH
Q 048799           52 TGIIDGYTRMNRSNGALALFRRMVACEYTEPS----EITILAVFPAIWQNGDVRNCQLIHGYGEKRGF-----NAFHIHV  122 (331)
Q Consensus        52 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~  122 (331)
                      ......+...|++++|+..|+++.......++    ..++..+..++...|+++.|...++++.+...     .+....+
T Consensus       105 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  184 (378)
T 3q15_A          105 FFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQS  184 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHH
Confidence            34455678899999999999998543322233    44778889999999999999999998876421     2213567


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHhhhc---CC----cHHHHHHHHHHHHccCChHHHHHHHHHHHhc----cCCCCHHHH
Q 048799          123 SNCLIDTYAKCGCIFSALKLFEDISVE---RK----NLVSWTSIISGFAMHGMGKEAVENFERMQKV----VLKPNRVTF  191 (331)
Q Consensus       123 ~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p~~~~~  191 (331)
                      ++.++.+|...|++++|...|+++...   .+    ...++..+..+|...|++++|++.|++....    +.+....++
T Consensus       185 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  264 (378)
T 3q15_A          185 LFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHH
Confidence            888999999999999999999988764   11    2457888999999999999999999998761    222336778


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhcCC---CCcHhhHHHHHHHHHhcCC---HHHHHHHHhhcccCCccHHHHHHHHH
Q 048799          192 LSVLNACSHGGLVEEGLKFFDKMVEECEV---LPDIKHYGCLIDMLGRAGR---LEQAEKVASGIPSEITNVVVWRTLLG  265 (331)
Q Consensus       192 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~l~~  265 (331)
                      ..+...+.+.|++++|...+++..+...-   +.....+..+...+...|+   +.+|...++...........+..+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~  344 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAA  344 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            88999999999999999999999875221   1123445666667777888   88999999885443233466778899


Q ss_pred             HHhcCCchhHHHHHHHHHHHh
Q 048799          266 ACSFHGNVEMGERVTRKILEM  286 (331)
Q Consensus       266 ~~~~~g~~~~a~~~~~~~~~~  286 (331)
                      .|...|++++|...++++.+.
T Consensus       345 ~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          345 VFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999999874

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.63  E-value=4.2e-13  Score=111.70  Aligned_cols=269  Identities=10%  Similarity=-0.034  Sum_probs=189.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCch----HHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCc----chhH
Q 048799           50 SWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSE----ITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNA----FHIH  121 (331)
Q Consensus        50 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~  121 (331)
                      ....+...+...|++++|...+++.+.... ..+.    .++..+...+...|++++|...+++..+.....    ....
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   94 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELP-PGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALW   94 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCC-TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            344455567788999999999998755432 2222    245667778888999999999988877642211    1223


Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHhhhcC--------C-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCC--C--CH
Q 048799          122 VSNCLIDTYAKCGCIFSALKLFEDISVER--------K-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLK--P--NR  188 (331)
Q Consensus       122 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~--p--~~  188 (331)
                      ++..+...+...|++++|...+++.....        | ....+..+...+...|++++|...+++.......  +  ..
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            45678888999999999999998876541        2 2345667778888999999999999887764221  1  23


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc-HhhHH----HHHHHHHhcCCHHHHHHHHhhcccCCc-----cHH
Q 048799          189 VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD-IKHYG----CLIDMLGRAGRLEQAEKVASGIPSEIT-----NVV  258 (331)
Q Consensus       189 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~~p-----~~~  258 (331)
                      .++..+...+...|++++|...+++......-... .....    ..+..+...|++++|...+++.....|     ...
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            56777888888999999999999988754111111 11111    233457789999999999998876522     133


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCC------ccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          259 VWRTLLGACSFHGNVEMGERVTRKILEMERGYG------GDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       259 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      .+..+...+...|++++|...++++.+..+...      ..+..++.++...|+.++|...+++..+
T Consensus       255 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          255 QWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            566777888889999999999999887543321      3566678888899999999988887655

>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=99.63  E-value=7e-14  Score=108.09  Aligned_cols=208  Identities=7%  Similarity=-0.079  Sum_probs=159.8

Q ss_pred             CCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHH
Q 048799           81 EPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSI  159 (331)
Q Consensus        81 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l  159 (331)
                      +.|+..+......+...|++++|+..|+++++..+.+ +...+..++.++...|++++|+..|++.....| +..+|..+
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l   82 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQ-DSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGK   82 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCC-CcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHH
Confidence            3466788889999999999999999999999987634 667777799999999999999999999988876 56788899


Q ss_pred             HHHHHccCChHHHHHHHHHHHhccCCCCH-------HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc---HhhHHH
Q 048799          160 ISGFAMHGMGKEAVENFERMQKVVLKPNR-------VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD---IKHYGC  229 (331)
Q Consensus       160 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~  229 (331)
                      ..+|...|++++|+..|++..+.. +.+.       ..|..+...+...|++++|.+.|+++.+.   .|+   ...+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~~  158 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV---TSKKWKTDALYS  158 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS---SCHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc---CCCcccHHHHHH
Confidence            999999999999999999988753 2233       45777888888999999999999998853   454   567777


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHH
Q 048799          230 LIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      +...|...|+.     +++.+... ..+...|....  ....+.+++|...++++.++.|+++.....+..+
T Consensus       159 l~~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i  223 (228)
T 4i17_A          159 LGVLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQV  223 (228)
T ss_dssp             HHHHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHH
Confidence            88777665543     33333333 22344444333  2345678999999999999999986666555544

>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=99.63  E-value=8.1e-14  Score=103.73  Aligned_cols=170  Identities=15%  Similarity=-0.017  Sum_probs=122.7

Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNAC  198 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  198 (331)
                      ...+..++..+...|++++|...|+++....| +...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            44556667777777777777777777765544 56667777777777777777777777776642 23556677777777


Q ss_pred             hccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHH
Q 048799          199 SHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGE  277 (331)
Q Consensus       199 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~  277 (331)
                      ...|++++|.+.++++.+.  .+.+...+..+...+...|++++|...++++... +.+...+..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            7778888888888777764  2345667777777777888888888887777665 335677777888888888888888


Q ss_pred             HHHHHHHHhhcCCCc
Q 048799          278 RVTRKILEMERGYGG  292 (331)
Q Consensus       278 ~~~~~~~~~~~~~~~  292 (331)
                      ..++++.+..|++..
T Consensus       165 ~~~~~~~~~~~~~~~  179 (186)
T 3as5_A          165 PHFKKANELDEGASV  179 (186)
T ss_dssp             HHHHHHHHHHHCCCG
T ss_pred             HHHHHHHHcCCCchh
Confidence            888888887777643

>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=99.61  E-value=3.3e-14  Score=126.98  Aligned_cols=170  Identities=11%  Similarity=0.062  Sum_probs=119.3

Q ss_pred             cchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHH
Q 048799          117 AFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVL  195 (331)
Q Consensus       117 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~  195 (331)
                      |.+..+++.|..+|.+.|++++|+..|+++.+..| +..+|+.+..+|.+.|++++|++.|++.++.. +-+...|..+.
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg   84 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMG   84 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            44667777788888888888888888887776665 46677777777777888888888887777643 12356677777


Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchh
Q 048799          196 NACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVE  274 (331)
Q Consensus       196 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~  274 (331)
                      .++...|++++|++.|+++.+. . +-+...+..+..+|.+.|++++|.+.|+++.+..| +...+..+..++...|+++
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l-~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQI-N-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            7777777777777777777754 1 22556677777777777777777777777666533 4566777777777777777


Q ss_pred             HHHHHHHHHHHhhcC
Q 048799          275 MGERVTRKILEMERG  289 (331)
Q Consensus       275 ~a~~~~~~~~~~~~~  289 (331)
                      +|.+.++++.++.|+
T Consensus       163 ~A~~~~~kal~l~~~  177 (723)
T 4gyw_A          163 DYDERMKKLVSIVAD  177 (723)
T ss_dssp             THHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChh
Confidence            777777777765543

>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=99.61  E-value=2e-14  Score=107.01  Aligned_cols=168  Identities=14%  Similarity=0.016  Sum_probs=148.4

Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHH
Q 048799          153 LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLID  232 (331)
Q Consensus       153 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  232 (331)
                      ...|..+...+...|++++|+..++++.... +.+...+..+...+...|++++|...++++.+.  .+.+...+..++.
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~   84 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGL   84 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHH
Confidence            4567778888999999999999999987643 346778888999999999999999999999875  2447788899999


Q ss_pred             HHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchH
Q 048799          233 MLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAE  311 (331)
Q Consensus       233 ~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  311 (331)
                      .+...|++++|.+.++++... +.+...+..+...+...|++++|...++++.+..|.++..+..++.++...|++++|.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           85 TYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            999999999999999998876 4567888999999999999999999999999999998889999999999999999999


Q ss_pred             HHHHHHhhcccc
Q 048799          312 RLRRVVDERNAL  323 (331)
Q Consensus       312 ~~~~~~~~~~~~  323 (331)
                      ..+++..+....
T Consensus       165 ~~~~~~~~~~~~  176 (186)
T 3as5_A          165 PHFKKANELDEG  176 (186)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCC
Confidence            999998876543

>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=99.60  E-value=7.2e-14  Score=124.84  Aligned_cols=166  Identities=8%  Similarity=0.023  Sum_probs=137.9

Q ss_pred             CchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHH
Q 048799           82 PSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSII  160 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~  160 (331)
                      .+..+++.+..++.+.|++++|++.|+++++..+.  +..++..+..+|.+.|++++|+..|+++.+..| +..+|..+.
T Consensus         7 ~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~--~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg   84 (723)
T 4gyw_A            7 THADSLNNLANIKREQGNIEEAVRLYRKALEVFPE--FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            34668888889999999999999999998888544  778888899999999999999999998887766 477888888


Q ss_pred             HHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCC
Q 048799          161 SGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGR  239 (331)
Q Consensus       161 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~  239 (331)
                      .+|...|++++|++.|++..+.. +-+...+..+..++...|++++|++.|+++.+.   .| +...+..+..+|...|+
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l---~P~~~~a~~~L~~~l~~~g~  160 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKL---KPDFPDAYCNLAHCLQIVCD  160 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCChHHHhhhhhHHHhccc
Confidence            99999999999999998888743 224678888888899999999999999988875   34 57788888888999999


Q ss_pred             HHHHHHHHhhcccC
Q 048799          240 LEQAEKVASGIPSE  253 (331)
Q Consensus       240 ~~~A~~~~~~~~~~  253 (331)
                      +++|.+.++++.+.
T Consensus       161 ~~~A~~~~~kal~l  174 (723)
T 4gyw_A          161 WTDYDERMKKLVSI  174 (723)
T ss_dssp             CTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99998888877654

>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=99.58  E-value=2.3e-13  Score=108.35  Aligned_cols=227  Identities=9%  Similarity=-0.005  Sum_probs=146.1

Q ss_pred             HhcCChhHHHHHHHHHHhc------cCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhc------CCCcchhHHHHHH
Q 048799           59 TRMNRSNGALALFRRMVAC------EYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKR------GFNAFHIHVSNCL  126 (331)
Q Consensus        59 ~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l  126 (331)
                      ...|++++|+..|++.+..      ...+....++..+..++...|++++|...++++++.      +..|....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            3456666666666665321      111233557777888888888888888888887765      3334356788888


Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhc--------CC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhc------cCCC-CHHH
Q 048799          127 IDTYAKCGCIFSALKLFEDISVE--------RK-NLVSWTSIISGFAMHGMGKEAVENFERMQKV------VLKP-NRVT  190 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~--------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~~  190 (331)
                      ..+|...|++++|...|+++...        .| ...++..+...|...|++++|+..++++.+.      +..| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            88899999999999888887654        13 3567788888888899999999988888764      1123 3456


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhc------CCCC-cHhhHHHHHHHHHhc------CCHHHHHHHHhhcccCCc-c
Q 048799          191 FLSVLNACSHGGLVEEGLKFFDKMVEEC------EVLP-DIKHYGCLIDMLGRA------GRLEQAEKVASGIPSEIT-N  256 (331)
Q Consensus       191 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~------g~~~~A~~~~~~~~~~~p-~  256 (331)
                      +..+...+...|++++|..+++++.+..      ...+ ....+..+...+...      ..+..+...++......| .
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            7788888888899999998888887531      1122 222333333333322      224444445555444422 3


Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          257 VVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       257 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      ..++..+...|...|++++|...++++++
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            46677778888888888888888887764

>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=99.57  E-value=1.2e-13  Score=106.87  Aligned_cols=192  Identities=12%  Similarity=-0.036  Sum_probs=151.9

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC--CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCC-CHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVER--KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP-NRVTFLSVL  195 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~  195 (331)
                      ++..+...+..+...|++++|...|+++....  ++...+..+..++...|++++|++.|++..+.  .| +...+..+.
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~   83 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGKS   83 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHHH
Confidence            67788889999999999999999999998775  56777777899999999999999999999874  34 456788899


Q ss_pred             HHHhccCChHHHHHHHHHHHHhcCCCCcH-------hhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc---HHHHHHHHH
Q 048799          196 NACSHGGLVEEGLKFFDKMVEECEVLPDI-------KHYGCLIDMLGRAGRLEQAEKVASGIPSEITN---VVVWRTLLG  265 (331)
Q Consensus       196 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~l~~  265 (331)
                      ..+...|++++|...+++..+.  .+.+.       ..|..+...+...|++++|.+.|+++....|+   ...+..+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHH
Confidence            9999999999999999999875  22344       45788888899999999999999999988554   577777888


Q ss_pred             HHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          266 ACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       266 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ++...|     ...++++..+.+.....|..  ......+.+++|...+++..+..
T Consensus       162 ~~~~~~-----~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          162 LFYNNG-----ADVLRKATPLASSNKEKYAS--EKAKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHH-----HHHHHHHGGGTTTCHHHHHH--HHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHH-----HHHHHHHHhcccCCHHHHHH--HHHHHHHHHHHHHHHHHHHhhcC
Confidence            876544     44566666655554333433  33445677889999999887754

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.54  E-value=1e-11  Score=98.18  Aligned_cols=242  Identities=8%  Similarity=-0.025  Sum_probs=168.7

Q ss_pred             HHHcCCHHHHHHHHhhCCCCCc-hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHH
Q 048799           27 LVKWGELEYARSLFEEMPCRNV-VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQL  105 (331)
Q Consensus        27 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  105 (331)
                      ..-.|++..++.-...+...+. ..-.-+.+++...|++...      +    ...|....+..+...+ ..+    |+.
T Consensus        23 ~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~------~----~~~~~~~a~~~la~~~-~~~----a~~   87 (310)
T 3mv2_B           23 NYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ------D----PTSKLGKVLDLYVQFL-DTK----NIE   87 (310)
T ss_dssp             HHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC------C----SSSTTHHHHHHHHHHH-TTT----CCH
T ss_pred             HHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC------C----CCCHHHHHHHHHHHHh-ccc----HHH
Confidence            3457888888886666653222 2333455788888887742      1    1234443444444333 322    778


Q ss_pred             HHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC---cHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 048799          106 IHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK---NLVSWTSIISGFAMHGMGKEAVENFERMQKV  182 (331)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  182 (331)
                      .+++..+.+. + +...+..++.++...|++++|++++.+.....|   +...+..++..+.+.|+.+.|.+.+++|.+ 
T Consensus        88 ~l~~l~~~~~-~-~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~-  164 (310)
T 3mv2_B           88 ELENLLKDKQ-N-SPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN-  164 (310)
T ss_dssp             HHHHTTTTSC-C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-
T ss_pred             HHHHHHhcCC-C-CcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-
Confidence            8888877652 2 444556888999999999999999998866653   567788888999999999999999999977 


Q ss_pred             cCCC-----CHHHHHHHHHH--HhccC--ChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          183 VLKP-----NRVTFLSVLNA--CSHGG--LVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       183 ~~~p-----~~~~~~~l~~~--~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                       ..|     +..+...|+.+  ....|  ++.+|..+|+++.+.   .|+..+-..+..++.+.|++++|.+.++.+...
T Consensus       165 -~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~  240 (310)
T 3mv2_B          165 -AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSD  240 (310)
T ss_dssp             -HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSH
T ss_pred             -cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             456     35566666666  33334  899999999998754   455333334444788999999999999876543


Q ss_pred             -----------CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc
Q 048799          254 -----------ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG  292 (331)
Q Consensus       254 -----------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  292 (331)
                                 +.++.+...+|......|+  +|.++++++.+..|+++.
T Consensus       241 ~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~  288 (310)
T 3mv2_B          241 YYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAF  288 (310)
T ss_dssp             HHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHH
T ss_pred             cccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChH
Confidence                       2356777566666666676  889999999999998743

>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=99.53  E-value=4.7e-13  Score=106.58  Aligned_cols=203  Identities=10%  Similarity=0.025  Sum_probs=130.4

Q ss_pred             chhHHHHHHHHHhcCChhHHHHHHHHHHhcc-----C-CCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhc------CC
Q 048799           48 VVSWTGIIDGYTRMNRSNGALALFRRMVACE-----Y-TEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKR------GF  115 (331)
Q Consensus        48 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~  115 (331)
                      ..++..+...+...|++++|+..+++++...     + .+....++..+..++...|++++|...++++++.      ..
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            3467777788888888888888888774331     1 1223456777888888888888888888887765      22


Q ss_pred             CcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc--------CC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhcc---
Q 048799          116 NAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE--------RK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVV---  183 (331)
Q Consensus       116 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~---  183 (331)
                      .|....++..+..++...|++++|...|+++...        .| ...++..+...|...|++++|+..++++....   
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~  202 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEK  202 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            2335677788888888888888888888887655        33 34567788888888888888888888876531   


Q ss_pred             ----CCCCH-HHHHHHHHHHhccCChH------HHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhccc
Q 048799          184 ----LKPNR-VTFLSVLNACSHGGLVE------EGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPS  252 (331)
Q Consensus       184 ----~~p~~-~~~~~l~~~~~~~~~~~------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  252 (331)
                          ..+.. ..+..+...+...+...      .+...+.....  ..+....++..+...|...|++++|..+++++..
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          203 EFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV--DSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                12221 22332333333222222      22222222110  1112456777888888999999999998887654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.53  E-value=6.7e-13  Score=104.79  Aligned_cols=208  Identities=9%  Similarity=-0.046  Sum_probs=119.4

Q ss_pred             chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCc-chhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc----HHHHH
Q 048799           83 SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNA-FHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN----LVSWT  157 (331)
Q Consensus        83 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~  157 (331)
                      +...+..+...+...|++++|+..|+++++..+.. ....++..++.+|.+.|++++|...|+++....|+    ..++.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            34455555555566666666666666666553321 01445555566666666666666666666554331    23444


Q ss_pred             HHHHHHHc--------cCChHHHHHHHHHHHhccCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHH
Q 048799          158 SIISGFAM--------HGMGKEAVENFERMQKVVLKPNR-VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYG  228 (331)
Q Consensus       158 ~l~~~~~~--------~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  228 (331)
                      .+..++..        .|++++|+..|+++....  |+. .....              ...+......     ....+.
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a--------------~~~~~~~~~~-----~~~~~~  152 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDA--------------TQKIRELRAK-----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHH--------------HHHHHHHHHH-----HHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHH--------------HHHHHHHHHH-----HHHHHH
Confidence            45555555        555666666665555432  221 11110              0001111100     011235


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcccCCcc----HHHHHHHHHHHhcC----------CchhHHHHHHHHHHHhhcCCCc--
Q 048799          229 CLIDMLGRAGRLEQAEKVASGIPSEITN----VVVWRTLLGACSFH----------GNVEMGERVTRKILEMERGYGG--  292 (331)
Q Consensus       229 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~--  292 (331)
                      .+...|.+.|++++|...|+.+....|+    ...+..+..+|...          |++++|...++++.+..|+++.  
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            6678888999999999999988766343    46777778888765          8889999999999999998853  


Q ss_pred             -cHHHHHHHHhhhccCcchH
Q 048799          293 -DYVLMYNILAGVWRYGDAE  311 (331)
Q Consensus       293 -~~~~l~~~~~~~g~~~~a~  311 (331)
                       ....+..++...++++++.
T Consensus       233 ~a~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          233 TAEELYTRARQRLTELEGDA  252 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHHHHHhhhhh
Confidence             3344555555555554443

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.52  E-value=8.2e-13  Score=106.09  Aligned_cols=211  Identities=9%  Similarity=-0.050  Sum_probs=144.2

Q ss_pred             ChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhc----CCCcchhHHHHHHHHHHHhcCCHhH
Q 048799           63 RSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKR----GFNAFHIHVSNCLIDTYAKCGCIFS  138 (331)
Q Consensus        63 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~  138 (331)
                      ++++|...|++.                ...+...|++++|...|.++.+.    |..+....+++.+..+|.+.|++++
T Consensus        32 ~~~~A~~~~~~a----------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~   95 (292)
T 1qqe_A           32 KFEEAADLCVQA----------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVN   95 (292)
T ss_dssp             HHHHHHHHHHHH----------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             cHHHHHHHHHHH----------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHH
Confidence            367777777665                23466778888888888877654    2222135678888888888899999


Q ss_pred             HHHHHHHhhhcCC---c----HHHHHHHHHHHHcc-CChHHHHHHHHHHHhccCCC-C----HHHHHHHHHHHhccCChH
Q 048799          139 ALKLFEDISVERK---N----LVSWTSIISGFAMH-GMGKEAVENFERMQKVVLKP-N----RVTFLSVLNACSHGGLVE  205 (331)
Q Consensus       139 A~~~~~~~~~~~~---~----~~~~~~l~~~~~~~-~~~~~a~~~~~~m~~~~~~p-~----~~~~~~l~~~~~~~~~~~  205 (331)
                      |+..|++.....+   +    ..+++.+...|... |++++|+..|++..+..... +    ..++..+...+...|+++
T Consensus        96 A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~  175 (292)
T 1qqe_A           96 AVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYI  175 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHH
Confidence            8888888765522   1    35677888888885 99999999988877632110 1    346778888888899999


Q ss_pred             HHHHHHHHHHHhcCCC-CcH-----hhHHHHHHHHHhcCCHHHHHHHHhhcccCCccH------HHHHHHHHHHh--cCC
Q 048799          206 EGLKFFDKMVEECEVL-PDI-----KHYGCLIDMLGRAGRLEQAEKVASGIPSEITNV------VVWRTLLGACS--FHG  271 (331)
Q Consensus       206 ~a~~~~~~~~~~~~~~-~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~l~~~~~--~~g  271 (331)
                      +|...|+++.+. ... +..     ..+..+..++...|++++|...|++.....|+.      ..+..++.++.  ..+
T Consensus       176 ~A~~~~~~al~~-~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~  254 (292)
T 1qqe_A          176 EASDIYSKLIKS-SMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSE  254 (292)
T ss_dssp             HHHHHHHHHHHT-TSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHH-HhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHH
Confidence            999999988875 221 111     146677778888899999999999888763432      12344555553  456


Q ss_pred             chhHHHHHHHHHHHhhcCC
Q 048799          272 NVEMGERVTRKILEMERGY  290 (331)
Q Consensus       272 ~~~~a~~~~~~~~~~~~~~  290 (331)
                      ++++|...|+++.+++|..
T Consensus       255 ~~~~A~~~~~~~~~l~~~~  273 (292)
T 1qqe_A          255 QLSEHCKEFDNFMRLDKWK  273 (292)
T ss_dssp             THHHHHHHHTTSSCCCHHH
T ss_pred             HHHHHHHHhccCCccHHHH
Confidence            6777777777766555543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.51  E-value=1.3e-11  Score=97.69  Aligned_cols=243  Identities=9%  Similarity=-0.015  Sum_probs=175.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcC
Q 048799           55 IDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCG  134 (331)
Q Consensus        55 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  134 (331)
                      ++-..-.|.+..++.-..++   ....++ ....-+.+++...|+++..         ....| ...++..+.. |...+
T Consensus        20 ikn~fy~G~yq~~i~e~~~~---~~~~~~-~~~~~~~Rs~iAlg~~~~~---------~~~~~-~~~a~~~la~-~~~~~   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKF---SKVTDN-TLLFYKAKTLLALGQYQSQ---------DPTSK-LGKVLDLYVQ-FLDTK   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTS---SCCCCH-HHHHHHHHHHHHTTCCCCC---------CSSST-THHHHHHHHH-HHTTT
T ss_pred             HHHHHHhhHHHHHHHHHHhc---CccchH-HHHHHHHHHHHHcCCCccC---------CCCCH-HHHHHHHHHH-Hhccc
Confidence            34455679999988844433   222232 3444466888888887642         12233 4434444443 33322


Q ss_pred             CHhHHHHHHHHhhhc-CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccC-CCCHHHHHHHHHHHhccCChHHHHHHHH
Q 048799          135 CIFSALKLFEDISVE-RKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVL-KPNRVTFLSVLNACSHGGLVEEGLKFFD  212 (331)
Q Consensus       135 ~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~  212 (331)
                          |+..|++.... .++..++..+..++...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.++
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 ----NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFD  160 (310)
T ss_dssp             ----CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ----HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence                78888887765 35666667888999999999999999999876553 2356778888999999999999999999


Q ss_pred             HHHHhcCCCC-----cHhhHHHHHHH--HHhcC--CHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHH
Q 048799          213 KMVEECEVLP-----DIKHYGCLIDM--LGRAG--RLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKI  283 (331)
Q Consensus       213 ~~~~~~~~~~-----~~~~~~~l~~~--~~~~g--~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  283 (331)
                      +|.+.   .|     +..+...++.+  ....|  +..+|..+|+++....|+..+-..+..++.+.|++++|++.++.+
T Consensus       161 ~~~~~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          161 NYTNA---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             HHHHH---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHhc---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99765   56     35666666666  33344  899999999999888776334444455889999999999999987


Q ss_pred             HHh----------hcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          284 LEM----------ERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       284 ~~~----------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      .+.          +|+++.+...++......|+  +|.++++++.+..
T Consensus       238 ~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          238 LSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            765          47788888788888777886  8999999988754

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.48  E-value=4.4e-12  Score=101.83  Aligned_cols=210  Identities=13%  Similarity=-0.012  Sum_probs=157.4

Q ss_pred             CHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhcc---CCCCc-hHHHHHHHHHHhhcCchhHHHHHH
Q 048799           32 ELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACE---YTEPS-EITILAVFPAIWQNGDVRNCQLIH  107 (331)
Q Consensus        32 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~  107 (331)
                      ++++|...|++.           ...|...|++++|...|++.....   +.+++ ..+|+.+..++...|++++|+..+
T Consensus        32 ~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            488888887765           556888999999999998874432   22222 468889999999999999999999


Q ss_pred             hhhhhcCCC----cchhHHHHHHHHHHHhc-CCHhHHHHHHHHhhhcCCc-------HHHHHHHHHHHHccCChHHHHHH
Q 048799          108 GYGEKRGFN----AFHIHVSNCLIDTYAKC-GCIFSALKLFEDISVERKN-------LVSWTSIISGFAMHGMGKEAVEN  175 (331)
Q Consensus       108 ~~~~~~~~~----~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~  175 (331)
                      +++++....    .....+++.+..+|... |++++|+..|++.....|+       ..+++.+...+.+.|++++|+..
T Consensus       101 ~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~  180 (292)
T 1qqe_A          101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            988765321    11245788899999996 9999999999998765331       35688899999999999999999


Q ss_pred             HHHHHhccCCCCH------HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcH------hhHHHHHHHHH--hcCCHH
Q 048799          176 FERMQKVVLKPNR------VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDI------KHYGCLIDMLG--RAGRLE  241 (331)
Q Consensus       176 ~~~m~~~~~~p~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~~l~~~~~--~~g~~~  241 (331)
                      |++..........      ..+..+..++...|++++|...|++..+   +.|+.      ..+..++..+.  ..++++
T Consensus       181 ~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~  257 (292)
T 1qqe_A          181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS---EDPNFADSRESNFLKSLIDAVNEGDSEQLS  257 (292)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC---C---------HHHHHHHHHHHHTTCTTTHH
T ss_pred             HHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCCCcHHHHHHHHHHHHHHcCCHHHHH
Confidence            9999875422221      2567788889999999999999999874   33432      13444556564  457799


Q ss_pred             HHHHHHhhcccCCc
Q 048799          242 QAEKVASGIPSEIT  255 (331)
Q Consensus       242 ~A~~~~~~~~~~~p  255 (331)
                      +|.+.|+.+....|
T Consensus       258 ~A~~~~~~~~~l~~  271 (292)
T 1qqe_A          258 EHCKEFDNFMRLDK  271 (292)
T ss_dssp             HHHHHHTTSSCCCH
T ss_pred             HHHHHhccCCccHH
Confidence            99999999887634

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.45  E-value=6.7e-12  Score=99.04  Aligned_cols=171  Identities=8%  Similarity=-0.046  Sum_probs=90.1

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc-hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCC-cchhHHHH
Q 048799           47 NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS-EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFN-AFHIHVSN  124 (331)
Q Consensus        47 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~  124 (331)
                      +...+..+...+.+.|++++|+..|++++...+..|. ...+..+..++...|++++|...|+++++..+. +....++.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            3444555555556666666666666665332211111 345555555666666666666666666655331 11334455


Q ss_pred             HHHHHHHh--------cCCHhHHHHHHHHhhhcCCc-HHHH-----------------HHHHHHHHccCChHHHHHHHHH
Q 048799          125 CLIDTYAK--------CGCIFSALKLFEDISVERKN-LVSW-----------------TSIISGFAMHGMGKEAVENFER  178 (331)
Q Consensus       125 ~l~~~~~~--------~g~~~~A~~~~~~~~~~~~~-~~~~-----------------~~l~~~~~~~~~~~~a~~~~~~  178 (331)
                      .+..++..        .|++++|...|+++....|+ ....                 ..+...|.+.|++++|+..|++
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  173 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEA  173 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            55556655        66666666666666554442 2222                 3445556666666666666666


Q ss_pred             HHhccCCC--CHHHHHHHHHHHhcc----------CChHHHHHHHHHHHHh
Q 048799          179 MQKVVLKP--NRVTFLSVLNACSHG----------GLVEEGLKFFDKMVEE  217 (331)
Q Consensus       179 m~~~~~~p--~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~  217 (331)
                      +.+.....  ....+..+..+|...          |++++|...|+++.+.
T Consensus       174 ~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          174 VFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            65532111  123444555555544          5666666666666654

>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=99.42  E-value=2.5e-11  Score=108.80  Aligned_cols=172  Identities=10%  Similarity=-0.032  Sum_probs=145.0

Q ss_pred             hhcCchhHHHHHHhhhh--------hcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHc
Q 048799           95 WQNGDVRNCQLIHGYGE--------KRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAM  165 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~  165 (331)
                      ...|++++|++.+++++        +.  .|.+...+..+..++...|++++|+..|+++....| +...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD--FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C--CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc--cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHH
Confidence            68899999999999998        44  343778888999999999999999999999988766 67899999999999


Q ss_pred             cCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHH
Q 048799          166 HGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEK  245 (331)
Q Consensus       166 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  245 (331)
                      .|++++|++.|++..+.. +-+...+..+..++...|++++ .+.|+++.+.  -+.+...+..+..++.+.|++++|.+
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999998854 2256778889999999999999 9999999875  23367889999999999999999999


Q ss_pred             HHhhcccCCcc-HHHHHHHHHHHhcCCc
Q 048799          246 VASGIPSEITN-VVVWRTLLGACSFHGN  272 (331)
Q Consensus       246 ~~~~~~~~~p~-~~~~~~l~~~~~~~g~  272 (331)
                      .|+++....|+ ...+..+..++...++
T Consensus       556 ~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          556 TLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            99999988554 6778888888877665

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.41  E-value=1.4e-11  Score=93.57  Aligned_cols=129  Identities=9%  Similarity=-0.009  Sum_probs=83.1

Q ss_pred             HHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC
Q 048799          159 IISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG  238 (331)
Q Consensus       159 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  238 (331)
                      +..+|.+.|++++|+..|++..+.. +-+...+..+..++...|++++|...|+++.+.  -+.+...+..+...|...|
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHh
Confidence            6677777777777777777777643 224566777777777778888888887777764  1235666777776665554


Q ss_pred             C--HHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          239 R--LEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       239 ~--~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      +  ...+...+..+....|....+.....++...|++++|+..|++++++.|++
T Consensus       137 ~~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          137 EQEKKKLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence            3  345556666655433333344445556666778888888888888777763

>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=99.41  E-value=6.6e-10  Score=98.40  Aligned_cols=168  Identities=9%  Similarity=-0.024  Sum_probs=108.0

Q ss_pred             HHHHHHHHHHHHccCChHHHH-HHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhc---------CCCC
Q 048799          153 LVSWTSIISGFAMHGMGKEAV-ENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEEC---------EVLP  222 (331)
Q Consensus       153 ~~~~~~l~~~~~~~~~~~~a~-~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~~  222 (331)
                      ...|...+..+...|+.++|. ++|++.... ++.+...+...+....+.|+++.|.++|+.+....         +.+.
T Consensus       343 ~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~  421 (679)
T 4e6h_A          343 PEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPT  421 (679)
T ss_dssp             HHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCc
Confidence            444555555555666777775 777777652 33455555666666777788888888888777531         1111


Q ss_pred             -----------cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-C-ccHHHHHHHHHHHhcC-CchhHHHHHHHHHHHhhc
Q 048799          223 -----------DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-I-TNVVVWRTLLGACSFH-GNVEMGERVTRKILEMER  288 (331)
Q Consensus       223 -----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~-p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~  288 (331)
                                 ...+|...+....+.|..+.|..+|.++... . +....|...+..-.+. ++++.|.++|+.+++..|
T Consensus       422 ~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p  501 (679)
T 4e6h_A          422 NESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFA  501 (679)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHT
T ss_pred             chhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCC
Confidence                       1235666777777778888888888887654 1 1234444333333333 447888888888888777


Q ss_pred             CCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          289 GYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       289 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      +++..+..++......|+.+.|..+|++..+..
T Consensus       502 ~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~  534 (679)
T 4e6h_A          502 TDGEYINKYLDFLIYVNEESQVKSLFESSIDKI  534 (679)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTS
T ss_pred             CchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            776666677777777788888888888776643

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.41  E-value=3.2e-11  Score=91.65  Aligned_cols=135  Identities=12%  Similarity=-0.027  Sum_probs=82.8

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccC
Q 048799          124 NCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGG  202 (331)
Q Consensus       124 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~  202 (331)
                      ..+..+|.+.|++++|...|+++....| +...+..+..++...|++++|+..|++..+.. +.+...+..+..+|...|
T Consensus        58 ~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           58 TELALAYKKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHh
Confidence            3477777777777777777777776655 46677777777777777777777777777643 224556666666665444


Q ss_pred             C--hHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHH
Q 048799          203 L--VEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRT  262 (331)
Q Consensus       203 ~--~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  262 (331)
                      +  .+.+...+....   ...|....+.....++...|++++|...|+++....|+......
T Consensus       137 ~~~~~~~~~~~~~~~---~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~~~~~  195 (208)
T 3urz_A          137 EQEKKKLETDYKKLS---SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTEAQKT  195 (208)
T ss_dssp             HHHHHHHHHHHC------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHh---CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHHHHHH
Confidence            3  333444444432   22222333344455566677788888888877777666544433

>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=99.39  E-value=2e-12  Score=115.84  Aligned_cols=172  Identities=12%  Similarity=-0.009  Sum_probs=148.3

Q ss_pred             HhcCCHhHHHHHHHHhh--------hcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhcc
Q 048799          131 AKCGCIFSALKLFEDIS--------VERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHG  201 (331)
Q Consensus       131 ~~~g~~~~A~~~~~~~~--------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  201 (331)
                      ...|++++|++.++++.        ...| +...+..+..++...|++++|++.|+++.+.. +-+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            78899999999999997        5545 56789999999999999999999999998854 23667888899999999


Q ss_pred             CChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHH
Q 048799          202 GLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVT  280 (331)
Q Consensus       202 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~  280 (331)
                      |++++|...|+++.+.  .+.+...+..+..++.+.|++++ .+.|+++... +.+...|..+..++...|++++|.+.|
T Consensus       481 g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999975  23367888999999999999999 9999998877 446789999999999999999999999


Q ss_pred             HHHHHhhcCCCccHHHHHHHHhhhcc
Q 048799          281 RKILEMERGYGGDYVLMYNILAGVWR  306 (331)
Q Consensus       281 ~~~~~~~~~~~~~~~~l~~~~~~~g~  306 (331)
                      +++.+.+|++...+..++.++...++
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            99999999988899999999877665

>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=99.38  E-value=9.5e-13  Score=94.52  Aligned_cols=143  Identities=7%  Similarity=-0.098  Sum_probs=101.0

Q ss_pred             HHHHHccCChHHHHHHHHHHHhccCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC
Q 048799          160 ISGFAMHGMGKEAVENFERMQKVVLKPN-RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG  238 (331)
Q Consensus       160 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  238 (331)
                      ...+...|++++|+..+++....  .|+ ...+..+...|.+.|++++|++.|+++.+.  -+-+...|..+..+|.+.|
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            34455566777777777766542  232 334556677777778888888888777764  1236677777888888888


Q ss_pred             CHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHH-HHHHHHhhcCCCccHHHHHHHHhhhcc
Q 048799          239 RLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERV-TRKILEMERGYGGDYVLMYNILAGVWR  306 (331)
Q Consensus       239 ~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~  306 (331)
                      ++++|...|+++.+..| ++..|..+...+.+.|++++|.+. ++++.+++|+++.+|.....++...|+
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            88888888888776634 577888888888888888776654 588888888888888877777777664

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.38  E-value=4.2e-11  Score=92.19  Aligned_cols=203  Identities=13%  Similarity=0.001  Sum_probs=109.5

Q ss_pred             hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCc-chhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcH----HHHHH
Q 048799           84 EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNA-FHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNL----VSWTS  158 (331)
Q Consensus        84 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~  158 (331)
                      ...+..+...+...|++++|+..|+++++..+.. ....++..++.+|.+.|++++|...|+++....|+.    .++..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            3445555666667777777777777776654331 123455666677777777777777777766554432    13333


Q ss_pred             HHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc-HhhHHHHHHHHHhc
Q 048799          159 IISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD-IKHYGCLIDMLGRA  237 (331)
Q Consensus       159 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  237 (331)
                      +..++...+..     .+            ..|..+...+...|++++|...|+++++.   .|+ ..........-   
T Consensus        84 ~g~~~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~l~---  140 (225)
T 2yhc_A           84 RGLTNMALDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKRLV---  140 (225)
T ss_dssp             HHHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHHHH---
T ss_pred             HHHHHHhhhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHHHH---
Confidence            44444332210     00            01122233334567778888888887754   232 22222111100   


Q ss_pred             CCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCC---ccHHHHHHHHhhhccCcchHHHH
Q 048799          238 GRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYG---GDYVLMYNILAGVWRYGDAERLR  314 (331)
Q Consensus       238 g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~  314 (331)
                       ...      ..      .......+...+.+.|++++|+..|+++++..|+++   ..+..++.++.+.|++++|.+.+
T Consensus       141 -~~~------~~------~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~  207 (225)
T 2yhc_A          141 -FLK------DR------LAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVA  207 (225)
T ss_dssp             -HHH------HH------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             -HHH------HH------HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHH
Confidence             000      00      011123355667777788888888888777777654   35667777777788888887777


Q ss_pred             HHHhhccc
Q 048799          315 RVVDERNA  322 (331)
Q Consensus       315 ~~~~~~~~  322 (331)
                      +.+...+.
T Consensus       208 ~~l~~~~~  215 (225)
T 2yhc_A          208 KIIAANSS  215 (225)
T ss_dssp             HHHHHCCS
T ss_pred             HHHHhhCC
Confidence            77766543

>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=99.38  E-value=3.9e-11  Score=83.96  Aligned_cols=129  Identities=16%  Similarity=0.202  Sum_probs=56.8

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHh
Q 048799          157 TSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGR  236 (331)
Q Consensus       157 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  236 (331)
                      ..+...+...|++++|..+++++...+ +.+...+..+...+...|++++|..+++++.+. . +.+...+..+...+..
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH-C-CCchHHHHHHHHHHHH
Confidence            333444444444444444444443322 122333444444444444444444444444432 1 1233344444444444


Q ss_pred             cCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhc
Q 048799          237 AGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMER  288 (331)
Q Consensus       237 ~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  288 (331)
                      .|++++|.++++.+... +.+...+..++..+...|++++|...++++.+..|
T Consensus        82 ~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  134 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP  134 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHST
T ss_pred             hcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCC
Confidence            44444444444444333 22334444455555555555555555555554444

>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=99.38  E-value=1.2e-11  Score=86.62  Aligned_cols=130  Identities=15%  Similarity=0.151  Sum_probs=115.3

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHh
Q 048799          190 TFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACS  268 (331)
Q Consensus       190 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~  268 (331)
                      .+..+...+...|++++|..+++++.+. . +.+...+..++..+...|++++|..+++++... +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc-C-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHH
Confidence            4667888899999999999999999875 2 346778888999999999999999999998776 446788889999999


Q ss_pred             cCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          269 FHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       269 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ..|++++|.+.++++.+..|.+...+..++.++...|++++|...++++.+..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             HhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            99999999999999999999888889999999999999999999999987654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.38  E-value=5.2e-11  Score=91.67  Aligned_cols=164  Identities=6%  Similarity=-0.137  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc----HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCH----HHHH
Q 048799          121 HVSNCLIDTYAKCGCIFSALKLFEDISVERKN----LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNR----VTFL  192 (331)
Q Consensus       121 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~  192 (331)
                      ..+..++..+...|++++|...|+++....|+    ..++..+..+|.+.|++++|+..|+++.+..  |+.    ..+.
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a~~   82 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYVMY   82 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHHHH
Confidence            34445566666667777777777666654332    2355556666666666666666666666533  221    1222


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccH-HHHHHHHHHHhcCC
Q 048799          193 SVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNV-VVWRTLLGACSFHG  271 (331)
Q Consensus       193 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~g  271 (331)
                      .+..++...|..     .+             ..+..+...+...|++++|...|+++....|+. ..+......     
T Consensus        83 ~~g~~~~~~~~~-----~~-------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l-----  139 (225)
T 2yhc_A           83 MRGLTNMALDDS-----AL-------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRL-----  139 (225)
T ss_dssp             HHHHHHHHHHC--------------------------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHH-----
T ss_pred             HHHHHHHhhhhh-----hh-------------hhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHH-----
Confidence            233333222110     00             011122233344566666666666666553332 111111000     


Q ss_pred             chhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          272 NVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       272 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                           ..+....       ......++..|.+.|++++|...++.+.+..
T Consensus       140 -----~~~~~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~  177 (225)
T 2yhc_A          140 -----VFLKDRL-------AKYEYSVAEYYTERGAWVAVVNRVEGMLRDY  177 (225)
T ss_dssp             -----HHHHHHH-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             -----HHHHHHH-------HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHC
Confidence                 0000000       0122467888999999999999999988754

>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=99.33  E-value=1.8e-10  Score=87.69  Aligned_cols=175  Identities=11%  Similarity=-0.037  Sum_probs=86.8

Q ss_pred             chhHHhhhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCC-CCchhHHHHHHHHHhcC----ChhHHHHHHHHHHhc
Q 048799            4 DGSKLFDELP-ERNLVTWNVMITGLVKWGELEYARSLFEEMPC-RNVVSWTGIIDGYTRMN----RSNGALALFRRMVAC   77 (331)
Q Consensus         4 ~A~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~   77 (331)
                      +|.+.|++.. ..+..++..+...|...+++++|..+|++..+ .++.++..|...|.. +    ++++|+..|++... 
T Consensus         4 eA~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~-   81 (212)
T 3rjv_A            4 EPGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVE-   81 (212)
T ss_dssp             CTTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHH-
T ss_pred             hHHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHH-
Confidence            4555555544 33555555566666666666666666655442 244455555555554 4    55556665555522 


Q ss_pred             cCCCCchHHHHHHHHHHhh----cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh----cCCHhHHHHHHHHhhhc
Q 048799           78 EYTEPSEITILAVFPAIWQ----NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK----CGCIFSALKLFEDISVE  149 (331)
Q Consensus        78 ~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~  149 (331)
                      .   -++..+..+...|..    .+++++|...|++..+.+.....+..+..|..+|..    .+++++|...|++....
T Consensus        82 ~---g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~  158 (212)
T 3rjv_A           82 A---GSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL  158 (212)
T ss_dssp             T---TCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT
T ss_pred             C---CCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc
Confidence            1   233444445444444    455555555555555554320023444455555555    44555555555555443


Q ss_pred             CCcHHHHHHHHHHHHcc-C-----ChHHHHHHHHHHHhcc
Q 048799          150 RKNLVSWTSIISGFAMH-G-----MGKEAVENFERMQKVV  183 (331)
Q Consensus       150 ~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~m~~~~  183 (331)
                      +.+..++..+...|... |     ++++|+..|++..+.|
T Consensus       159 ~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          159 SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            33334444444444322 1     4555555555554443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.33  E-value=2.1e-10  Score=91.71  Aligned_cols=163  Identities=12%  Similarity=-0.059  Sum_probs=112.2

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHH-HHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFL-SVLN  196 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~-~l~~  196 (331)
                      +...+..+...+...|++++|...|+++....| +...+..+...+...|++++|+..++++....  |+..... ....
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~~  193 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQI  193 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHHH
Confidence            556666777777777888888888877776655 46677777777777788888888777776543  4443222 2222


Q ss_pred             HHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc---HHHHHHHHHHHhcCCch
Q 048799          197 ACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN---VVVWRTLLGACSFHGNV  273 (331)
Q Consensus       197 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~  273 (331)
                      .+...++.++|...+++..+.  .+.+...+..+...+...|++++|...|.++....|+   ...+..++..+...|+.
T Consensus       194 ~l~~~~~~~~a~~~l~~al~~--~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          194 ELLXQAADTPEIQQLQQQVAE--NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTT
T ss_pred             HHHhhcccCccHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCC
Confidence            355666677777777777664  2336677777777788888888888888777766332   56677777778778888


Q ss_pred             hHHHHHHHHHHH
Q 048799          274 EMGERVTRKILE  285 (331)
Q Consensus       274 ~~a~~~~~~~~~  285 (331)
                      ++|...+++.+.
T Consensus       272 ~~a~~~~r~al~  283 (287)
T 3qou_A          272 DALASXYRRQLY  283 (287)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHH
Confidence            888877777654

>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=99.32  E-value=9.3e-11  Score=94.77  Aligned_cols=202  Identities=9%  Similarity=-0.004  Sum_probs=90.4

Q ss_pred             hcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHH
Q 048799           60 RMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSA  139 (331)
Q Consensus        60 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  139 (331)
                      ..|++++|.+++++..+...  ..         .+...++++.|...|.+                .+..|...|++++|
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~--~~---------~~~~~~~~~~A~~~~~~----------------a~~~~~~~g~~~~A   55 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLK--TS---------FMKWKPDYDSAASEYAK----------------AAVAFKNAKQLEQA   55 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHC--CC---------SSSCSCCHHHHHHHHHH----------------HHHHHHHTTCHHHH
T ss_pred             ccchHHHHHHHHHHHHHHcc--cc---------ccCCCCCHHHHHHHHHH----------------HHHHHHHcCCHHHH
Confidence            46788999999998743211  00         00002334444333322                22334444555555


Q ss_pred             HHHHHHhhhcC-----C--cHHHHHHHHHHHHccCChHHHHHHHHHHHhccC---CC--CHHHHHHHHHHHhccCChHHH
Q 048799          140 LKLFEDISVER-----K--NLVSWTSIISGFAMHGMGKEAVENFERMQKVVL---KP--NRVTFLSVLNACSHGGLVEEG  207 (331)
Q Consensus       140 ~~~~~~~~~~~-----~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~---~p--~~~~~~~l~~~~~~~~~~~~a  207 (331)
                      ...|.++....     +  ...+|+.+...|...|++++|+..|++....-.   .|  ...++..+...|.. |++++|
T Consensus        56 ~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A  134 (307)
T 2ifu_A           56 KDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKA  134 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHH
Confidence            55554443321     0  123444444555555555555555554433210   01  12334444445544 555555


Q ss_pred             HHHHHHHHHhcCCCC----cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC---Ccc----HHHHHHHHHHHhcCCchhHH
Q 048799          208 LKFFDKMVEECEVLP----DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE---ITN----VVVWRTLLGACSFHGNVEMG  276 (331)
Q Consensus       208 ~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~p~----~~~~~~l~~~~~~~g~~~~a  276 (331)
                      +..|++..+...-..    ...++..+...|.+.|++++|...|+++...   .+.    ...+..++.++...|++++|
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            555555443210000    1234444555555555555555555554433   011    12333444444455555555


Q ss_pred             HHHHHHHHHhhcCC
Q 048799          277 ERVTRKILEMERGY  290 (331)
Q Consensus       277 ~~~~~~~~~~~~~~  290 (331)
                      ...|+++. ..|..
T Consensus       215 ~~~~~~al-~~p~~  227 (307)
T 2ifu_A          215 QKCVRESY-SIPGF  227 (307)
T ss_dssp             HHHHHHHT-TSTTS
T ss_pred             HHHHHHHh-CCCCC
Confidence            55555555 54543

>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=99.32  E-value=4.1e-11  Score=88.46  Aligned_cols=157  Identities=13%  Similarity=-0.025  Sum_probs=80.9

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH-Hhcc
Q 048799          124 NCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA-CSHG  201 (331)
Q Consensus       124 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~-~~~~  201 (331)
                      ..+...+...|++++|...|+++....| +...+..+...+...|++++|+..|++.....  |+......+... +...
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhh
Confidence            3455566666666666666666655544 45566666666666666666666666655432  233222211111 1111


Q ss_pred             CChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc---HHHHHHHHHHHhcCCchhHHHH
Q 048799          202 GLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN---VVVWRTLLGACSFHGNVEMGER  278 (331)
Q Consensus       202 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~a~~  278 (331)
                      +...+|...+++..+.  .+.+...+..+...+...|++++|...|+++....|+   ...+..+..++...|+.++|..
T Consensus        88 ~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           88 AAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             cccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            1222345555555543  1223455555555555555555555555555544332   3345555555555555555555


Q ss_pred             HHHHHH
Q 048799          279 VTRKIL  284 (331)
Q Consensus       279 ~~~~~~  284 (331)
                      .|++.+
T Consensus       166 ~y~~al  171 (176)
T 2r5s_A          166 KYRRQL  171 (176)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555544

>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=99.32  E-value=4.8e-11  Score=104.98  Aligned_cols=151  Identities=9%  Similarity=-0.072  Sum_probs=70.5

Q ss_pred             CchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHH
Q 048799           98 GDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENF  176 (331)
Q Consensus        98 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  176 (331)
                      |++++|...++++.+..+.  +...+..+...+...|++++|...|++.....| +..++..+..+|...|++++|++.|
T Consensus         3 g~~~~A~~~~~~al~~~p~--~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQ--DFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             ------------------C--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4556666666665554332  455555566666666666666666666555544 3455555555555666666666666


Q ss_pred             HHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhc---CCHHHHHHHHhhcccC
Q 048799          177 ERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRA---GRLEQAEKVASGIPSE  253 (331)
Q Consensus       177 ~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~  253 (331)
                      ++..+.. +.+...+..+..++...|++++|.+.++++.+.  .+.+...+..+...+...   |+.++|.+.++++...
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            5555432 123445555555555555555555555555543  112344444555555555   5555555555554443

>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=99.32  E-value=7.9e-11  Score=86.91  Aligned_cols=156  Identities=12%  Similarity=-0.001  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHH-Hh
Q 048799           20 WNVMITGLVKWGELEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPA-IW   95 (331)
Q Consensus        20 ~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~   95 (331)
                      +..+...+.+.|++++|...|++..+   .+...+..+...+...|++++|+..|+++....   |++..+..+... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~---p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY---QDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG---CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc---CChHHHHHHHHHHHH
Confidence            33455556666666666666666652   244556666666666666666666666653222   222222211111 11


Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc---HHHHHHHHHHHHccCChHHH
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN---LVSWTSIISGFAMHGMGKEA  172 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a  172 (331)
                      ..+...+|...++++++..+.  +...+..+..++...|++++|...|+++....|+   ...+..+...+...|+.++|
T Consensus        86 ~~~~~~~a~~~~~~al~~~P~--~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAANPD--NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHSTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hhcccchHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            112223345555555555332  4555555666666666666666666665555442   33555555555556666666


Q ss_pred             HHHHHHHH
Q 048799          173 VENFERMQ  180 (331)
Q Consensus       173 ~~~~~~m~  180 (331)
                      ...|++..
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            65555443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.32  E-value=7.4e-11  Score=94.35  Aligned_cols=175  Identities=9%  Similarity=-0.033  Sum_probs=114.5

Q ss_pred             HHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCc
Q 048799           38 SLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNA  117 (331)
Q Consensus        38 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  117 (331)
                      ..+......+...+..+...+...|++++|...|++++...  +.+...+..+..++...|++++|...++++....+. 
T Consensus       107 ~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~-  183 (287)
T 3qou_A          107 ALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS--NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQD-  183 (287)
T ss_dssp             HHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCS-
T ss_pred             HHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcc-
Confidence            33333333344556666777777777777777777774432  234566777777777777888888777777766443 


Q ss_pred             chhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCC-CHHHHHHHH
Q 048799          118 FHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP-NRVTFLSVL  195 (331)
Q Consensus       118 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~  195 (331)
                       ...........+...++.++|...|++.....| +...+..+...+...|++++|+..|.++.+..... +...+..++
T Consensus       184 -~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~  262 (287)
T 3qou_A          184 -TRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQ  262 (287)
T ss_dssp             -HHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHH
T ss_pred             -hHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHH
Confidence             333333344446666777777777777766655 46677777777777788888888887777643211 145667777


Q ss_pred             HHHhccCChHHHHHHHHHHHH
Q 048799          196 NACSHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       196 ~~~~~~~~~~~a~~~~~~~~~  216 (331)
                      ..+...|+.++|...+++...
T Consensus       263 ~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          263 EILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCCCcHHHHHHHHHH
Confidence            777777777777777776554

>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=99.31  E-value=4.2e-10  Score=85.67  Aligned_cols=175  Identities=8%  Similarity=-0.112  Sum_probs=112.7

Q ss_pred             HHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccC----ChHHHHHHHH
Q 048799          102 NCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHG----MGKEAVENFE  177 (331)
Q Consensus       102 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~  177 (331)
                      +|.+.|++..+.|    ++.++..|...|...+++++|...|++.... .++.++..+...|.. +    ++++|+++|+
T Consensus         4 eA~~~~~~aa~~g----~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~-g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            4 EPGSQYQQQAEAG----DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQ-GDGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             CTTHHHHHHHHTT----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT-TCHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHCC----CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            4666777776664    4556667777777778888888888777543 355666666666666 5    7777777777


Q ss_pred             HHHhccCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHhcCCC-CcHhhHHHHHHHHHh----cCCHHHHHHHHh
Q 048799          178 RMQKVVLKPNRVTFLSVLNACSH----GGLVEEGLKFFDKMVEECEVL-PDIKHYGCLIDMLGR----AGRLEQAEKVAS  248 (331)
Q Consensus       178 ~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~A~~~~~  248 (331)
                      +..+.|   +...+..|...|..    .+++++|..+|++..+. +.. .+...+..|...|..    .+++++|..+|+
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARD-SESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSS-TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHc-CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            776543   44556666666665    66777777777777654 211 015566666666766    667777777777


Q ss_pred             hcccCCccHHHHHHHHHHHhcC-C-----chhHHHHHHHHHHHh
Q 048799          249 GIPSEITNVVVWRTLLGACSFH-G-----NVEMGERVTRKILEM  286 (331)
Q Consensus       249 ~~~~~~p~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~  286 (331)
                      +......+...+..|...|... |     ++++|...|+++.+.
T Consensus       154 ~A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~  197 (212)
T 3rjv_A          154 GSSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLE  197 (212)
T ss_dssp             HHHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHc
Confidence            7655423445556666665432 2     677777777777654

>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=99.31  E-value=3.5e-11  Score=86.29  Aligned_cols=142  Identities=10%  Similarity=0.014  Sum_probs=80.4

Q ss_pred             HHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChH
Q 048799           92 PAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGK  170 (331)
Q Consensus        92 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  170 (331)
                      ..+...|++++|+..++......+.  +...+..+..+|.+.|++++|++.|+++....| +..+|..+..+|...|+++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~~p~--~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPSPRQ--KSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCSHHH--HHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcChHHHHHHHHHHhcccCcc--cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchH
Confidence            3444556666666666665554222  444455566666666666666666666665554 4566666666666666666


Q ss_pred             HHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHH-HHHHHHhcCCCCcHhhHHHHHHHHHhcC
Q 048799          171 EAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKF-FDKMVEECEVLPDIKHYGCLIDMLGRAG  238 (331)
Q Consensus       171 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g  238 (331)
                      +|+..|++..+.. +-+...+..+...|.+.|++++|.+. ++++.+.  .|-++.+|......+...|
T Consensus        83 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           83 KAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            6666666666532 12345566666666666666554443 4555543  1224555555555555544

>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=99.30  E-value=3.6e-10  Score=91.32  Aligned_cols=225  Identities=11%  Similarity=-0.064  Sum_probs=144.3

Q ss_pred             HcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHh
Q 048799           29 KWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHG  108 (331)
Q Consensus        29 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  108 (331)
                      ..|++++|.+++++..+.....+      +...+++++|...|.++                ...|...|++++|...+.
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~~~------~~~~~~~~~A~~~~~~a----------------~~~~~~~g~~~~A~~~~~   60 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKTSF------MKWKPDYDSAASEYAKA----------------AVAFKNAKQLEQAKDAYL   60 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCCS------SSCSCCHHHHHHHHHHH----------------HHHHHHTTCHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccccc------cCCCCCHHHHHHHHHHH----------------HHHHHHcCCHHHHHHHHH
Confidence            35788889988887652111100      11146777777777665                235566788888888777


Q ss_pred             hhhhcCC----CcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-----CC--cHHHHHHHHHHHHccCChHHHHHHHH
Q 048799          109 YGEKRGF----NAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-----RK--NLVSWTSIISGFAMHGMGKEAVENFE  177 (331)
Q Consensus       109 ~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~--~~~~~~~l~~~~~~~~~~~~a~~~~~  177 (331)
                      ++.+...    ......+++.+..+|...|++++|+..|++....     .+  ...+++.+...|.. |++++|+..|+
T Consensus        61 ~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~  139 (307)
T 2ifu_A           61 QEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQ  139 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHH
Confidence            7665421    1112457777888888888888888888877544     11  13567777778877 88888888888


Q ss_pred             HHHhccCCC-----CHHHHHHHHHHHhccCChHHHHHHHHHHHHhc---CCCCc-HhhHHHHHHHHHhcCCHHHHHHHHh
Q 048799          178 RMQKVVLKP-----NRVTFLSVLNACSHGGLVEEGLKFFDKMVEEC---EVLPD-IKHYGCLIDMLGRAGRLEQAEKVAS  248 (331)
Q Consensus       178 ~m~~~~~~p-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~  248 (331)
                      +........     ...++..+...+...|++++|...|++..+..   +..+. ...+..++..+...|++++|...|+
T Consensus       140 ~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~  219 (307)
T 2ifu_A          140 QAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVR  219 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            876532111     13567778888888888888888888877641   11111 2255666667777788999988888


Q ss_pred             hcccCCcc------HHHHHHHHHHHhcCCchhHHHH
Q 048799          249 GIPSEITN------VVVWRTLLGACSFHGNVEMGER  278 (331)
Q Consensus       249 ~~~~~~p~------~~~~~~l~~~~~~~g~~~~a~~  278 (331)
                      +.. ..|+      ......++.++ ..|+.+.+..
T Consensus       220 ~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          220 ESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            877 5231      12344455544 4566655555

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.30  E-value=7.2e-09  Score=82.75  Aligned_cols=233  Identities=8%  Similarity=-0.009  Sum_probs=164.9

Q ss_pred             HhcCCh-hHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcC--chhHHHHHHhhhhhcCCCcchhHHHHHHHHHH----H
Q 048799           59 TRMNRS-NGALALFRRMVACEYTEPSEITILAVFPAIWQNG--DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTY----A  131 (331)
Q Consensus        59 ~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~----~  131 (331)
                      .+.|.+ ++|++++++++..+  +-+...|+.-..++...+  ++++++.+++.++...+.  +..+|+.-..++    .
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~n--P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk--~y~aW~~R~~iL~~~~~  118 (306)
T 3dra_A           43 MKAEEYSERALHITELGINEL--ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK--NYQIWNYRQLIIGQIME  118 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT--CCHHHHHHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHC--cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc--cHHHHHHHHHHHHHHHH
Confidence            344444 67888888875422  234556777777777777  888888888888887655  566666555555    4


Q ss_pred             hc---CCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChH--HHHHHHHHHHhccCCCCHHHHHHHHHHHhccCC--
Q 048799          132 KC---GCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGK--EAVENFERMQKVVLKPNRVTFLSVLNACSHGGL--  203 (331)
Q Consensus       132 ~~---g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~--~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~--  203 (331)
                      ..   +++++++.+++++....| +..+|+.-...+.+.|.++  ++++.++++.+... -|...|+.-...+...+.  
T Consensus       119 ~l~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~  197 (306)
T 3dra_A          119 LNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLA  197 (306)
T ss_dssp             HTTTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGC
T ss_pred             hccccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccc
Confidence            45   678888888888887755 6778887777777778777  88888888887543 356666666555666665  


Q ss_pred             ----hHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHH-HHHHHhhcccC----CccHHHHHHHHHHHhcCCchh
Q 048799          204 ----VEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQ-AEKVASGIPSE----ITNVVVWRTLLGACSFHGNVE  274 (331)
Q Consensus       204 ----~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~----~p~~~~~~~l~~~~~~~g~~~  274 (331)
                          ++++++.+++++..  .+-|...|+.+...+.+.|+... +..+..++...    ..++..+..++.++.+.|+.+
T Consensus       198 ~~~~~~eEl~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~  275 (306)
T 3dra_A          198 TDNTIDEELNYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYN  275 (306)
T ss_dssp             CHHHHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHH
T ss_pred             hhhhHHHHHHHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHH
Confidence                78888888888875  23477888888777878777443 55566665543    346677888888888889999


Q ss_pred             HHHHHHHHHHH-hhcCCCccHHHHH
Q 048799          275 MGERVTRKILE-MERGYGGDYVLMY  298 (331)
Q Consensus       275 ~a~~~~~~~~~-~~~~~~~~~~~l~  298 (331)
                      +|.++++.+.+ .+|.....|...+
T Consensus       276 ~A~~~~~~l~~~~Dpir~~yW~~~~  300 (306)
T 3dra_A          276 ESRTVYDLLKSKYNPIRSNFWDYQI  300 (306)
T ss_dssp             HHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHHHHHHhccChHHHHHHHHHH
Confidence            99999999887 6887655554433

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.28  E-value=1.7e-09  Score=86.30  Aligned_cols=220  Identities=12%  Similarity=0.125  Sum_probs=177.0

Q ss_pred             hhcCc-hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcC--CHhHHHHHHHHhhhcCC-cHHHHHHHHHHH----Hcc
Q 048799           95 WQNGD-VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCG--CIFSALKLFEDISVERK-NLVSWTSIISGF----AMH  166 (331)
Q Consensus        95 ~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~----~~~  166 (331)
                      .+.|. .++|+.++++++...+.  +..+|+.-..++...|  ++++++..++.+....| +..+|+.-...+    ...
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~nP~--~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           43 MKAEEYSERALHITELGINELAS--HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCCCHHHHHHHHHHHHHCcH--HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhc
Confidence            34444 46899999999999665  7888998889999999  99999999999988766 566777655555    444


Q ss_pred             ---CChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChH--HHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC--
Q 048799          167 ---GMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVE--EGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR--  239 (331)
Q Consensus       167 ---~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--  239 (331)
                         +++++++.+++++.+.. +-+...|+.-.-.+.+.|.++  ++++.++++.+. . +-|...|+.-...+...|+  
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~-d-~~N~sAW~~R~~ll~~l~~~~  197 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT-D-LKNNSAWSHRFFLLFSKKHLA  197 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHSSGGGC
T ss_pred             cccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHhccccc
Confidence               78999999999998854 347777877777777788888  999999999986 3 3477788777777777776  


Q ss_pred             ----HHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhH-HHHHHHHHHHhh---cCCCccHHHHHHHHhhhccCcch
Q 048799          240 ----LEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEM-GERVTRKILEME---RGYGGDYVLMYNILAGVWRYGDA  310 (331)
Q Consensus       240 ----~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a  310 (331)
                          ++++++.++.+... +-|...|+.+...+.+.|+... +..+..++.+.+   |.++.+...++.++.+.|+.++|
T Consensus       198 ~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A  277 (306)
T 3dra_A          198 TDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNES  277 (306)
T ss_dssp             CHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHH
Confidence                89999999988877 5578899988888888887544 566777776655   77778888999999999999999


Q ss_pred             HHHHHHHhh
Q 048799          311 ERLRRVVDE  319 (331)
Q Consensus       311 ~~~~~~~~~  319 (331)
                      .++++.+.+
T Consensus       278 ~~~~~~l~~  286 (306)
T 3dra_A          278 RTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999999875

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.27  E-value=3.2e-09  Score=85.12  Aligned_cols=211  Identities=9%  Similarity=-0.075  Sum_probs=140.0

Q ss_pred             HHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhh
Q 048799           68 LALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDIS  147 (331)
Q Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  147 (331)
                      ...+.++ +.+...|+..+...+...+...-  +..   +......  .|.....+...+..+...|++++|.+.+.+..
T Consensus        31 ~~~is~~-e~g~~~~~~~~l~~l~~~l~~~~--~~l---~~~~~~~--~~~~~~~l~~~~~~~~~~~~y~~A~~~~~~~l  102 (293)
T 2qfc_A           31 QSEVSRI-ESGAVYPSMDILQGIAAKLQIPI--IHF---YEVLIYS--DIERKKQFKDQVIMLCKQKRYKEIYNKVWNEL  102 (293)
T ss_dssp             HHHHHHH-HTSSSCCCHHHHHHHTTTSCCCT--HHH---HHHHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHH-HCCCCCCCHHHHHHHHHHhCcCH--HHH---hcccccc--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHh
Confidence            3445555 44555676666555555443221  111   1111111  11134455567788889999999999998776


Q ss_pred             hcCCc-H------HHHHHHHHHHHccCChHHHHHHHHHHHhcc---CCCC--HHHHHHHHHHHhccCChHHHHHHHHHHH
Q 048799          148 VERKN-L------VSWTSIISGFAMHGMGKEAVENFERMQKVV---LKPN--RVTFLSVLNACSHGGLVEEGLKFFDKMV  215 (331)
Q Consensus       148 ~~~~~-~------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~---~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  215 (331)
                      ...+. .      ..+..+...+...|++++|+..+++.....   ..+.  ..+++.+...|...|++++|...++++.
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal  182 (293)
T 2qfc_A          103 KKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQIL  182 (293)
T ss_dssp             HTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55321 1      234455667778889999999998887532   1122  4578888889999999999999999887


Q ss_pred             HhcCCCCc-----HhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-------cHHHHHHHHHHHhcCCchhHH-HHHHHH
Q 048799          216 EECEVLPD-----IKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-------NVVVWRTLLGACSFHGNVEMG-ERVTRK  282 (331)
Q Consensus       216 ~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-------~~~~~~~l~~~~~~~g~~~~a-~~~~~~  282 (331)
                      +.....|+     ..++..++..|...|++++|...++++....+       -..+|..+..+|...|++++| ...+++
T Consensus       183 ~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~  262 (293)
T 2qfc_A          183 KQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             HHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            32111122     25778888889999999999999888765411       257788888899999999999 777888


Q ss_pred             HHHh
Q 048799          283 ILEM  286 (331)
Q Consensus       283 ~~~~  286 (331)
                      +...
T Consensus       263 Al~~  266 (293)
T 2qfc_A          263 ASFF  266 (293)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8763

>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=99.27  E-value=2.1e-09  Score=95.20  Aligned_cols=221  Identities=7%  Similarity=-0.054  Sum_probs=170.9

Q ss_pred             hHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHH-HHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHH
Q 048799           65 NGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQ-LIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLF  143 (331)
Q Consensus        65 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  143 (331)
                      +++..+|++++..  .+-+...|...+..+...|+.++|. .++++++...+  .+...|..++...-+.|++++|..+|
T Consensus       326 ~Rv~~~Ye~aL~~--~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P--~s~~Lwl~~a~~ee~~~~~e~aR~iy  401 (679)
T 4e6h_A          326 ARMTYVYMQAAQH--VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIP--NSAVLAFSLSEQYELNTKIPEIETTI  401 (679)
T ss_dssp             HHHHHHHHHHHHH--TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            3456778887553  3446778888888888889999997 99999987643  36777888889999999999999999


Q ss_pred             HHhhhc-----------CC------------cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhc
Q 048799          144 EDISVE-----------RK------------NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSH  200 (331)
Q Consensus       144 ~~~~~~-----------~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  200 (331)
                      +++...           .|            ....|...+....+.|+.+.|..+|.+..+.-..++...|...+..-.+
T Consensus       402 ek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~  481 (679)
T 4e6h_A          402 LSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYH  481 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            988753           13            1236888888888889999999999999875111223334333322223


Q ss_pred             -cCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc----cHHHHHHHHHHHhcCCchhH
Q 048799          201 -GGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT----NVVVWRTLLGACSFHGNVEM  275 (331)
Q Consensus       201 -~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~  275 (331)
                       .++.+.|.++|+...+.  ++-+...+...++.....|+.+.|..+|+++....|    ....|...+..-.+.|+.+.
T Consensus       482 ~~~d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~  559 (679)
T 4e6h_A          482 ISKDTKTACKVLELGLKY--FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNS  559 (679)
T ss_dssp             TTSCCHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHH
T ss_pred             hCCCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence             35589999999999986  334666777888888889999999999999988844    35788888888889999999


Q ss_pred             HHHHHHHHHHhhcCCC
Q 048799          276 GERVTRKILEMERGYG  291 (331)
Q Consensus       276 a~~~~~~~~~~~~~~~  291 (331)
                      +.++.+++.+..|+++
T Consensus       560 ~~~v~~R~~~~~P~~~  575 (679)
T 4e6h_A          560 VRTLEKRFFEKFPEVN  575 (679)
T ss_dssp             HHHHHHHHHHHSTTCC
T ss_pred             HHHHHHHHHHhCCCCc
Confidence            9999999999999873

>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=99.26  E-value=7.5e-11  Score=103.78  Aligned_cols=163  Identities=10%  Similarity=-0.010  Sum_probs=127.0

Q ss_pred             cCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 048799          133 CGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFF  211 (331)
Q Consensus       133 ~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  211 (331)
                      .|++++|...|+++....| +...|..+...+...|++++|++.|++..+.. +.+...+..+...+...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4789999999999987766 57889999999999999999999999998753 235778889999999999999999999


Q ss_pred             HHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCC-ccHHHHHHHHHHHhcC---CchhHHHHHHHHHHHhh
Q 048799          212 DKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEI-TNVVVWRTLLGACSFH---GNVEMGERVTRKILEME  287 (331)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~  287 (331)
                      ++..+.  .+.+...+..+..+|.+.|++++|.+.++++.... .+...+..+..++...   |++++|.+.++++.+.+
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            999875  23467889999999999999999999999988773 4578889999999999   99999999999999999


Q ss_pred             cCCCccHHHHH
Q 048799          288 RGYGGDYVLMY  298 (331)
Q Consensus       288 ~~~~~~~~~l~  298 (331)
                      |.+...+..+.
T Consensus       159 p~~~~~~~~l~  169 (568)
T 2vsy_A          159 VGAVEPFAFLS  169 (568)
T ss_dssp             CCCSCHHHHTT
T ss_pred             CcccChHHHhC
Confidence            99888777665

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.24  E-value=5.9e-11  Score=84.80  Aligned_cols=95  Identities=11%  Similarity=-0.073  Sum_probs=52.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh
Q 048799          225 KHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG  303 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  303 (331)
                      ..+..+...+.+.|++++|...|+++... +.++..|..+..++...|++++|+..|+++.+++|+++..+..++.+|..
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~  116 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLR  116 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHH
Confidence            34445555555555555555555555544 22345555555555555555555555555555555555555555555555


Q ss_pred             hccCcchHHHHHHHhh
Q 048799          304 VWRYGDAERLRRVVDE  319 (331)
Q Consensus       304 ~g~~~~a~~~~~~~~~  319 (331)
                      .|++++|...|++..+
T Consensus       117 lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A          117 LKAPLKAKECFELVIQ  132 (151)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555544

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.24  E-value=3.2e-09  Score=85.15  Aligned_cols=210  Identities=8%  Similarity=-0.081  Sum_probs=134.0

Q ss_pred             HHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhh
Q 048799           69 ALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISV  148 (331)
Q Consensus        69 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  148 (331)
                      ..+.++ +.+...|+..+...+...+...-+     .++..-...  .......+...+..+...|++++|...+++...
T Consensus        32 ~~~s~~-e~g~~~~~~~~l~~i~~~l~~~~~-----~~~~~~~~~--~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~  103 (293)
T 3u3w_A           32 SEVSRI-ESGAVYPSMDILQGIAAKLQIPII-----HFYEVLIYS--DIERKKQFKDQVIMLCKQKRYKEIYNKVWNELK  103 (293)
T ss_dssp             HHHHHH-HTTSCCCCHHHHHHHHHHHTCCTH-----HHHHTTTSS--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHH-HCCCCCCCHHHHHHHHHHhCcCHH-----HHhCCCCCC--cchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhc
Confidence            345555 555556777777777666543221     112111110  010122333446778888999999999988876


Q ss_pred             cCC---cH----HHHHHHHHHHHccCChHHHHHHHHHHHhccCC-CC----HHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 048799          149 ERK---NL----VSWTSIISGFAMHGMGKEAVENFERMQKVVLK-PN----RVTFLSVLNACSHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       149 ~~~---~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  216 (331)
                      ..+   +.    ..+..+...+...+++++|+..|++....... ++    ..+++.+...|...|++++|..+|+++.+
T Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~  183 (293)
T 3u3w_A          104 KEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILK  183 (293)
T ss_dssp             TCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            532   21    12334666677778889999988888763211 22    23578888888888899998888888874


Q ss_pred             hc----CCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC------Cc-cHHHHHHHHHHHhcCCc-hhHHHHHHHHH
Q 048799          217 EC----EVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE------IT-NVVVWRTLLGACSFHGN-VEMGERVTRKI  283 (331)
Q Consensus       217 ~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~p-~~~~~~~l~~~~~~~g~-~~~a~~~~~~~  283 (331)
                      ..    +..+ ...++..+...|.+.|++++|...++++...      .+ -..+|..+..++...|+ +++|.+.++++
T Consensus       184 ~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          184 QLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence            21    1111 2346777788888888888888888776654      11 15677778888888884 58888888888


Q ss_pred             HHh
Q 048799          284 LEM  286 (331)
Q Consensus       284 ~~~  286 (331)
                      .++
T Consensus       264 l~i  266 (293)
T 3u3w_A          264 SFF  266 (293)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            763

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.23  E-value=1e-09  Score=83.50  Aligned_cols=133  Identities=11%  Similarity=-0.088  Sum_probs=86.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhc
Q 048799           18 VTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQN   97 (331)
Q Consensus        18 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   97 (331)
                      ..+..+...+...|++++|...|++...++...|..+...+...|++++|+..|++.+...  +.+...+..+..++...
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHc
Confidence            3455566677777777777777777776677777777777777777777777777764322  34455666677777777


Q ss_pred             CchhHHHHHHhhhhhcCCC--------------cchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc
Q 048799           98 GDVRNCQLIHGYGEKRGFN--------------AFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN  152 (331)
Q Consensus        98 ~~~~~a~~~~~~~~~~~~~--------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  152 (331)
                      |++++|...++++.+..+.              |....++..+..++...|++++|...|+++....|+
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            7777777777777664332              112355556666666666666666666666555443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.21  E-value=2.1e-10  Score=79.51  Aligned_cols=110  Identities=8%  Similarity=-0.040  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHH
Q 048799          189 VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGAC  267 (331)
Q Consensus       189 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~  267 (331)
                      ..+......|.+.|++++|++.|++.++.  .+.+...|..+..+|.+.|++++|...++++... +.+...|..+..++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            45666777778888888888888887764  2336777778888888888888888888887766 44577888888888


Q ss_pred             hcCCchhHHHHHHHHHHHhhcCCCccHHHHHHH
Q 048799          268 SFHGNVEMGERVTRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       268 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      ...|++++|.+.|+++++++|++...+..+..+
T Consensus        92 ~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            888899999999999888888887766666543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.18  E-value=3.3e-08  Score=84.97  Aligned_cols=170  Identities=10%  Similarity=-0.124  Sum_probs=88.7

Q ss_pred             HHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 048799          138 SALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       138 ~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  216 (331)
                      .+..+|+++....| ....|...+..+.+.|+.+.|..+|++....  +.+...+..    |....+.++.   ++.+.+
T Consensus       197 Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~---~~~l~~  267 (493)
T 2uy1_A          197 RMHFIHNYILDSFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAV---YGDLKR  267 (493)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHH---HHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHH---HHHHHH
Confidence            45667777766544 5667877788788888899999999888876  233222221    1111111111   222221


Q ss_pred             hc---C-----CCC---cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcC-CchhHHHHHHHHH
Q 048799          217 EC---E-----VLP---DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFH-GNVEMGERVTRKI  283 (331)
Q Consensus       217 ~~---~-----~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~  283 (331)
                      ..   .     ..+   ...+|...+..+.+.|.++.|..+|.++ .. ..+...|...+..-... ++++.|..+|+.+
T Consensus       268 ~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~a  346 (493)
T 2uy1_A          268 KYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNEGVGPHVFIYCAFIEYYATGSRATPYNIFSSG  346 (493)
T ss_dssp             HTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTSCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHH
T ss_pred             HHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCCCCChHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            10   0     000   1234455555555566677777777776 32 12333343222222222 2567777777777


Q ss_pred             HHhhcCCCccHHHHHHHHhhhccCcchHHHHHHH
Q 048799          284 LEMERGYGGDYVLMYNILAGVWRYGDAERLRRVV  317 (331)
Q Consensus       284 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  317 (331)
                      .+..|+.+..+..++....+.|+.+.|..+++.+
T Consensus       347 l~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          347 LLKHPDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            7655655444444555555555555555555543

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.17  E-value=1.4e-09  Score=82.72  Aligned_cols=127  Identities=13%  Similarity=-0.050  Sum_probs=104.0

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHH
Q 048799           50 SWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDT  129 (331)
Q Consensus        50 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  129 (331)
                      .+..+...+...|++++|+..|++.     +.|+...+..+..++...|++++|...++++++..+.  +..++..++.+
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~--~~~~~~~lg~~   80 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH--LAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc--chHHHHHHHHH
Confidence            4556777888899999999999887     3567888888999999999999999999998887543  67788889999


Q ss_pred             HHhcCCHhHHHHHHHHhhhcCC-c----------------HHHHHHHHHHHHccCChHHHHHHHHHHHhcc
Q 048799          130 YAKCGCIFSALKLFEDISVERK-N----------------LVSWTSIISGFAMHGMGKEAVENFERMQKVV  183 (331)
Q Consensus       130 ~~~~g~~~~A~~~~~~~~~~~~-~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  183 (331)
                      +...|++++|...|+++....| +                ...+..+..++...|++++|...|++..+..
T Consensus        81 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           81 YYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            9999999999999998877533 2                2677888888888899999999888887743

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.17  E-value=3.6e-09  Score=84.83  Aligned_cols=164  Identities=13%  Similarity=-0.007  Sum_probs=126.9

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhcc-CCCCH----HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc----Hhh
Q 048799          156 WTSIISGFAMHGMGKEAVENFERMQKVV-LKPNR----VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD----IKH  226 (331)
Q Consensus       156 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~  226 (331)
                      +...+..+...|++++|..++++..... ..|+.    ..+..+...+...|++++|...++++.+...-.++    ..+
T Consensus        78 l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 3u3w_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHH
Confidence            3445677889999999999999987743 22232    13345677777888999999999999874111223    336


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccC-------Cc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC------Cc
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSE-------IT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY------GG  292 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~  292 (331)
                      ++.+...|...|++++|...|+++...       .+ ...++..+...|...|++++|...++++++..+..      ..
T Consensus       158 ~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~  237 (293)
T 3u3w_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHH
Confidence            899999999999999999999998742       12 23578889999999999999999999999865433      35


Q ss_pred             cHHHHHHHHhhhcc-CcchHHHHHHHhh
Q 048799          293 DYVLMYNILAGVWR-YGDAERLRRVVDE  319 (331)
Q Consensus       293 ~~~~l~~~~~~~g~-~~~a~~~~~~~~~  319 (331)
                      .|..++.++.+.|+ +++|.+.+++..+
T Consensus       238 ~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          238 LYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            67889999999996 5999998887754

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.16  E-value=3.7e-10  Score=88.19  Aligned_cols=195  Identities=7%  Similarity=-0.178  Sum_probs=116.3

Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHH-------HHHHHhcCCHhHHHHHHHHhhhcCCc----------------
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL-------IDTYAKCGCIFSALKLFEDISVERKN----------------  152 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~g~~~~A~~~~~~~~~~~~~----------------  152 (331)
                      ..++...|.+.|.++....+.  ....|..+       ...+...++..+++..+.+.....|+                
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~--~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES--ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChh--hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccc
Confidence            456666677777776666444  45566555       45555555556665555555443221                


Q ss_pred             ------HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc--H
Q 048799          153 ------LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD--I  224 (331)
Q Consensus       153 ------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~  224 (331)
                            ...+..+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...+. . .|.  .
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                  1123345556667777777777777665533  44334444555666777777777777644321 1 111  2


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcccCC--c--cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHH
Q 048799          225 KHYGCLIDMLGRAGRLEQAEKVASGIPSEI--T--NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLM  297 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  297 (331)
                      ..+..+..++.+.|++++|+..|++.....  |  ..........++.+.|+.++|..+|+++...+|+ ......|
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL  247 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAAL  247 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHH
Confidence            356666777777777777777777775441  3  2345556666777777777777777777777776 4444433

>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=99.15  E-value=1.1e-10  Score=92.99  Aligned_cols=192  Identities=9%  Similarity=-0.032  Sum_probs=104.0

Q ss_pred             chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHH
Q 048799           83 SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIIS  161 (331)
Q Consensus        83 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~  161 (331)
                      +...+..+...+...|++++|...|+++++..+.  +...+..+..+|.+.|++++|...++++....| +...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL--VAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc--cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            4456666777777777777777777777776443  566677777777777777777777777766655 4566777777


Q ss_pred             HHHccCChHHHHHHHHHHHhccCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCH
Q 048799          162 GFAMHGMGKEAVENFERMQKVVLKPNR-VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL  240 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  240 (331)
                      ++...|++++|+..|++..+..  |+. ..+...+....+   ...+.. +...... ..+.+......+...  ..|+.
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~-~~~~~~~i~~~l~~l--~~~~~  151 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALR---IAKKKR-WNSIEER-RIHQESELHSYLTRL--IAAER  151 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHH---HHHHHH-HHHHHHT-CCCCCCHHHHHHHHH--HHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHH---HHHHHH-HHHHHHH-HHhhhHHHHHHHHHH--HHHHH
Confidence            7777777777777777766532  211 011111111111   111111 1112222 333344443333222  25666


Q ss_pred             HHHHHHHhhcccCCcc-HHHHHHHHHHHhcC-CchhHHHHHHHHHHH
Q 048799          241 EQAEKVASGIPSEITN-VVVWRTLLGACSFH-GNVEMGERVTRKILE  285 (331)
Q Consensus       241 ~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~  285 (331)
                      ++|.+.++.+.+..|+ ......+...+.+. +.+++|.++|.++.+
T Consensus       152 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          152 ERELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            6666666666655333 22333333333333 445566666665544

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.15  E-value=5.4e-09  Score=83.81  Aligned_cols=166  Identities=12%  Similarity=-0.040  Sum_probs=77.8

Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcch----hHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-----CCc--HH
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFH----IHVSNCLIDTYAKCGCIFSALKLFEDISVE-----RKN--LV  154 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~--~~  154 (331)
                      .+...+..+...|++++|.+.+.+..+......+    ...+..+...+...|++++|+..++++...     .+.  ..
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            3334444445555555555555544443222101    112233444555555555555555555432     111  23


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhc-cCCCC-----HHHHHHHHHHHhccCChHHHHHHHHHHHHhc---CCCC-cH
Q 048799          155 SWTSIISGFAMHGMGKEAVENFERMQKV-VLKPN-----RVTFLSVLNACSHGGLVEEGLKFFDKMVEEC---EVLP-DI  224 (331)
Q Consensus       155 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~  224 (331)
                      +|+.+...|...|++++|+..|++..+. ...|+     ..++..+...|...|++++|...+++..+..   +... -.
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            4555555555566666666665555421 00111     1345555555666666666666665554320   0001 13


Q ss_pred             hhHHHHHHHHHhcCCHHHH-HHHHhhcc
Q 048799          225 KHYGCLIDMLGRAGRLEQA-EKVASGIP  251 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A-~~~~~~~~  251 (331)
                      .++..+...|.+.|++++| ...++++.
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            4555555566666666666 44455443

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.14  E-value=9.3e-10  Score=80.00  Aligned_cols=126  Identities=10%  Similarity=-0.027  Sum_probs=66.1

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhc
Q 048799          191 FLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSF  269 (331)
Q Consensus       191 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~  269 (331)
                      +..+...+...|++++|...|++..+.  .+.+...+..+...+...|++++|...++++... +.+...+..+..++..
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            344444455555555555555555443  1223445555555555555555555555555444 2234555555556666


Q ss_pred             CCchhHHHHHHHHHHHhhcCCCccHHHHHHH--HhhhccCcchHHHHHHHh
Q 048799          270 HGNVEMGERVTRKILEMERGYGGDYVLMYNI--LAGVWRYGDAERLRRVVD  318 (331)
Q Consensus       270 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~  318 (331)
                      .|++++|...++++.+..|.+...+..+..+  +...|++++|...++...
T Consensus        94 ~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            6666666666666666555554444333222  555566666666555443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.13  E-value=1.2e-09  Score=76.12  Aligned_cols=118  Identities=12%  Similarity=0.045  Sum_probs=82.1

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHH
Q 048799          187 NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLG  265 (331)
Q Consensus       187 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~  265 (331)
                      +...+..+...+...|++++|...++++.+.  .+.+...+..+...+...|++++|.+.++++... +.+...+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            4455666666666677777777777766643  2225566666666777777777777777766655 335667777778


Q ss_pred             HHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhcc
Q 048799          266 ACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWR  306 (331)
Q Consensus       266 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  306 (331)
                      ++...|++++|.+.++++.+..|.+...+..++.++...|+
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            88888888888888888888888777777777777766653

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.12  E-value=2.3e-09  Score=83.79  Aligned_cols=200  Identities=10%  Similarity=-0.036  Sum_probs=136.5

Q ss_pred             hcCChhHHHHHHHHHHhccCCCCchHHHHHH-------HHHHhhcCchhHHHHHHhhhhh------------cCCC----
Q 048799           60 RMNRSNGALALFRRMVACEYTEPSEITILAV-------FPAIWQNGDVRNCQLIHGYGEK------------RGFN----  116 (331)
Q Consensus        60 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~------------~~~~----  116 (331)
                      ..++...|.+.|.++....  +-....|..+       ...+...++..+++..+...++            .|.-    
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            4677777777777774422  2334566655       4455555555555555555544            2210    


Q ss_pred             c---chhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCC--HHHH
Q 048799          117 A---FHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPN--RVTF  191 (331)
Q Consensus       117 ~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~  191 (331)
                      .   .-..+...+...+...|++++|.++|+.+....|+......+...+.+.+++++|+..|+...... .|.  ...+
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~  174 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAG  174 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHH
Confidence            0   013445567788999999999999999887777754466666678889999999999998554321 111  2356


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhcCCCC--cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHH
Q 048799          192 LSVLNACSHGGLVEEGLKFFDKMVEECEVLP--DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTL  263 (331)
Q Consensus       192 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l  263 (331)
                      ..+..++...|++++|+..|++.... ...|  ..........++.+.|+.++|..+|+++....|+...+..|
T Consensus       175 ~~LG~al~~LG~~~eAl~~l~~a~~g-~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~~~~~~aL  247 (282)
T 4f3v_A          175 VAHGVAAANLALFTEAERRLTEANDS-PAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPEPKVAAAL  247 (282)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTS-TTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCCHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhcC-CCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHH
Confidence            77888899999999999999998753 3324  33466677778899999999999999998876664444443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.12  E-value=1.4e-09  Score=74.71  Aligned_cols=116  Identities=16%  Similarity=0.124  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHH
Q 048799          188 RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGA  266 (331)
Q Consensus       188 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~  266 (331)
                      ...+..+...+...|++++|.++++++.+.  .+.+...+..+...+...|++++|..+++++... +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            445666666677777777777777777654  2335566677777777777777777777776655 3356677777888


Q ss_pred             HhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhc
Q 048799          267 CSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVW  305 (331)
Q Consensus       267 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  305 (331)
                      +...|++++|...++++.+..|+++..+..++.++...|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            888888888888888888888877777777776665543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.12  E-value=1.6e-09  Score=75.16  Aligned_cols=118  Identities=10%  Similarity=-0.061  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHH
Q 048799          188 RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGA  266 (331)
Q Consensus       188 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~  266 (331)
                      ...+..+...+...|++++|...++++.+.  .+.+...+..+...+...|++++|.+.++++... +.+...+..+..+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            345556666667777777777777777654  2335666677777777777777777777776655 3346777777888


Q ss_pred             HhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccC
Q 048799          267 CSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRY  307 (331)
Q Consensus       267 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  307 (331)
                      +...|++++|...++++.+..|+++..+..++.++...|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            88888888888888888888887777777788888777765

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.11  E-value=3.4e-10  Score=78.39  Aligned_cols=102  Identities=8%  Similarity=0.049  Sum_probs=92.3

Q ss_pred             CCCc-HhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHH
Q 048799          220 VLPD-IKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLM  297 (331)
Q Consensus       220 ~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  297 (331)
                      +.|+ ...+......|.+.|++++|.+.|+++... +.+...|..+..++...|++++|+..++++++++|+++..|..+
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l   87 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRK   87 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence            4453 456778889999999999999999998877 45689999999999999999999999999999999999999999


Q ss_pred             HHHHhhhccCcchHHHHHHHhhcc
Q 048799          298 YNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       298 ~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      +.++...|++++|.+.+++..+..
T Consensus        88 g~~~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           88 AACLVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHC
Confidence            999999999999999999988754

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.11  E-value=1.8e-10  Score=82.25  Aligned_cols=117  Identities=11%  Similarity=-0.055  Sum_probs=92.1

Q ss_pred             HHHHHHHhccCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhccc
Q 048799          174 ENFERMQKVVLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPS  252 (331)
Q Consensus       174 ~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  252 (331)
                      ..|+++..  ..| +...+..+...+...|++++|...|+++.+.  -+.+...+..+..+|...|++++|...|+++..
T Consensus         8 ~~~~~al~--~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   83 (148)
T 2vgx_A            8 GTIAMLNE--ISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAV   83 (148)
T ss_dssp             CSHHHHTT--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHc--CCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            34555554  334 3456667788888999999999999998875  234777888888899999999999999998877


Q ss_pred             C-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccH
Q 048799          253 E-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDY  294 (331)
Q Consensus       253 ~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  294 (331)
                      . +.++..+..+..++...|++++|...|+++++..|+++...
T Consensus        84 l~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  126 (148)
T 2vgx_A           84 MDIXEPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEFX  126 (148)
T ss_dssp             HSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGH
T ss_pred             cCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcch
Confidence            6 33568888888999999999999999999999888875543

>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=99.08  E-value=1.2e-08  Score=81.14  Aligned_cols=194  Identities=6%  Similarity=-0.085  Sum_probs=119.7

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHH
Q 048799           47 NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL  126 (331)
Q Consensus        47 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  126 (331)
                      +...+..+...+...|++++|+..|++.+...  +.+...+..+..++...|++++|...++++++..+.  +..++..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~--~~~~~~~l   78 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ--SVKAHFFL   78 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT--CHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC--CHHHHHHH
Confidence            44567777888888888888888888874432  236677888888888888888888888888877543  67778888


Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhcCCcH-HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChH
Q 048799          127 IDTYAKCGCIFSALKLFEDISVERKNL-VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVE  205 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  205 (331)
                      +.++...|++++|...|+++....|+. ..+...+....+   ..++.. +........+.+......+. .+ ..|+.+
T Consensus        79 g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~i~~~l~-~l-~~~~~~  152 (281)
T 2c2l_A           79 GQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALR---IAKKKR-WNSIEERRIHQESELHSYLT-RL-IAAERE  152 (281)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHH---HHHHHH-HHHHHHTCCCCCCHHHHHHH-HH-HHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHH---HHHHHH-HHHHHHHHHhhhHHHHHHHH-HH-HHHHHH
Confidence            888888888888888888876654421 111111111111   111111 11122222333333333332 22 257778


Q ss_pred             HHHHHHHHHHHhcCCCCc-HhhHHHHHHHHHhc-CCHHHHHHHHhhcccC
Q 048799          206 EGLKFFDKMVEECEVLPD-IKHYGCLIDMLGRA-GRLEQAEKVASGIPSE  253 (331)
Q Consensus       206 ~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  253 (331)
                      +|.+.++...+   ..|+ ......+...+.+. +.+++|.++|..+.+.
T Consensus       153 ~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          153 RELEECQRNHE---GHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHTTTSGGGT---TTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHhhhc---cccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            88877777664   2443 33444444444444 6677888888877764

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.08  E-value=4.4e-09  Score=79.17  Aligned_cols=97  Identities=8%  Similarity=-0.063  Sum_probs=43.5

Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHhhhc---CC-c----HHHHHHHHHHHHccCChHHHHHHHHHHHhcc---CCCC-
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDISVE---RK-N----LVSWTSIISGFAMHGMGKEAVENFERMQKVV---LKPN-  187 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~---~~p~-  187 (331)
                      ..++..+...+...|++++|...+++....   .+ +    ...+..+...+...|++++|...+++.....   ..+. 
T Consensus        66 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  145 (203)
T 3gw4_A           66 HRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVA  145 (203)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHH
Confidence            344444555555555555555555444332   11 1    2234444445555555555555555443211   0011 


Q ss_pred             -HHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 048799          188 -RVTFLSVLNACSHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       188 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  216 (331)
                       ..++..+...+...|++++|.+.+++..+
T Consensus       146 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          146 IACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence             12234445555555555555555555444

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.07  E-value=2.9e-09  Score=75.95  Aligned_cols=98  Identities=8%  Similarity=0.011  Sum_probs=52.5

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                      +...+..+...+.+.|++++|...|+++....| +...|..+..+|...|++++|+..|++..... +.+...+..+..+
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~  113 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHH
Confidence            444555555555555555555555555555444 34555555555555555555555555555432 1123444555555


Q ss_pred             HhccCChHHHHHHHHHHHHh
Q 048799          198 CSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~  217 (331)
                      |...|++++|...|+++.+.
T Consensus       114 ~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            55555555555555555543

>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=99.06  E-value=2.7e-07  Score=74.52  Aligned_cols=230  Identities=11%  Similarity=0.075  Sum_probs=152.8

Q ss_pred             HHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcC-chhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhc-C-
Q 048799           58 YTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNG-DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKC-G-  134 (331)
Q Consensus        58 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-  134 (331)
                      ..+.+..++|++++++++..+  +-+..+|+.--.++...| ++++++.+++.++...+.  +..+|+.-..++... + 
T Consensus        64 ~~~~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK--ny~aW~hR~wlL~~l~~~  139 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK--SYQVWHHRLLLLDRISPQ  139 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC--CHHHHHHHHHHHHHHCCS
T ss_pred             HHhCCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHHhcCC
Confidence            344455567888888885432  234556676666666667 588888888888877555  777787777777776 6 


Q ss_pred             CHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChH--------HHHHHHHHHHhccCCCCHHHHHHHHHHHhccCC--
Q 048799          135 CIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGK--------EAVENFERMQKVVLKPNRVTFLSVLNACSHGGL--  203 (331)
Q Consensus       135 ~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~--------~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~--  203 (331)
                      ++++++++++++....| +..+|+.-...+.+.|.++        ++++.++++.+.. +-|...|+.....+.+.+.  
T Consensus       140 ~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~  218 (349)
T 3q7a_A          140 DPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAE  218 (349)
T ss_dssp             CCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCC
T ss_pred             ChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccc
Confidence            78888888888877755 6677776655555555555        8888888887754 2466677777666666665  


Q ss_pred             -----hHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCH--------------------HHHHHHHhhcccC-----
Q 048799          204 -----VEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL--------------------EQAEKVASGIPSE-----  253 (331)
Q Consensus       204 -----~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~~~~~-----  253 (331)
                           ++++++.+++++..  .+-|...|+-+-..+.+.|+.                    .....+...+...     
T Consensus       219 ~~~~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  296 (349)
T 3q7a_A          219 TSSRSLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPED  296 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSS
T ss_pred             cchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccc
Confidence                 57788888887764  233667777666666665543                    3444444444433     


Q ss_pred             --CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH-hhcCCCccH
Q 048799          254 --ITNVVVWRTLLGACSFHGNVEMGERVTRKILE-MERGYGGDY  294 (331)
Q Consensus       254 --~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~  294 (331)
                        .+++..+..++..|...|+.++|.++++.+.+ .+|.....|
T Consensus       297 ~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw  340 (349)
T 3q7a_A          297 TPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYW  340 (349)
T ss_dssp             CCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHH
T ss_pred             cCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHH
Confidence              25677788888888888888888888888864 566553333

>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=99.06  E-value=1.9e-09  Score=88.12  Aligned_cols=94  Identities=10%  Similarity=-0.086  Sum_probs=63.8

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHh
Q 048799          224 IKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILA  302 (331)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  302 (331)
                      ...+..+..+|.+.|++++|...++++... +.+...|..+..+|...|++++|...|+++++++|++...+..++.++.
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  275 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            356666666677777777777777766655 3356667777777777777777777777777777777677777777777


Q ss_pred             hhccCcch-HHHHHHH
Q 048799          303 GVWRYGDA-ERLRRVV  317 (331)
Q Consensus       303 ~~g~~~~a-~~~~~~~  317 (331)
                      ..|+.++| ...++.|
T Consensus       276 ~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          276 RIRRQLAREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            77777766 3344444

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.05  E-value=1.5e-08  Score=76.27  Aligned_cols=118  Identities=14%  Similarity=0.024  Sum_probs=59.6

Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc------CC-cHHHHHHHHHHHHccCC
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE------RK-NLVSWTSIISGFAMHGM  168 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~-~~~~~~~l~~~~~~~~~  168 (331)
                      ..|++++|.+.++.+...  ++....++..+...+...|++++|...+++....      .+ ...++..+...+...|+
T Consensus         4 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH--PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS--TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             ccccHHHHHHHHHHhcCC--hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            345555555533333221  1114555666666666666666666666665542      11 23445556666666666


Q ss_pred             hHHHHHHHHHHHhcc--C--CC--CHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 048799          169 GKEAVENFERMQKVV--L--KP--NRVTFLSVLNACSHGGLVEEGLKFFDKMV  215 (331)
Q Consensus       169 ~~~a~~~~~~m~~~~--~--~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  215 (331)
                      +++|+..+++....-  .  .|  ....+..+...+...|++++|...+++..
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  134 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSL  134 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            666666666554420  1  11  12334445555555566666665555554

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.04  E-value=7.8e-10  Score=81.56  Aligned_cols=127  Identities=9%  Similarity=0.062  Sum_probs=102.1

Q ss_pred             HHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHH-HHhcCCH-
Q 048799          163 FAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDM-LGRAGRL-  240 (331)
Q Consensus       163 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~-  240 (331)
                      +...|++++|+..+++..... +.+...+..+...|...|++++|...|+++.+. . +.+...+..+..+ +...|++ 
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-~-p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL-R-GENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-H-CSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-C-CCCHHHHHHHHHHHHHhcCCcc
Confidence            456788999999999887753 346778888999999999999999999999875 2 3467788888888 7788998 


Q ss_pred             -HHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc
Q 048799          241 -EQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG  292 (331)
Q Consensus       241 -~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  292 (331)
                       ++|...++++....| +...+..+..++...|++++|...++++.+..|+++.
T Consensus        97 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  150 (177)
T 2e2e_A           97 TAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRIN  150 (177)
T ss_dssp             CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSC
T ss_pred             hHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCcc
Confidence             999999999887734 5788888999999999999999999999999888744

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.03  E-value=6.4e-09  Score=74.17  Aligned_cols=98  Identities=10%  Similarity=-0.033  Sum_probs=65.4

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                      +...+..+...+...|++++|...|+++....| +...|..+..++...|++++|+..|++..... +.+...+..+..+
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~   98 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            555666667777777777777777777665544 55666667777777777777777777766543 2244556666667


Q ss_pred             HhccCChHHHHHHHHHHHHh
Q 048799          198 CSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~  217 (331)
                      +...|++++|...|++..+.
T Consensus        99 ~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            77777777777777776654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.02  E-value=9.1e-08  Score=82.19  Aligned_cols=300  Identities=11%  Similarity=-0.055  Sum_probs=185.0

Q ss_pred             ccchhHHhhhcC--CchHHHHHHHHHHHHHcCC-HHHHHHHHhhCC------CCCchhHHHHHHHHH----hcCChhHHH
Q 048799            2 LKDGSKLFDELP--ERNLVTWNVMITGLVKWGE-LEYARSLFEEMP------CRNVVSWTGIIDGYT----RMNRSNGAL   68 (331)
Q Consensus         2 ~~~A~~~~~~~~--~p~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~------~~~~~~~~~l~~~~~----~~~~~~~a~   68 (331)
                      ++.+.++|++..  .|+...|...+....+.++ .+....+|+...      ..+...|...+..+.    .+|+.+.+.
T Consensus        30 ~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR  109 (493)
T 2uy1_A           30 YRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIR  109 (493)
T ss_dssp             HHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHH
Confidence            466788888866  5888999988888777764 344556666533      134456666665443    246778888


Q ss_pred             HHHHHHHhccCCCCchHHHHHHH--------------------------------------------HHHhh--cCc---
Q 048799           69 ALFRRMVACEYTEPSEITILAVF--------------------------------------------PAIWQ--NGD---   99 (331)
Q Consensus        69 ~~~~~~~~~~~~~~~~~~~~~l~--------------------------------------------~~~~~--~~~---   99 (331)
                      .+|++.+. .+...-...|....                                            ..|..  .++   
T Consensus       110 ~iy~rAL~-~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~  188 (493)
T 2uy1_A          110 NGYMRALQ-TPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMK  188 (493)
T ss_dssp             HHHHHHHT-SCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTC
T ss_pred             HHHHHHHh-ChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCcc
Confidence            89888854 21111011111000                                            00100  011   


Q ss_pred             ------hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHH-HHHHHHHHHHccCChHHH
Q 048799          100 ------VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLV-SWTSIISGFAMHGMGKEA  172 (331)
Q Consensus       100 ------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a  172 (331)
                            .+.+..+|++++...+.  ++.+|...+..+.+.|+.++|..+|+++... |... .|..    |....+.++.
T Consensus       189 ~~~~~~~~Rv~~~ye~al~~~p~--~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~-P~~~~l~~~----y~~~~e~~~~  261 (493)
T 2uy1_A          189 LGGRPHESRMHFIHNYILDSFYY--AEEVYFFYSEYLIGIGQKEKAKKVVERGIEM-SDGMFLSLY----YGLVMDEEAV  261 (493)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHTTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CCSSHHHHH----HHHHTTCTHH
T ss_pred             CcchhhHHHHHHHHHHHHHcCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCcHHHHHH----HHhhcchhHH
Confidence                  23356677777776433  6778888888899999999999999999988 7543 3332    2211111121


Q ss_pred             HHHHHHHHhc---------cCCC---CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC-C
Q 048799          173 VENFERMQKV---------VLKP---NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG-R  239 (331)
Q Consensus       173 ~~~~~~m~~~---------~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~  239 (331)
                         ++.+.+.         +..+   ....|...+....+.++.+.|..+|+++ +. . ..+..+|...+..-...| +
T Consensus       262 ---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~-~~~~~v~i~~A~lE~~~~~d  335 (493)
T 2uy1_A          262 ---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-E-GVGPHVFIYCAFIEYYATGS  335 (493)
T ss_dssp             ---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-S-CCCHHHHHHHHHHHHHHHCC
T ss_pred             ---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-C-CCChHHHHHHHHHHHHHCCC
Confidence               2222211         0011   1244666666666778899999999998 43 1 234445544333333333 6


Q ss_pred             HHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHh
Q 048799          240 LEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVD  318 (331)
Q Consensus       240 ~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  318 (331)
                      .+.|..+|+.+....| ++..|...+......|+.+.|..+|+.+    +.....+...+..-...|+.+.+..++++..
T Consensus       336 ~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~----~k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          336 RATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRL----EKTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHS----CCBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH----HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            9999999998877634 3556666777777889999999999987    2344567777777778899888888887776


Q ss_pred             h
Q 048799          319 E  319 (331)
Q Consensus       319 ~  319 (331)
                      +
T Consensus       412 ~  412 (493)
T 2uy1_A          412 D  412 (493)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.02  E-value=1.6e-09  Score=88.56  Aligned_cols=143  Identities=12%  Similarity=-0.064  Sum_probs=89.6

Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcH----------------HHHHHH
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNL----------------VSWTSI  159 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----------------~~~~~l  159 (331)
                      ..+++++|...++...+..  |.+...+..+...+.+.|++++|...|+++....|+.                .+|..+
T Consensus       125 ~L~~~~~A~~~~~~a~~~~--p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nl  202 (336)
T 1p5q_A          125 HLKSFEKAKESWEMNSEEK--LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNL  202 (336)
T ss_dssp             EEEEEECCCCGGGCCHHHH--HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHH
T ss_pred             EEeecccccchhcCCHHHH--HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHH
Confidence            3455666766666665543  2256777788888888888888888888887665542                556666


Q ss_pred             HHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC
Q 048799          160 ISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR  239 (331)
Q Consensus       160 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (331)
                      ..+|.+.|++++|+..|++.++.. +.+...+..+..+|...|++++|...|+++.+.  .+.+...+..+..++.+.|+
T Consensus       203 a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~  279 (336)
T 1p5q_A          203 AMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQRIRR  279 (336)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHH
Confidence            666666666666666666665532 224555556666666666666666666666553  12244555555555666666


Q ss_pred             HHHH
Q 048799          240 LEQA  243 (331)
Q Consensus       240 ~~~A  243 (331)
                      .++|
T Consensus       280 ~~~a  283 (336)
T 1p5q_A          280 QLAR  283 (336)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5555

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.00  E-value=7.9e-07  Score=75.23  Aligned_cols=194  Identities=8%  Similarity=-0.057  Sum_probs=143.8

Q ss_pred             HHHHHHcCCHHHHHHHHhhCCC--C---Cc---------------hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc
Q 048799           24 ITGLVKWGELEYARSLFEEMPC--R---NV---------------VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS   83 (331)
Q Consensus        24 ~~~~~~~g~~~~A~~~~~~~~~--~---~~---------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   83 (331)
                      ...+.+.|++++|++.|..+.+  +   +.               .++..|+..|...|++++|.+.+..+....+..++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            4567889999999999988652  1   10               24778899999999999999999988543333233


Q ss_pred             hH----HHHHHHHHHhhcCchhHHHHHHhhhhh----cCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc------
Q 048799           84 EI----TILAVFPAIWQNGDVRNCQLIHGYGEK----RGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE------  149 (331)
Q Consensus        84 ~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------  149 (331)
                      ..    ..+.+...+...|+.+.+..++.....    .+..+....++..++..|...|++++|..+++++...      
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            22    233344455678899999999887764    2333324668889999999999999999999987543      


Q ss_pred             CC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhcc--CC-C-C--HHHHHHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          150 RK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVV--LK-P-N--RVTFLSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       150 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~-p-~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      .+ ...++..++..|...|++++|..++++.....  .. | .  ...+..+...+...|++++|...|.+..+.
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~~  245 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFES  245 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            12 34678889999999999999999998876531  21 2 1  245667777888999999999988887653

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.00  E-value=2.7e-08  Score=72.09  Aligned_cols=91  Identities=12%  Similarity=0.078  Sum_probs=36.3

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccC
Q 048799          124 NCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGG  202 (331)
Q Consensus       124 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~  202 (331)
                      ..++..+...|++++|...|++.....| +..++..+...+...|++++|+..+++..... +.+...+..+..++...|
T Consensus        17 ~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~   95 (166)
T 1a17_A           17 KTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   95 (166)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhc
Confidence            3344444444444444444444433322 23334444444444444444444444433321 112333333333444444


Q ss_pred             ChHHHHHHHHHHH
Q 048799          203 LVEEGLKFFDKMV  215 (331)
Q Consensus       203 ~~~~a~~~~~~~~  215 (331)
                      ++++|...++++.
T Consensus        96 ~~~~A~~~~~~a~  108 (166)
T 1a17_A           96 KFRAALRDYETVV  108 (166)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHH
Confidence            4444444444433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.98  E-value=1.3e-08  Score=73.92  Aligned_cols=110  Identities=14%  Similarity=0.005  Sum_probs=86.2

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHH
Q 048799          187 NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLG  265 (331)
Q Consensus       187 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~  265 (331)
                      +...+..+...+...|++++|...|++..+.  .+.+...+..+..+|.+.|++++|...|+++... +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            3456667777778888888888888888764  2336777888888888888888888888888776 335788888889


Q ss_pred             HHhcCCchhHHHHHHHHHHHhhcCCCccHHHHH
Q 048799          266 ACSFHGNVEMGERVTRKILEMERGYGGDYVLMY  298 (331)
Q Consensus       266 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  298 (331)
                      ++...|++++|...|++++++.|++...+....
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            999999999999999999999998877554433

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.98  E-value=3.2e-09  Score=75.19  Aligned_cols=107  Identities=13%  Similarity=-0.055  Sum_probs=87.7

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHH
Q 048799          188 RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGA  266 (331)
Q Consensus       188 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~  266 (331)
                      ...+..+...+...|++++|...|+++.+.  -+.+...|..+..+|.+.|++++|...|+++... +.++..+..+..+
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   95 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Confidence            345666777888999999999999998875  2347778888889999999999999999998877 3456788888999


Q ss_pred             HhcCCchhHHHHHHHHHHHhhcCCCccHHH
Q 048799          267 CSFHGNVEMGERVTRKILEMERGYGGDYVL  296 (331)
Q Consensus       267 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  296 (331)
                      +...|++++|.+.|+++++..|+++.....
T Consensus        96 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  125 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARALAAAQPAHEAL  125 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCcchHHH
Confidence            999999999999999999988887555443

>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=98.98  E-value=1.1e-08  Score=75.36  Aligned_cols=120  Identities=5%  Similarity=-0.023  Sum_probs=66.3

Q ss_pred             hhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHH-HHccCCh--H
Q 048799           95 WQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISG-FAMHGMG--K  170 (331)
Q Consensus        95 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~-~~~~~~~--~  170 (331)
                      ...|++++|...+++.++..+.  +..++..++.+|...|++++|...|+++....| +...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p~--~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANPQ--NSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCCS--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchH
Confidence            3455666666666666555432  455566666666666666666666666655433 44555555555 5556665  6


Q ss_pred             HHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          171 EAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       171 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      +|+..|+++.... +.+...+..+...+...|++++|...++++.+.
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            6666666665532 123445555556666666666666666666543

>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=98.98  E-value=2.7e-07  Score=74.23  Aligned_cols=244  Identities=7%  Similarity=-0.088  Sum_probs=136.3

Q ss_pred             hhHHHHHHH---HHhcCChh-HHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCc----------hhHHHHHHhhhhhcC
Q 048799           49 VSWTGIIDG---YTRMNRSN-GALALFRRMVACEYTEPSEITILAVFPAIWQNGD----------VRNCQLIHGYGEKRG  114 (331)
Q Consensus        49 ~~~~~l~~~---~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~  114 (331)
                      ..|..+...   ..+.|.+. +|++++..++..+  |-+...|+.--.++...+.          +++++.+++.++...
T Consensus        27 ~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~n--P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~  104 (331)
T 3dss_A           27 KLYQSATQAVFQKRQAGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN  104 (331)
T ss_dssp             HHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC
Confidence            344444433   34556554 6788888774422  1233445544444433332          567777777777765


Q ss_pred             CCcchhHHHHHHHHHHHhcC--CHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCC-hHHHHHHHHHHHhccCCCCHHH
Q 048799          115 FNAFHIHVSNCLIDTYAKCG--CIFSALKLFEDISVERK-NLVSWTSIISGFAMHGM-GKEAVENFERMQKVVLKPNRVT  190 (331)
Q Consensus       115 ~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~  190 (331)
                      +.  +..+|+.-..++...|  .+++++.+++++....| +..+|+.-..++...|. ++++++.+.+++... +-|...
T Consensus       105 PK--ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SA  181 (331)
T 3dss_A          105 PK--SYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSS  181 (331)
T ss_dssp             TT--CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHH
T ss_pred             CC--CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHH
Confidence            44  6677776666666666  37777777777776654 66677766666666666 477777777777654 235555


Q ss_pred             HHHHHHHHhcc--------------CChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhc-----------CCHHHHHH
Q 048799          191 FLSVLNACSHG--------------GLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRA-----------GRLEQAEK  245 (331)
Q Consensus       191 ~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~A~~  245 (331)
                      |+.....+...              +.++++++.+......  .|-|...|+-+-..+.+.           +.++++.+
T Consensus       182 W~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~--~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~  259 (331)
T 3dss_A          182 WHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELE  259 (331)
T ss_dssp             HHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHH
Confidence            55544444433              3456666777666653  223555555444444433           34566666


Q ss_pred             HHhhcccCCccH-HHHHHHH---HHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHH
Q 048799          246 VASGIPSEITNV-VVWRTLL---GACSFHGNVEMGERVTRKILEMERGYGGDYVLMYN  299 (331)
Q Consensus       246 ~~~~~~~~~p~~-~~~~~l~---~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  299 (331)
                      .++++.+..|+. ..+..++   .+....|..+++...+.++.+++|....-|..+..
T Consensus       260 ~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~  317 (331)
T 3dss_A          260 SCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRS  317 (331)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHH
T ss_pred             HHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHH
Confidence            666666554432 1111111   11123455566666666666666665444444433

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.97  E-value=6.8e-09  Score=73.48  Aligned_cols=109  Identities=13%  Similarity=0.002  Sum_probs=70.4

Q ss_pred             HHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCC
Q 048799          142 LFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEV  220 (331)
Q Consensus       142 ~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  220 (331)
                      .|+++....| +...+..+...+.+.|++++|+..|++..... +.+...+..+..++...|++++|...|+++.+.  .
T Consensus         6 ~l~~al~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~   82 (142)
T 2xcb_A            6 TLAMLRGLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALM--D   82 (142)
T ss_dssp             ---CCTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C
T ss_pred             hHHHHHcCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--C
Confidence            3444444444 34556666667777777777777777776643 235566666777777777777777777777764  1


Q ss_pred             CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          221 LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      +.+...+..+..+|...|++++|.+.|+.+...
T Consensus        83 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           83 INEPRFPFHAAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            235566667777777777777777777776655

>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=98.96  E-value=1.5e-08  Score=70.12  Aligned_cols=93  Identities=12%  Similarity=0.023  Sum_probs=42.4

Q ss_pred             HHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc--------HHHHHH
Q 048799           87 ILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN--------LVSWTS  158 (331)
Q Consensus        87 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--------~~~~~~  158 (331)
                      +..+...+.+.|++++|+..|+++++..+.  +..+|..+..+|.+.|++++|+..|++.....|+        ..+|..
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~--~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELDPS--NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            334444444455555555555554444222  4444445555555555555555555544433211        123344


Q ss_pred             HHHHHHccCChHHHHHHHHHHHh
Q 048799          159 IISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       159 l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      +..++...|++++|++.|++.+.
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            44444444455555555444443

>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=98.96  E-value=8.7e-09  Score=71.21  Aligned_cols=97  Identities=8%  Similarity=-0.073  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHH
Q 048799          189 VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGAC  267 (331)
Q Consensus       189 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~  267 (331)
                      ..+..+...+...|++++|...|++..+.  .+.+...+..+..++.+.|++++|...++++... +.+...|..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            34555566666677777777777776654  2235566666777777777777777777776665 33466677777777


Q ss_pred             hcCCchhHHHHHHHHHHHhh
Q 048799          268 SFHGNVEMGERVTRKILEME  287 (331)
Q Consensus       268 ~~~g~~~~a~~~~~~~~~~~  287 (331)
                      ...|++++|...++++.+.+
T Consensus        83 ~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhC
Confidence            77777777777777777776

>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=98.96  E-value=7.1e-09  Score=77.90  Aligned_cols=175  Identities=9%  Similarity=-0.073  Sum_probs=98.7

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCC
Q 048799          125 CLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGL  203 (331)
Q Consensus       125 ~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~  203 (331)
                      ..+......|+++++.+.++......+ ....+..+...+...|++++|+..|++.....  |+...+...         
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~---------   77 (198)
T 2fbn_A            9 HHSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEEWDDQ---------   77 (198)
T ss_dssp             -------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTTCCCH---------
T ss_pred             chhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--hcccccchh---------
Confidence            344445555666666666654332222 34556666677777777777777777766532  221100000         


Q ss_pred             hHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHH
Q 048799          204 VEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRK  282 (331)
Q Consensus       204 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (331)
                            ....-..    ......+..+..+|...|++++|...++.+... +.+...+..+..++...|++++|...|++
T Consensus        78 ------~~~~~~~----~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~  147 (198)
T 2fbn_A           78 ------ILLDKKK----NIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYK  147 (198)
T ss_dssp             ------HHHHHHH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             ------hHHHHHH----HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence                  0000000    001356667777788888888888888877766 34567788888888888899999999999


Q ss_pred             HHHhhcCCCccHHHHHHHHhhhccCcchH-HHHHHHhhc
Q 048799          283 ILEMERGYGGDYVLMYNILAGVWRYGDAE-RLRRVVDER  320 (331)
Q Consensus       283 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~~~~~  320 (331)
                      +.+..|++...+..+..++...++..++. ..+..+...
T Consensus       148 al~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          148 AASLNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHSTTCHHHHHHHHHHHHHHHHHHC------------
T ss_pred             HHHHCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            88888888888888888888888777776 455555443

>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=98.96  E-value=8.5e-07  Score=71.31  Aligned_cols=221  Identities=9%  Similarity=0.029  Sum_probs=145.8

Q ss_pred             hcCchh-HHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCC----------HhHHHHHHHHhhhcCC-cHHHHHHHHHHH
Q 048799           96 QNGDVR-NCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGC----------IFSALKLFEDISVERK-NLVSWTSIISGF  163 (331)
Q Consensus        96 ~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  163 (331)
                      +.|.++ +|+.+++.++...+.  +..+|+.-..++...+.          +++++.+++.+....| +..+|+.-...+
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~--~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL  118 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPD--FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLL  118 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTT--CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCch--hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            445544 788888888887655  56666655555544443          6788888888877655 667777776666


Q ss_pred             HccC--ChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCC-hHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhc---
Q 048799          164 AMHG--MGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGL-VEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRA---  237 (331)
Q Consensus       164 ~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  237 (331)
                      ...+  ++++++.+++++.+.. +-|...|+.-.-.+...|. .+++++.++.+++. . +.|...|+.....+...   
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~-~-p~N~SAW~~R~~ll~~l~~~  195 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR-N-FSNYSSWHYRSCLLPQLHPQ  195 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH-C-SCCHHHHHHHHHHHHHHSCC
T ss_pred             hccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH-C-CCCHHHHHHHHHHHHHhhhc
Confidence            6666  4788888888887754 2366666666666666676 47888888888875 2 33666776666555554   


Q ss_pred             -----------CCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcC-----------CchhHHHHHHHHHHHhhcCCCccH
Q 048799          238 -----------GRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFH-----------GNVEMGERVTRKILEMERGYGGDY  294 (331)
Q Consensus       238 -----------g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~~  294 (331)
                                 +.++++.+.+..+... +-|...|+.+-..+...           +.++++++.++++.+..|++.-.+
T Consensus       196 ~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~~w~l  275 (331)
T 3dss_A          196 PDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPENKWCL  275 (331)
T ss_dssp             C------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             cccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCcccchHH
Confidence                       4577888888887766 34566676555555444           356788888888888888774444


Q ss_pred             HHHHHH---HhhhccCcchHHHHHHHhhcc
Q 048799          295 VLMYNI---LAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       295 ~~l~~~---~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ..++..   ....|..+++...+.++.+.+
T Consensus       276 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~~D  305 (331)
T 3dss_A          276 LTIILLMRALDPLLYEKETLQYFSTLKAVD  305 (331)
T ss_dssp             HHHHHHHHHHCTTTTHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhhcccccHHHHHHHHHHHHHhC
Confidence            333322   223456667777777776643

>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=98.96  E-value=2.8e-09  Score=73.71  Aligned_cols=99  Identities=9%  Similarity=-0.034  Sum_probs=90.4

Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHH
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL  301 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  301 (331)
                      +...+..+...+.+.|++++|...|+++... +.+...|..+..++...|++++|+..++++++.+|+++..+..++.++
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            3456778888999999999999999998877 446889999999999999999999999999999999999999999999


Q ss_pred             hhhccCcchHHHHHHHhhcc
Q 048799          302 AGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       302 ~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ...|++++|...+++..+..
T Consensus        83 ~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhC
Confidence            99999999999999987765

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.96  E-value=3.2e-09  Score=71.43  Aligned_cols=98  Identities=9%  Similarity=-0.077  Sum_probs=58.1

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC--CCccHHHHHHH
Q 048799          224 IKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERG--YGGDYVLMYNI  300 (331)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~  300 (331)
                      ...+..+...+...|++++|...++++... +.+...+..+..++...|++++|...++++.+..|.  +...+..++.+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            344445555555666666666666655544 224455555666666666666666666666666666  55556666666


Q ss_pred             Hhhh-ccCcchHHHHHHHhhcc
Q 048799          301 LAGV-WRYGDAERLRRVVDERN  321 (331)
Q Consensus       301 ~~~~-g~~~~a~~~~~~~~~~~  321 (331)
                      +... |++++|.+.++...+..
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcc
Confidence            6666 66666666666665543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.95  E-value=6.1e-08  Score=67.27  Aligned_cols=117  Identities=6%  Similarity=-0.069  Sum_probs=68.5

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNA  197 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  197 (331)
                      +...+..++..+...|++++|...|+++....| +...+..+...+...|++++|+..+++..+.. +.+...+..+..+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            555566666666666666666666666655544 45556666666666666666666666665532 2244556666666


Q ss_pred             HhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC
Q 048799          198 CSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG  238 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  238 (331)
                      +...|++++|...+++..+. . +.+...+..+..++...|
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~-~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDL-D-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH-C-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHhhHHHHHHHHHHHHHh-C-CCchHHHHHHHHHHHHhc
Confidence            66666666666666666553 1 123344455555554443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.94  E-value=8.3e-08  Score=65.64  Aligned_cols=96  Identities=19%  Similarity=0.274  Sum_probs=52.0

Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNAC  198 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  198 (331)
                      ...+..++..+...|++++|...|+++....| +..++..+...+...|++++|+..++++.... +.+..++..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            34445555555555566666655555554433 34455555555555566666666555555432 22344555555555


Q ss_pred             hccCChHHHHHHHHHHHH
Q 048799          199 SHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       199 ~~~~~~~~a~~~~~~~~~  216 (331)
                      ...|++++|...++++.+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHH
Confidence            556666666666655554

>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=98.93  E-value=1.4e-08  Score=68.82  Aligned_cols=109  Identities=12%  Similarity=0.014  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHH
Q 048799          189 VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGAC  267 (331)
Q Consensus       189 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~  267 (331)
                      ..+..+...+...|++++|...+++..+.  .+.+...+..+...+...|++++|...++++... +.+...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            33444555555566666666666665543  1224455555555666666666666666655544 22355566666666


Q ss_pred             hcCCchhHHHHHHHHHHHhhcCCCccHHHHHH
Q 048799          268 SFHGNVEMGERVTRKILEMERGYGGDYVLMYN  299 (331)
Q Consensus       268 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  299 (331)
                      ...|++++|.+.++++.+..|+++..+..+..
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  114 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEANNPQLKEGLQN  114 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            66666666666666666666655444444433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.93  E-value=3.5e-09  Score=72.65  Aligned_cols=96  Identities=7%  Similarity=-0.159  Sum_probs=77.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhh
Q 048799          226 HYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGV  304 (331)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  304 (331)
                      .+..+...+.+.|++++|...|+++....| +...|..+..++...|++++|+..++++++.+|+++..+..++.++...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            345566777888888888888888877634 6778888888888888888888888888888888888888888888888


Q ss_pred             ccCcchHHHHHHHhhcc
Q 048799          305 WRYGDAERLRRVVDERN  321 (331)
Q Consensus       305 g~~~~a~~~~~~~~~~~  321 (331)
                      |++++|...+++..+..
T Consensus        99 g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            88888888888876643

>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=98.93  E-value=1.1e-07  Score=76.79  Aligned_cols=219  Identities=11%  Similarity=0.016  Sum_probs=160.8

Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcC-CHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHcc-C-ChHH
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCG-CIFSALKLFEDISVERK-NLVSWTSIISGFAMH-G-MGKE  171 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~-~-~~~~  171 (331)
                      ..+..++|++++++++...+.  +..+|+.-..++...| .+++++.+++.+....| +..+|+.-...+... + ++++
T Consensus        66 ~~e~se~AL~lt~~~L~~nP~--~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMNPA--HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHH
T ss_pred             hCCCCHHHHHHHHHHHHhCch--hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHH
Confidence            344557899999999998665  7888888888888888 59999999999998866 677888877776665 6 8999


Q ss_pred             HHHHHHHHHhccCCCCHHHHHHHHHHHhccCChH--------HHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC----
Q 048799          172 AVENFERMQKVVLKPNRVTFLSVLNACSHGGLVE--------EGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR----  239 (331)
Q Consensus       172 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----  239 (331)
                      ++++++++.+.. +-|...|+.-.-.+.+.|.++        ++++.++++.+. . +-|...|+.....+.+.++    
T Consensus       144 EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~-d-p~N~SAW~~R~~lL~~l~~~~~~  220 (349)
T 3q7a_A          144 EIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV-D-GRNNSAWGWRWYLRVSRPGAETS  220 (349)
T ss_dssp             HHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHTTSTTCCCC
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHhccccccc
Confidence            999999998753 336667766555555556666        899999999986 3 3477888888877877776    


Q ss_pred             ---HHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCch--------------------hHHHHHHHHHHHhh------cC
Q 048799          240 ---LEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNV--------------------EMGERVTRKILEME------RG  289 (331)
Q Consensus       240 ---~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~--------------------~~a~~~~~~~~~~~------~~  289 (331)
                         ++++.+.++++... +-|...|+.+-..+.+.|+.                    ........++....      +.
T Consensus       221 ~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  300 (349)
T 3q7a_A          221 SRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLP  300 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSC
T ss_pred             hHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCC
Confidence               68899999888777 44678888777777766654                    11222222221111      23


Q ss_pred             CCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          290 YGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       290 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      ++.+...++.+|...|+.++|.++++.+.+
T Consensus       301 s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          301 VPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            344566788999999999999999999853

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.92  E-value=3.4e-08  Score=68.25  Aligned_cols=117  Identities=13%  Similarity=0.009  Sum_probs=56.5

Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNAC  198 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  198 (331)
                      ...+..++..+...|++++|...|+++....| +...+..+...+...|++++|+..+++..... +.+...+..+...+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHH
Confidence            34444455555555555555555555544333 34444555555555555555555555554432 12344444555555


Q ss_pred             hccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC
Q 048799          199 SHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR  239 (331)
Q Consensus       199 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (331)
                      ...|++++|...+++..+. . +.+...+..+..++.+.|+
T Consensus        91 ~~~~~~~~A~~~~~~~~~~-~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALEL-D-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHH-S-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHhc-C-ccchHHHHHHHHHHHHHhc
Confidence            5555555555555555443 1 1234444444445544443

>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=98.91  E-value=3.4e-09  Score=79.69  Aligned_cols=146  Identities=11%  Similarity=-0.054  Sum_probs=69.2

Q ss_pred             HHHHHHHcCCHHHHHHHHhhCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc--------------hH
Q 048799           23 MITGLVKWGELEYARSLFEEMPC---RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS--------------EI   85 (331)
Q Consensus        23 l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------------~~   85 (331)
                      .+......|+++++.+.|+.-..   .....+..+...+...|++++|+..|++.+......|+              ..
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~   89 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEIS   89 (198)
T ss_dssp             ------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHH
Confidence            34444556666666666654332   13345666777777888888888888877543222221              13


Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHH
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFA  164 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~  164 (331)
                      .+..+..++...|++++|+..++++++..+.  +..++..+..+|...|++++|...|+++....| +...+..+..++.
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~~p~--~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  167 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKIDKN--NVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc--cHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHH
Confidence            4444455555555555555555555544322  444444555555555555555555555544433 2334444444444


Q ss_pred             ccCChH
Q 048799          165 MHGMGK  170 (331)
Q Consensus       165 ~~~~~~  170 (331)
                      ..++.+
T Consensus       168 ~~~~~~  173 (198)
T 2fbn_A          168 KLKEAR  173 (198)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            333333

>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=98.91  E-value=2.2e-08  Score=70.13  Aligned_cols=102  Identities=10%  Similarity=-0.097  Sum_probs=77.0

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHH
Q 048799          186 PNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLL  264 (331)
Q Consensus       186 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~  264 (331)
                      .+...+..+...+...|++++|...|++..+.  .+.+...+..+..++...|++++|...++++... +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            35666777777777788888888888777764  2335667777777788888888888888877766 33567788888


Q ss_pred             HHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          265 GACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      .++...|++++|...++++.+..|+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChh
Confidence            8888888888888888888887776

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.91  E-value=1.3e-07  Score=80.16  Aligned_cols=163  Identities=7%  Similarity=-0.101  Sum_probs=89.4

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHhhhcC---CcH----HHHHHHHHHHHccCChHHHHHHHHHHHhc----cCCCC-HHH
Q 048799          123 SNCLIDTYAKCGCIFSALKLFEDISVER---KNL----VSWTSIISGFAMHGMGKEAVENFERMQKV----VLKPN-RVT  190 (331)
Q Consensus       123 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~  190 (331)
                      +..++..|...|++++|.+.+..+....   ++.    ...+.+...+...|+++.+..++++....    +..+. ..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            4456666666666666666666554331   111    12233333444556666666666655431    12222 345


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhcCC---CC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-----Cc-c--HH
Q 048799          191 FLSVLNACSHGGLVEEGLKFFDKMVEECEV---LP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-----IT-N--VV  258 (331)
Q Consensus       191 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p-~--~~  258 (331)
                      +..+...+...|++++|..+++++.....-   .+ ...++..++..|...|++++|..+++.+...     .| .  ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            556666666777777777766665543111   11 2345666666677777777777766665433     11 1  23


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          259 VWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       259 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      .+..++..+...|++++|...+.++.+
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            445555566666777777776666665

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.89  E-value=1.2e-08  Score=71.61  Aligned_cols=103  Identities=10%  Similarity=-0.080  Sum_probs=93.4

Q ss_pred             CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHH
Q 048799          221 LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYN  299 (331)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  299 (331)
                      +.+...+..+...+...|++++|...|+.+... +.+...|..+..++...|++++|...++++.+.+|+++..+..++.
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            346788899999999999999999999998877 4457899999999999999999999999999999999999999999


Q ss_pred             HHhhhccCcchHHHHHHHhhcccc
Q 048799          300 ILAGVWRYGDAERLRRVVDERNAL  323 (331)
Q Consensus       300 ~~~~~g~~~~a~~~~~~~~~~~~~  323 (331)
                      ++...|++++|...+++..+....
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChh
Confidence            999999999999999998876543

>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=98.89  E-value=7.9e-08  Score=66.45  Aligned_cols=108  Identities=12%  Similarity=0.027  Sum_probs=79.3

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhcc--CCCC----HHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVV--LKPN----RVTF  191 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~p~----~~~~  191 (331)
                      ...++..++..+.+.|++++|+..|+++....| +..+|..+..+|...|++++|++.+++.++..  ..++    ..+|
T Consensus         7 ~A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            7 AAIAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            345667788888888999999999988877766 57778888888888888888888888877632  1111    2356


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHH
Q 048799          192 LSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGC  229 (331)
Q Consensus       192 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  229 (331)
                      ..+..++...|++++|++.|++..+.   .|+..+...
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~---~~~~~~~~~  121 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSE---FRDPELVKK  121 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH---SCCHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh---CcCHHHHHH
Confidence            66777788888888888888887764   455554433

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.89  E-value=3.9e-08  Score=69.74  Aligned_cols=110  Identities=12%  Similarity=-0.081  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc----HhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHH
Q 048799          188 RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD----IKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRT  262 (331)
Q Consensus       188 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~  262 (331)
                      ...+..+...+...|++++|...|++..+.   .|+    ...+..+...|...|++++|...++++... +.+...+..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGL---DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHH---cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHH
Confidence            344444555555555555555555555432   233    345555555556666666666666555544 224555666


Q ss_pred             HHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHH
Q 048799          263 LLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       263 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      +..++...|++++|...++++.+..|++...+..+..+
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHH
Confidence            66666666666667666666666666654444444433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.89  E-value=7.9e-09  Score=75.08  Aligned_cols=100  Identities=11%  Similarity=-0.027  Sum_probs=91.8

Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHH
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL  301 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  301 (331)
                      +...+..+...+.+.|++++|...|+++....| +...|..+..+|...|++++|+..++++++.+|++...+..++.++
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            566788889999999999999999999988744 6889999999999999999999999999999999999999999999


Q ss_pred             hhhccCcchHHHHHHHhhccc
Q 048799          302 AGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       302 ~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      ...|++++|...+++..+...
T Consensus        90 ~~~g~~~~A~~~~~~al~~~p  110 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIEAEG  110 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHS
T ss_pred             HHccCHHHHHHHHHHHHHhCC
Confidence            999999999999999887653

>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=98.83  E-value=4.7e-08  Score=67.57  Aligned_cols=91  Identities=9%  Similarity=0.035  Sum_probs=37.4

Q ss_pred             HHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc--------HHHHHHHH
Q 048799           89 AVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN--------LVSWTSII  160 (331)
Q Consensus        89 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--------~~~~~~l~  160 (331)
                      .+...+...|++++|...++++.+..+.  +..++..++.++...|++++|...++++....|+        ..++..+.
T Consensus         9 ~l~~~~~~~~~~~~A~~~~~~a~~~~~~--~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la   86 (131)
T 1elr_A            9 ELGNDAYKKKDFDTALKHYDKAKELDPT--NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhcCCc--cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHH
Confidence            3333444444444444444444433221  3333444444444444444444444444333111        33344444


Q ss_pred             HHHHccCChHHHHHHHHHHHh
Q 048799          161 SGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       161 ~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      .++...|++++|.+.|++...
T Consensus        87 ~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           87 NSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHH
Confidence            444444444444444444443

>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=98.82  E-value=2.3e-08  Score=85.71  Aligned_cols=120  Identities=11%  Similarity=-0.022  Sum_probs=95.8

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCc
Q 048799          194 VLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGN  272 (331)
Q Consensus       194 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~  272 (331)
                      +...+.+.|++++|.+.++++.+.  .+.+...+..+..+|.+.|++++|.+.++++... +.+...+..+..+|...|+
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            344566788888888888888875  2335778888888899999999999999888877 3457888889999999999


Q ss_pred             hhHHHHHHHHHHHhhcCCCccHHHHHHH--HhhhccCcchHHHHH
Q 048799          273 VEMGERVTRKILEMERGYGGDYVLMYNI--LAGVWRYGDAERLRR  315 (331)
Q Consensus       273 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~  315 (331)
                      +++|.+.++++.+..|++...+..+..+  +.+.|++++|.+.++
T Consensus        90 ~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           90 FRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999999988888888877  888899999999887

>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=98.82  E-value=5.2e-08  Score=67.35  Aligned_cols=111  Identities=10%  Similarity=-0.051  Sum_probs=61.2

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-c-------HHHHH
Q 048799          190 TFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-N-------VVVWR  261 (331)
Q Consensus       190 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~-------~~~~~  261 (331)
                      .+..+...+...|++++|...++++.+.  .+.+...+..+...+...|++++|...++++....| +       ..++.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            3444455555555555555555555543  122444555555555555666666555555544411 1       45566


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh
Q 048799          262 TLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG  303 (331)
Q Consensus       262 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  303 (331)
                      .+..++...|++++|.+.++++.+..|+ +.....+..+...
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~  124 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEHRT-PDVLKKCQQAEKI  124 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCC-HHHHHHHHHHHHH
Confidence            6666777777777777777777776653 3444444444433

>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=98.82  E-value=2.3e-08  Score=67.80  Aligned_cols=99  Identities=14%  Similarity=0.103  Sum_probs=89.3

Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHH
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL  301 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  301 (331)
                      ....+..++..+...|++++|...++.+... +.+...+..+..++...|++++|...++++.+..|+++..+..++.++
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            4566778888999999999999999998877 446888999999999999999999999999999999989999999999


Q ss_pred             hhhccCcchHHHHHHHhhcc
Q 048799          302 AGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       302 ~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ...|++++|.+.+++..+.+
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHhhHHHHHHHHHHHHHcC
Confidence            99999999999999987754

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.80  E-value=8.5e-08  Score=64.25  Aligned_cols=25  Identities=4%  Similarity=-0.201  Sum_probs=10.0

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHhh
Q 048799          123 SNCLIDTYAKCGCIFSALKLFEDIS  147 (331)
Q Consensus       123 ~~~l~~~~~~~g~~~~A~~~~~~~~  147 (331)
                      +..+..++...|++++|...|+++.
T Consensus        43 ~~~~a~~~~~~~~~~~A~~~~~~a~   67 (112)
T 2kck_A           43 WLMKGKALYNLERYEEAVDCYNYVI   67 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHH
Confidence            3333344444444444444444333

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.79  E-value=5.9e-08  Score=68.81  Aligned_cols=100  Identities=12%  Similarity=-0.033  Sum_probs=90.8

Q ss_pred             CcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc----HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHH
Q 048799          222 PDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN----VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLM  297 (331)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  297 (331)
                      .+...+..+...+...|++++|...|+++....|+    ...+..+..++...|++++|...++++.+..|+++..+..+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            35677888899999999999999999999888665    68888899999999999999999999999999998899999


Q ss_pred             HHHHhhhccCcchHHHHHHHhhcc
Q 048799          298 YNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       298 ~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      +.++...|++++|...+++..+..
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcC
Confidence            999999999999999999987754

>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=98.78  E-value=7.1e-08  Score=82.29  Aligned_cols=123  Identities=11%  Similarity=-0.030  Sum_probs=81.3

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-------------cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-Cc
Q 048799          190 TFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-------------DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-IT  255 (331)
Q Consensus       190 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p  255 (331)
                      .+..+...+.+.|++++|...|+++.+.....+             ....|..+..+|.+.|++++|...++++... +.
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  349 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA  349 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc
Confidence            344455555555555555555555554311100             1466777777788888888888888877766 33


Q ss_pred             cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHH
Q 048799          256 NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAER  312 (331)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  312 (331)
                      +...|..+..+|...|++++|...|+++++++|++...+..+..++...++.+++.+
T Consensus       350 ~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~  406 (457)
T 1kt0_A          350 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERDR  406 (457)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            567777788888888888888888888888888887888888888888877776653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.75  E-value=1.2e-07  Score=68.13  Aligned_cols=61  Identities=15%  Similarity=0.107  Sum_probs=31.8

Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC---c----HHHHHHHHHHHHccCChHHHHHHHHHHH
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDISVERK---N----LVSWTSIISGFAMHGMGKEAVENFERMQ  180 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~  180 (331)
                      ..++..+...+...|++++|...+++.....+   +    ..++..+...+...|++++|...+++..
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~   76 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTL   76 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34455556666666666666666665543311   1    1244445555555555555555555544

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.75  E-value=8.1e-09  Score=70.39  Aligned_cols=91  Identities=15%  Similarity=0.103  Sum_probs=60.4

Q ss_pred             cCChHHHHHHHHHHHHhcC--CCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHH
Q 048799          201 GGLVEEGLKFFDKMVEECE--VLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGE  277 (331)
Q Consensus       201 ~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~  277 (331)
                      .|++++|+..|+++.+. +  -+.+...+..+..+|...|++++|...|+++....| +...+..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            46677777777777643 2  122455667777777777777777777777766633 4667777777777788888888


Q ss_pred             HHHHHHHHhhcCCCc
Q 048799          278 RVTRKILEMERGYGG  292 (331)
Q Consensus       278 ~~~~~~~~~~~~~~~  292 (331)
                      ..++++++..|+++.
T Consensus        82 ~~~~~al~~~p~~~~   96 (117)
T 3k9i_A           82 ELLLKIIAETSDDET   96 (117)
T ss_dssp             HHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHhCCCcHH
Confidence            888888777776644

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.75  E-value=5.5e-08  Score=70.42  Aligned_cols=82  Identities=16%  Similarity=0.023  Sum_probs=63.9

Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCC-ccHHHHHHH
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYG-GDYVLMYNI  300 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~  300 (331)
                      +...|..+..+|.+.|++++|...++.+... +.+...|..+..++...|++++|...|+++++++|+++ .....+..+
T Consensus        62 ~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~  141 (162)
T 3rkv_A           62 NIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIV  141 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            4567788888888899999999998888776 44578888899999999999999999999999999876 334444444


Q ss_pred             Hhhh
Q 048799          301 LAGV  304 (331)
Q Consensus       301 ~~~~  304 (331)
                      ....
T Consensus       142 ~~~~  145 (162)
T 3rkv_A          142 TERR  145 (162)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4333

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.74  E-value=5.1e-08  Score=66.77  Aligned_cols=96  Identities=10%  Similarity=-0.060  Sum_probs=54.3

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCC
Q 048799          193 SVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHG  271 (331)
Q Consensus       193 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g  271 (331)
                      .+...+.+.|++++|...|+++.+.  -+.+...+..+..++...|++++|...|+++....| +...+..+..++...|
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            3444555666666666666666553  122455556666666666666666666666655523 4555666666666666


Q ss_pred             chhHHHHHHHHHHHhhcCC
Q 048799          272 NVEMGERVTRKILEMERGY  290 (331)
Q Consensus       272 ~~~~a~~~~~~~~~~~~~~  290 (331)
                      ++++|...++++++.+|++
T Consensus       100 ~~~~A~~~~~~al~~~P~~  118 (121)
T 1hxi_A          100 NANAALASLRAWLLSQPQY  118 (121)
T ss_dssp             HHHHHHHHHHHHHC-----
T ss_pred             CHHHHHHHHHHHHHhCcCC
Confidence            6666666666666655544

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.74  E-value=2.9e-08  Score=81.14  Aligned_cols=150  Identities=9%  Similarity=-0.086  Sum_probs=73.7

Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHH
Q 048799          153 LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLID  232 (331)
Q Consensus       153 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  232 (331)
                      ...+..+...+.+.|++++|+..|++....  .|+...       +...++.+++...+           ....|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l-----------~~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV-----------KNPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH-----------HTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH-----------HHHHHHHHHH
Confidence            445666777777888888888888877663  354331       12222333222111           1125667777


Q ss_pred             HHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHH-hhhccCcch
Q 048799          233 MLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL-AGVWRYGDA  310 (331)
Q Consensus       233 ~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~a  310 (331)
                      +|.+.|++++|...++++... +.+...|..+..+|...|++++|...|+++++++|++...+..+..+. ...+..+++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            777888888888888777666 335677777778888888888888888888777777777777666663 344566667


Q ss_pred             HHHHHHHhhccc
Q 048799          311 ERLRRVVDERNA  322 (331)
Q Consensus       311 ~~~~~~~~~~~~  322 (331)
                      ...++.|.....
T Consensus       319 ~~~~~~~l~~~p  330 (338)
T 2if4_A          319 KEMYKGIFKGKD  330 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHhhCCCC
Confidence            777777765443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.74  E-value=2.1e-07  Score=64.22  Aligned_cols=97  Identities=11%  Similarity=0.005  Sum_probs=63.2

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhcCCCCcH---hhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc----HHHHHHHHHH
Q 048799          194 VLNACSHGGLVEEGLKFFDKMVEECEVLPDI---KHYGCLIDMLGRAGRLEQAEKVASGIPSEITN----VVVWRTLLGA  266 (331)
Q Consensus       194 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~  266 (331)
                      +...+...|++++|...|+.+.+. . +.+.   ..+..+..++.+.|++++|...|+.+....|+    ...+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~-~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLEL-Y-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-C-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHH-C-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            445556667777777777776654 1 1122   35566666677777777777777776655332    4566667777


Q ss_pred             HhcCCchhHHHHHHHHHHHhhcCCCc
Q 048799          267 CSFHGNVEMGERVTRKILEMERGYGG  292 (331)
Q Consensus       267 ~~~~g~~~~a~~~~~~~~~~~~~~~~  292 (331)
                      +...|++++|...++++.+..|+++.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~p~~~~  111 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQYPGSDA  111 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTSHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCChH
Confidence            77778888888888887777776643

>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=98.71  E-value=4.7e-08  Score=69.17  Aligned_cols=107  Identities=15%  Similarity=-0.001  Sum_probs=73.6

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc-------------HhhHHHHHHHHHhcCCHHHHHHHHhhcccC-
Q 048799          188 RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD-------------IKHYGCLIDMLGRAGRLEQAEKVASGIPSE-  253 (331)
Q Consensus       188 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-  253 (331)
                      ...+......+...|++++|...|++.++.   .|+             ...|..+..++.+.|++++|+..++++... 
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l---~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~   87 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEI---SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYF   87 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhh
Confidence            344566677777888888888888888865   232             126677777777777777777777766655 


Q ss_pred             ------Ccc-HHHH----HHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHH
Q 048799          254 ------ITN-VVVW----RTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLM  297 (331)
Q Consensus       254 ------~p~-~~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  297 (331)
                            .|+ ...|    .....++...|++++|+..|++++++.|++......+
T Consensus        88 n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~  142 (159)
T 2hr2_A           88 NRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGK  142 (159)
T ss_dssp             HHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTH
T ss_pred             hccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHH
Confidence                  554 4566    6777777777777777777777777777765554433

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.71  E-value=4.9e-08  Score=83.27  Aligned_cols=143  Identities=13%  Similarity=0.012  Sum_probs=92.1

Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc----------------HHHHHHH
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN----------------LVSWTSI  159 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----------------~~~~~~l  159 (331)
                      ..+++++|...++...+..  |.....+..+...+.+.|++++|...|+++....|+                ..+|..+
T Consensus       246 ~l~~~~~A~~~~~~~~~~~--~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nl  323 (457)
T 1kt0_A          246 TLKSFEKAKESWEMDTKEK--LEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNL  323 (457)
T ss_dssp             EEEEEECCCCGGGSCHHHH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhcccCcchhhcCHHHH--HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHH
Confidence            3445566666666655542  225667778888888899999999988888766443                3566666


Q ss_pred             HHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcC
Q 048799          160 ISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAG  238 (331)
Q Consensus       160 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  238 (331)
                      ..+|.+.|++++|+..+++.+... +.+...|..+..+|...|++++|...|+++.+.   .| +...+..+..++.+.|
T Consensus       324 a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l---~P~~~~a~~~l~~~~~~~~  399 (457)
T 1kt0_A          324 AMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV---NPQNKAARLQISMCQKKAK  399 (457)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT---C----CHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHH
Confidence            667777777777777777766643 234556666666677777777777777776642   33 4455666666666666


Q ss_pred             CHHHHH
Q 048799          239 RLEQAE  244 (331)
Q Consensus       239 ~~~~A~  244 (331)
                      +.+++.
T Consensus       400 ~~~~a~  405 (457)
T 1kt0_A          400 EHNERD  405 (457)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666554

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.70  E-value=4.4e-07  Score=65.11  Aligned_cols=131  Identities=15%  Similarity=0.107  Sum_probs=74.5

Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhcCCC----cchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC---C----cHH
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKRGFN----AFHIHVSNCLIDTYAKCGCIFSALKLFEDISVER---K----NLV  154 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~----~~~  154 (331)
                      ++..+...+...|++++|...+++..+....    .....++..+...+...|++++|...+++.....   +    ...
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            3444445555555555555555554433111    1012356667777777777777777777665431   1    134


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhcc--C--C-CCHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 048799          155 SWTSIISGFAMHGMGKEAVENFERMQKVV--L--K-PNRVTFLSVLNACSHGGLVEEGLKFFDKMVE  216 (331)
Q Consensus       155 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~--~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  216 (331)
                      .+..+...+...|++++|.+.+++.....  .  . .....+..+...+...|++++|.+.+++..+
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            56666667777777777777777665421  0  0 1123455566666677777777777766654

>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=98.70  E-value=1e-07  Score=78.76  Aligned_cols=122  Identities=9%  Similarity=-0.044  Sum_probs=93.7

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhc-------------CCCC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-Cc
Q 048799          191 FLSVLNACSHGGLVEEGLKFFDKMVEEC-------------EVLP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-IT  255 (331)
Q Consensus       191 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p  255 (331)
                      +..+...+.+.|++++|...|+++.+..             ...| +...|..+..+|.+.|++++|.+.++++... +.
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  305 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS  305 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCch
Confidence            3444445555555555555555554310             0122 4678888999999999999999999999887 44


Q ss_pred             cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHH
Q 048799          256 NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAER  312 (331)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  312 (331)
                      +...|..+..+|...|++++|...|+++.++.|++...+..+..++...++.+++.+
T Consensus       306 ~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          306 NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            678899999999999999999999999999999998888888888888887776654

>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=98.69  E-value=3.4e-06  Score=73.73  Aligned_cols=171  Identities=9%  Similarity=-0.021  Sum_probs=127.1

Q ss_pred             HhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCC----------hHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccC--
Q 048799          136 IFSALKLFEDISVERK-NLVSWTSIISGFAMHGM----------GKEAVENFERMQKVVLKPNRVTFLSVLNACSHGG--  202 (331)
Q Consensus       136 ~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~----------~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~--  202 (331)
                      .++|++.++++....| +..+|+.--.++...|+          ++++++.++++.... +-+...|..-...+.+.+  
T Consensus        45 ~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSC
T ss_pred             CHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccc
Confidence            4566777777776666 45667666555555555          788888888887654 235566666666667777  


Q ss_pred             ChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC-CHHHHHHHHhhcccC-CccHHHHHHHHHHHhcC----------
Q 048799          203 LVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG-RLEQAEKVASGIPSE-ITNVVVWRTLLGACSFH----------  270 (331)
Q Consensus       203 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~----------  270 (331)
                      +++++.+.++++.+. . +-+...|+.-...+.+.| .++++.+.++++.+. +-+...|+.....+...          
T Consensus       124 ~~~~el~~~~k~l~~-d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          124 NWARELELCARFLEA-D-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             CHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cHHHHHHHHHHHHhh-c-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccc
Confidence            568888888888875 2 336777777777777778 788888888888877 44677777776665542          


Q ss_pred             ----CchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcc
Q 048799          271 ----GNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGD  309 (331)
Q Consensus       271 ----g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  309 (331)
                          +.++++.+.+++++..+|++..+|..+..++.+.++.++
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                567999999999999999999999999999999888665

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.69  E-value=1.2e-07  Score=77.52  Aligned_cols=154  Identities=10%  Similarity=-0.006  Sum_probs=90.0

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNAC  198 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  198 (331)
                      ....+..+...+.+.|++++|...|+++....|+...       +...++.+++...+.          ...|..+..+|
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~  240 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHH
Confidence            4566778888999999999999999998877665432       223344444443321          13677888899


Q ss_pred             hccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHH-HhcCCchhHH
Q 048799          199 SHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGA-CSFHGNVEMG  276 (331)
Q Consensus       199 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~-~~~~g~~~~a  276 (331)
                      .+.|++++|...++++++.  .+.+...+..+..+|...|++++|...|+++....| +...+..+... ....+..+.+
T Consensus       241 ~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999875  234778899999999999999999999999988744 44555555555 3455677888


Q ss_pred             HHHHHHHHHhhcCCC
Q 048799          277 ERVTRKILEMERGYG  291 (331)
Q Consensus       277 ~~~~~~~~~~~~~~~  291 (331)
                      ...|+++.+..|.++
T Consensus       319 ~~~~~~~l~~~p~~~  333 (338)
T 2if4_A          319 KEMYKGIFKGKDEGG  333 (338)
T ss_dssp             ---------------
T ss_pred             HHHHHHhhCCCCCCC
Confidence            899999998877654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.68  E-value=5e-08  Score=67.49  Aligned_cols=95  Identities=13%  Similarity=0.006  Sum_probs=82.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccCCcc-H---HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC---CccHHHHHH
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSEITN-V---VVWRTLLGACSFHGNVEMGERVTRKILEMERGY---GGDYVLMYN  299 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~l~~  299 (331)
                      +..+...+...|++++|...|+.+....|+ .   ..+..+..++...|++++|...++++.+..|++   +..+..++.
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~   84 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHH
Confidence            345667788999999999999998876343 3   578888999999999999999999999999998   566889999


Q ss_pred             HHhhhccCcchHHHHHHHhhcc
Q 048799          300 ILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       300 ~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ++...|++++|...++.+.+..
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC
Confidence            9999999999999999988754

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.65  E-value=2e-08  Score=68.37  Aligned_cols=86  Identities=14%  Similarity=-0.031  Sum_probs=73.8

Q ss_pred             hcCCHHHHHHHHhhcccC---Cc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchH
Q 048799          236 RAGRLEQAEKVASGIPSE---IT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAE  311 (331)
Q Consensus       236 ~~g~~~~A~~~~~~~~~~---~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  311 (331)
                      ..|++++|...|+++...   .| +...+..+..++...|++++|+..++++++..|+++..+..++.++...|++++|.
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            468899999999998877   24 45788899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcc
Q 048799          312 RLRRVVDERN  321 (331)
Q Consensus       312 ~~~~~~~~~~  321 (331)
                      ..+++..+..
T Consensus        82 ~~~~~al~~~   91 (117)
T 3k9i_A           82 ELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhC
Confidence            9999887754

>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=98.65  E-value=3.3e-07  Score=64.83  Aligned_cols=97  Identities=14%  Similarity=-0.054  Sum_probs=66.7

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHhhcccCCcc-------------HHHHHHHHHHHhcCCchhHHHHHHHHHHHh----
Q 048799          224 IKHYGCLIDMLGRAGRLEQAEKVASGIPSEITN-------------VVVWRTLLGACSFHGNVEMGERVTRKILEM----  286 (331)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----  286 (331)
                      ...+......+.+.|++++|...|+++....|+             ...|..+..++.+.|++++|+..+++++++    
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            344555666667777777777777776655232             226777777777777777777777777777    


Q ss_pred             ---hcCCCccH----HHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          287 ---ERGYGGDY----VLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       287 ---~~~~~~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                         +|++...|    ...+.++...|++++|+..|++..+.
T Consensus        91 ~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           91 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence               77776677    77777777777777777777776654

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.63  E-value=1.1e-06  Score=75.32  Aligned_cols=120  Identities=11%  Similarity=-0.008  Sum_probs=61.4

Q ss_pred             HHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCC
Q 048799           90 VFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGM  168 (331)
Q Consensus        90 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  168 (331)
                      +...+.+.|++++|.+.++++++..+.  +..++..+..+|.+.|++++|+..++++.+..| +..+|..+..+|...|+
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~~p~--~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIELNPS--NAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhCCc--cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            344455566666666666666655332  455555666666666666666666666655544 34555555556666666


Q ss_pred             hHHHHHHHHHHHhccCCCCHHHHHHHHHH--HhccCChHHHHHHHH
Q 048799          169 GKEAVENFERMQKVVLKPNRVTFLSVLNA--CSHGGLVEEGLKFFD  212 (331)
Q Consensus       169 ~~~a~~~~~~m~~~~~~p~~~~~~~l~~~--~~~~~~~~~a~~~~~  212 (331)
                      +++|++.|++..+... .+...+..+..+  +.+.|++++|.+.++
T Consensus        90 ~~eA~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           90 FRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            6666666665554321 112222223322  445555555555554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.62  E-value=7.2e-07  Score=64.41  Aligned_cols=64  Identities=13%  Similarity=0.051  Sum_probs=44.7

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKV  182 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  182 (331)
                      +..++..+..+|.+.|++++|+..++++....| +..+|..+..+|...|++++|+..|++....
T Consensus        62 ~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           62 NIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            455666777777777777777777777766655 4566777777777777777777777776663

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.60  E-value=2.2e-08  Score=67.29  Aligned_cols=95  Identities=9%  Similarity=-0.114  Sum_probs=75.3

Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC------CccHH
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY------GGDYV  295 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~~  295 (331)
                      +...+..+...+...|++++|.+.|+++... +.+...+..+..++...|++++|++.++++++..|++      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            4556777778888888888888888887766 3467788888888889999999999999998888887      56677


Q ss_pred             HHHHHHhhhccCcchHHHHHHH
Q 048799          296 LMYNILAGVWRYGDAERLRRVV  317 (331)
Q Consensus       296 ~l~~~~~~~g~~~~a~~~~~~~  317 (331)
                      .++.++...|+.+.|...++++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHhHhhhHhHHHHh
Confidence            7888888888888887665543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.55  E-value=3.3e-07  Score=78.26  Aligned_cols=125  Identities=13%  Similarity=0.042  Sum_probs=94.9

Q ss_pred             HHhccCChHHHHHHHHHHHHhcC--C---CC-cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC--------Ccc-HHHHH
Q 048799          197 ACSHGGLVEEGLKFFDKMVEECE--V---LP-DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE--------ITN-VVVWR  261 (331)
Q Consensus       197 ~~~~~~~~~~a~~~~~~~~~~~~--~---~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~p~-~~~~~  261 (331)
                      .+..+|++++|+.++++..+...  +   .| ...+++.|+..|...|++++|..+++++...        .|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            35578899999988888776411  1   12 3467888888999999999998888876544        343 46788


Q ss_pred             HHHHHHhcCCchhHHHHHHHHHHH-----hhcCCCc---cHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          262 TLLGACSFHGNVEMGERVTRKILE-----MERGYGG---DYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       262 ~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~---~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      .|...|...|++++|+.+++++++     ++|+++.   ....+..++...+++++|+.++.++++.-
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            889999999999999999999987     3566543   34567778888899999999999887754

>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=98.50  E-value=2.1e-06  Score=70.93  Aligned_cols=89  Identities=12%  Similarity=-0.025  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHH
Q 048799          153 LVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLID  232 (331)
Q Consensus       153 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  232 (331)
                      ..+|..+..+|.+.|++++|+..+++.++.. +.+...+..+..+|...|++++|...|+++.+.  .+.+...+..+..
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~  349 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLK  349 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            3445555555555555555555555555422 123444555555555555555555555555543  1123444445555


Q ss_pred             HHHhcCCHHHHH
Q 048799          233 MLGRAGRLEQAE  244 (331)
Q Consensus       233 ~~~~~g~~~~A~  244 (331)
                      .+...++.+++.
T Consensus       350 ~~~~~~~~~~a~  361 (370)
T 1ihg_A          350 VKQKIKAQKDKE  361 (370)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.46  E-value=8.3e-07  Score=56.92  Aligned_cols=83  Identities=14%  Similarity=0.062  Sum_probs=65.7

Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHH
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNIL  301 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  301 (331)
                      +...+..+...+...|++++|...++++... +.+...+..+..++...|++++|...++++.+.+|+++..+..++.++
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~   87 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            3456677777788888888888888887766 335677888888888899999999999999988888878888888777


Q ss_pred             hhhc
Q 048799          302 AGVW  305 (331)
Q Consensus       302 ~~~g  305 (331)
                      ...|
T Consensus        88 ~~~g   91 (91)
T 1na3_A           88 QKQG   91 (91)
T ss_dssp             HHHC
T ss_pred             HhcC
Confidence            6554

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.42  E-value=3.6e-06  Score=71.92  Aligned_cols=59  Identities=3%  Similarity=-0.208  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHhhhc--------CCc-HHHHHHHHHHHHccCChHHHHHHHHHH
Q 048799          121 HVSNCLIDTYAKCGCIFSALKLFEDISVE--------RKN-LVSWTSIISGFAMHGMGKEAVENFERM  179 (331)
Q Consensus       121 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m  179 (331)
                      .+++.|+.+|...|++++|+.+++++...        .|+ ..+++.|...|...|++++|+.++++.
T Consensus       352 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~A  419 (490)
T 3n71_A          352 RLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKA  419 (490)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            34444444444555555554444444322        121 233444444444444444444444443

>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=98.36  E-value=3e-05  Score=67.80  Aligned_cols=171  Identities=9%  Similarity=-0.003  Sum_probs=114.9

Q ss_pred             hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCC----------HhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccC-
Q 048799          100 VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGC----------IFSALKLFEDISVERK-NLVSWTSIISGFAMHG-  167 (331)
Q Consensus       100 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~-  167 (331)
                      .++|++.+++++...+.  +..+|+.-..++...|+          ++++++.++.+....| +..+|+.-..++.+.+ 
T Consensus        45 ~eeal~~~~~~l~~nP~--~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           45 DESVLELTSQILGANPD--FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHCch--hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHccc
Confidence            35667777777776544  56666666666666666          7777777777776655 5667777777777777 


Q ss_pred             -ChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccC-ChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhc--------
Q 048799          168 -MGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGG-LVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRA--------  237 (331)
Q Consensus       168 -~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------  237 (331)
                       +++++++.++++.+.. +-+...|+.-...+.+.| .++++.+.++++++.  .+-+...|+.....+.+.        
T Consensus       123 ~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~--~p~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          123 PNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             CCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT--TCCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             ccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHH--CCCCccHHHHHHHHHHhhcccccccc
Confidence             5677888887777754 235566666666666666 677777777777653  233666666666655553        


Q ss_pred             ------CCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhH
Q 048799          238 ------GRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEM  275 (331)
Q Consensus       238 ------g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~  275 (331)
                            +.++++.+.+..+... +-+...|..+...+.+.++.++
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                  5578888888887766 3457788888887877776554

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.33  E-value=4.3e-07  Score=60.75  Aligned_cols=25  Identities=12%  Similarity=-0.019  Sum_probs=9.7

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHhh
Q 048799          123 SNCLIDTYAKCGCIFSALKLFEDIS  147 (331)
Q Consensus       123 ~~~l~~~~~~~g~~~~A~~~~~~~~  147 (331)
                      +..+..++...|++++|+..|+++.
T Consensus        41 ~~~lg~~~~~~g~~~~A~~~~~~al   65 (111)
T 2l6j_A           41 YSNKAMALIKLGEYTQAIQMCQQGL   65 (111)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            3333333333333333333333333

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.31  E-value=3.3e-06  Score=56.94  Aligned_cols=82  Identities=11%  Similarity=-0.005  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHH
Q 048799          206 EGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKIL  284 (331)
Q Consensus       206 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  284 (331)
                      .|...|++..+.  .+.+...+..+...|...|++++|...|+++... +.+...|..+..++...|++++|...|+++.
T Consensus         3 ~a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            455566666542  2235566666667777777777777777766655 2345666677777777777777777777777


Q ss_pred             HhhcC
Q 048799          285 EMERG  289 (331)
Q Consensus       285 ~~~~~  289 (331)
                      +..|.
T Consensus        81 ~~~~~   85 (115)
T 2kat_A           81 AAAQS   85 (115)
T ss_dssp             HHHHH
T ss_pred             Hhccc
Confidence            76654

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.28  E-value=5e-07  Score=63.82  Aligned_cols=88  Identities=8%  Similarity=-0.073  Sum_probs=49.2

Q ss_pred             ccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCH----------HHHHHHHhhcccCCc-cHHHHHHHHHHHh
Q 048799          200 HGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRL----------EQAEKVASGIPSEIT-NVVVWRTLLGACS  268 (331)
Q Consensus       200 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------~~A~~~~~~~~~~~p-~~~~~~~l~~~~~  268 (331)
                      +.+.+++|.+.++...+.  -+.+...|..+..++.+.|++          ++|+..|+++....| +...|..+..+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Confidence            345566666666666654  122556666666666665543          355555555555533 3455555666655


Q ss_pred             cCC-----------chhHHHHHHHHHHHhhcC
Q 048799          269 FHG-----------NVEMGERVTRKILEMERG  289 (331)
Q Consensus       269 ~~g-----------~~~~a~~~~~~~~~~~~~  289 (331)
                      ..|           ++++|++.|+++++++|+
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~  123 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDEQPD  123 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHhCCC
Confidence            443           566666666666665553

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.28  E-value=2.5e-06  Score=57.54  Aligned_cols=80  Identities=13%  Similarity=0.077  Sum_probs=70.6

Q ss_pred             HHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          242 QAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       242 ~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      +|...|+++... +.+...+..+...+...|++++|+..++++++..|++...+..++.++...|++++|...+++..+.
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            466777777666 4467889999999999999999999999999999999899999999999999999999999988764


Q ss_pred             c
Q 048799          321 N  321 (331)
Q Consensus       321 ~  321 (331)
                      .
T Consensus        83 ~   83 (115)
T 2kat_A           83 A   83 (115)
T ss_dssp             H
T ss_pred             c
Confidence            3

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.27  E-value=2.9e-06  Score=55.67  Aligned_cols=67  Identities=10%  Similarity=-0.077  Sum_probs=51.8

Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      +...+..+...|...|++++|...|+++....| +...|..+..+|...|++++|.+.+++++++.|.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~   73 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVARE   73 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhc
Confidence            566777788888888888888888888776633 4667778888888888888888888888876554

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.24  E-value=2.8e-06  Score=59.98  Aligned_cols=96  Identities=10%  Similarity=-0.038  Sum_probs=55.8

Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCH----------hHHHHHHHHhhhcCC-cHHHHHHHHHHHH
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCI----------FSALKLFEDISVERK-NLVSWTSIISGFA  164 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------~~A~~~~~~~~~~~~-~~~~~~~l~~~~~  164 (331)
                      +.+.+++|.+.+++.++..+.  +...|+.+..++...+++          ++|+..|+++....| +..+|..+..+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~--~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPL--DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Confidence            344556666666666665433  555665566666655543          366666666666555 3556666666666


Q ss_pred             ccC-----------ChHHHHHHHHHHHhccCCCCHHHHHHHH
Q 048799          165 MHG-----------MGKEAVENFERMQKVVLKPNRVTFLSVL  195 (331)
Q Consensus       165 ~~~-----------~~~~a~~~~~~m~~~~~~p~~~~~~~l~  195 (331)
                      ..|           ++++|++.|++.++  +.|+...|...+
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al  131 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSL  131 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            543           66777777776666  345555444333

>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=98.17  E-value=5.6e-05  Score=52.72  Aligned_cols=88  Identities=10%  Similarity=-0.070  Sum_probs=40.5

Q ss_pred             HHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh----cCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHc
Q 048799           90 VFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK----CGCIFSALKLFEDISVERKNLVSWTSIISGFAM  165 (331)
Q Consensus        90 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~  165 (331)
                      +...|...+.+++|.+.|++..+.|    ++..+..|...|..    .+++++|..+|++..+. .++.++..+...|..
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~g----~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~-g~~~a~~~Lg~~y~~  105 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACELN----SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL-NDQDGCLILGYKQYA  105 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcCC----CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC-CCHHHHHHHHHHHHC
Confidence            3444444444455555555555443    23344444444444    44555555555544322 233344444444444


Q ss_pred             ----cCChHHHHHHHHHHHhc
Q 048799          166 ----HGMGKEAVENFERMQKV  182 (331)
Q Consensus       166 ----~~~~~~a~~~~~~m~~~  182 (331)
                          .+++++|+..|++..+.
T Consensus       106 G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A          106 GKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHT
T ss_pred             CCCCCcCHHHHHHHHHHHHHC
Confidence                44455555555544443

>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=98.15  E-value=4.3e-05  Score=53.33  Aligned_cols=111  Identities=6%  Similarity=-0.130  Sum_probs=80.9

Q ss_pred             cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHc----cCChHHH
Q 048799           97 NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAM----HGMGKEA  172 (331)
Q Consensus        97 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  172 (331)
                      .++.++|...|++..+.|..  ..  .  |...|...+.+++|.+.|++..+. .+..++..+...|..    .+++++|
T Consensus         8 ~~d~~~A~~~~~~aa~~g~~--~a--~--lg~~y~~g~~~~~A~~~~~~Aa~~-g~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNEM--FG--C--LSLVSNSQINKQKLFQYLSKACEL-NSGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTCT--TH--H--HHHHTCTTSCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCCH--hh--h--HHHHHHcCCCHHHHHHHHHHHHcC-CCHHHHHHHHHHHHcCCCCCccHHHH
Confidence            45678888888888887743  22  2  677777777788888888877644 456677777777776    6788888


Q ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHh
Q 048799          173 VENFERMQKVVLKPNRVTFLSVLNACSH----GGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       173 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~  217 (331)
                      +++|++..+.|   +...+..|...|..    .++.++|..+|++..+.
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            88888887754   45556667777776    77888888888887765

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.14  E-value=2.2e-05  Score=50.04  Aligned_cols=57  Identities=19%  Similarity=0.265  Sum_probs=22.7

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 048799          124 NCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQ  180 (331)
Q Consensus       124 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  180 (331)
                      ..+...+...|++++|...|++.....| +...+..+..++...|++++|+..|++..
T Consensus        13 ~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~   70 (91)
T 1na3_A           13 YNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL   70 (91)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3333444444444444444444333322 23333334444444444444444444433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.08  E-value=2.7e-05  Score=50.94  Aligned_cols=60  Identities=8%  Similarity=-0.014  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHh
Q 048799           85 ITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDI  146 (331)
Q Consensus        85 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  146 (331)
                      ..+..+..++...|++++|+..|+++++..+.  +..+|..+..+|...|++++|...|++.
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~--~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETDPD--YVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT--CTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34444444444444444444444444444322  3334444444444444444444444444

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=98.07  E-value=5e-06  Score=54.26  Aligned_cols=65  Identities=12%  Similarity=0.022  Sum_probs=44.7

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcccCCc-cHH-HHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccH
Q 048799          230 LIDMLGRAGRLEQAEKVASGIPSEIT-NVV-VWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDY  294 (331)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  294 (331)
                      ....+.+.|++++|...++++....| +.. .+..+..++...|++++|.+.|+++++.+|++...+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~   72 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            34456667777777777777665533 455 677777777777777777777777777777765554

>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=98.02  E-value=0.00099  Score=53.99  Aligned_cols=152  Identities=11%  Similarity=0.003  Sum_probs=77.2

Q ss_pred             HHHHHHhhCCCCCchhHHHHHHHH--HhcC---ChhHHHHHHHHHHhccCCCCc-hHHHHHHHHHHhh---cC-----ch
Q 048799           35 YARSLFEEMPCRNVVSWTGIIDGY--TRMN---RSNGALALFRRMVACEYTEPS-EITILAVFPAIWQ---NG-----DV  100 (331)
Q Consensus        35 ~A~~~~~~~~~~~~~~~~~l~~~~--~~~~---~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~---~~-----~~  100 (331)
                      ++.+.....+ .+..+|...+++.  ...+   +..+|..+|++.+..   .|+ ...+..+..++..   .+     ..
T Consensus       182 e~~r~~~~~p-~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l---DP~~a~A~A~la~a~~~~~~~~~~~~~~~  257 (372)
T 3ly7_A          182 MQETLQKILP-HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS---SPEFTYARAEKALVDIVRHSQHPLDEKQL  257 (372)
T ss_dssp             HHHHHHHHSC-SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHhccCC-CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHhccCCCchhhH
Confidence            3333444333 3566676666553  3333   346788888887542   343 3344433333321   00     01


Q ss_pred             hHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 048799          101 RNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQ  180 (331)
Q Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  180 (331)
                      ......+.........|.++.++..+...+...|++++|...++++...+|+...|..+...+...|++++|.+.|++..
T Consensus       258 ~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~Al  337 (372)
T 3ly7_A          258 AALNTEIDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAF  337 (372)
T ss_dssp             HHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            11111111111222223355566555555555666666666666666666665556556666666666666666666666


Q ss_pred             hccCCCCHHHHH
Q 048799          181 KVVLKPNRVTFL  192 (331)
Q Consensus       181 ~~~~~p~~~~~~  192 (331)
                      .  +.|...||.
T Consensus       338 r--L~P~~~t~~  347 (372)
T 3ly7_A          338 N--LRPGANTLY  347 (372)
T ss_dssp             H--HSCSHHHHH
T ss_pred             h--cCCCcChHH
Confidence            5  335555544

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.96  E-value=3.1e-05  Score=49.76  Aligned_cols=66  Identities=11%  Similarity=0.028  Sum_probs=35.8

Q ss_pred             cHHHHHHHHHHHhcCCc---hhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          256 NVVVWRTLLGACSFHGN---VEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       256 ~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      ++..+..+..++...++   .++|..+++++++.+|+++.....++..+.+.|++++|...++++.+..
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            44444445554432222   4555566666665556555555555555555666666666665555543

>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=97.93  E-value=0.00092  Score=54.18  Aligned_cols=48  Identities=4%  Similarity=-0.150  Sum_probs=25.5

Q ss_pred             CCchHHHHHHHHHHh--h---cCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHH
Q 048799           81 EPSEITILAVFPAIW--Q---NGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTY  130 (331)
Q Consensus        81 ~~~~~~~~~l~~~~~--~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  130 (331)
                      +.+...|...+++..  .   ..+..+|..+|+++++..+.  ...++..+.-+|
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~--~a~A~A~la~a~  243 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPE--FTYARAEKALVD  243 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTT--CHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCC--CHHHHHHHHHHH
Confidence            445555555554432  2   22346777777777777443  444554444444

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.90  E-value=0.00035  Score=54.35  Aligned_cols=83  Identities=8%  Similarity=-0.036  Sum_probs=40.4

Q ss_pred             HHHHHHHhhcccCCcc---HHHHHHHHHHHhcC-----CchhHHHHHHHHHHHhhcCC-CccHHHHHHHHhhh-ccCcch
Q 048799          241 EQAEKVASGIPSEITN---VVVWRTLLGACSFH-----GNVEMGERVTRKILEMERGY-GGDYVLMYNILAGV-WRYGDA  310 (331)
Q Consensus       241 ~~A~~~~~~~~~~~p~---~~~~~~l~~~~~~~-----g~~~~a~~~~~~~~~~~~~~-~~~~~~l~~~~~~~-g~~~~a  310 (331)
                      ..|...++++.+..|+   ...|..+...|...     |+.++|.+.|+++++++|+. ..++..++..++.. |+.+++
T Consensus       180 ~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a  259 (301)
T 3u64_A          180 HAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGF  259 (301)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHH
Confidence            3444444444444333   33455555555442     55555555555555555542 45555555555442 555555


Q ss_pred             HHHHHHHhhcccc
Q 048799          311 ERLRRVVDERNAL  323 (331)
Q Consensus       311 ~~~~~~~~~~~~~  323 (331)
                      .+.+++.......
T Consensus       260 ~~~L~kAL~a~p~  272 (301)
T 3u64_A          260 DEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHCCGG
T ss_pred             HHHHHHHHcCCCC
Confidence            5555555544433

>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=97.87  E-value=4.8e-05  Score=63.88  Aligned_cols=86  Identities=17%  Similarity=0.042  Sum_probs=66.0

Q ss_pred             ccCChHHHHHHHHHHHHhc--CCCC----cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC--------Ccc-HHHHHHHH
Q 048799          200 HGGLVEEGLKFFDKMVEEC--EVLP----DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE--------ITN-VVVWRTLL  264 (331)
Q Consensus       200 ~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~p~-~~~~~~l~  264 (331)
                      ..|++++|+.++++..+..  -+.|    ...+++.|..+|...|++++|..+++++...        .|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            4578889998888876631  1112    2467888888999999999998888876544        344 36788889


Q ss_pred             HHHhcCCchhHHHHHHHHHHH
Q 048799          265 GACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      ..|...|++++|+.+++++++
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999999987

>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=97.80  E-value=0.00011  Score=61.75  Aligned_cols=100  Identities=13%  Similarity=0.010  Sum_probs=75.3

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhc--CCCC----cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC--------Ccc-HH
Q 048799          194 VLNACSHGGLVEEGLKFFDKMVEEC--EVLP----DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE--------ITN-VV  258 (331)
Q Consensus       194 l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~p~-~~  258 (331)
                      .+..+...|++++|+.++++..+..  -+.|    ...+++.++..|...|++++|..+++++...        .|+ ..
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            3445667889999999998887531  1122    2457888889999999999999888876644        343 46


Q ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHHH-----hhcCCCcc
Q 048799          259 VWRTLLGACSFHGNVEMGERVTRKILE-----MERGYGGD  293 (331)
Q Consensus       259 ~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~  293 (331)
                      +++.|...|...|++++|+.+++++++     .+|+++.+
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~  412 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLI  412 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHH
Confidence            788899999999999999999999987     35666433

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.75  E-value=4.5e-05  Score=49.57  Aligned_cols=55  Identities=11%  Similarity=0.096  Sum_probs=26.9

Q ss_pred             HHhccCChHHHHHHHHHHHHhcCCCCcHh-hHHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          197 ACSHGGLVEEGLKFFDKMVEECEVLPDIK-HYGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       197 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      .+...|++++|...++++.+.  .+.+.. .+..+..+|...|++++|.+.|+++...
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            344455555555555555443  112333 4455555555555555555555555444

>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=97.70  E-value=3e-05  Score=65.13  Aligned_cols=85  Identities=8%  Similarity=0.027  Sum_probs=68.8

Q ss_pred             hcCCHHHHHHHHhhcccC--------Ccc-HHHHHHHHHHHhcCCchhHHHHHHHHHHHh-----hcCCC---ccHHHHH
Q 048799          236 RAGRLEQAEKVASGIPSE--------ITN-VVVWRTLLGACSFHGNVEMGERVTRKILEM-----ERGYG---GDYVLMY  298 (331)
Q Consensus       236 ~~g~~~~A~~~~~~~~~~--------~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~---~~~~~l~  298 (331)
                      ..|++++|..++++....        .|+ ..+++.+..+|...|++++|+.+++++++.     .|+++   ..+..|+
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            357888998888776543        333 478899999999999999999999999972     44443   5688899


Q ss_pred             HHHhhhccCcchHHHHHHHhhc
Q 048799          299 NILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       299 ~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      .+|..+|++++|+.++++..+.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHH
Confidence            9999999999999999887653

>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=97.63  E-value=9.1e-05  Score=62.29  Aligned_cols=89  Identities=16%  Similarity=0.052  Sum_probs=72.7

Q ss_pred             HHHHHhcCCHHHHHHHHhhcccC--------Ccc-HHHHHHHHHHHhcCCchhHHHHHHHHHHHh-----hcCCC---cc
Q 048799          231 IDMLGRAGRLEQAEKVASGIPSE--------ITN-VVVWRTLLGACSFHGNVEMGERVTRKILEM-----ERGYG---GD  293 (331)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~--------~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~---~~  293 (331)
                      +..+.+.|++++|..+++++...        .|+ ..+++.+..+|...|++++|+.+++++++.     .|+++   ..
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            45566889999999999877644        222 477899999999999999999999999972     34443   46


Q ss_pred             HHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          294 YVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       294 ~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      +..|+.+|...|++++|..++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            78899999999999999999988765

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.63  E-value=0.00031  Score=46.15  Aligned_cols=75  Identities=16%  Similarity=0.049  Sum_probs=53.7

Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC--------CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccH
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE--------ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDY  294 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  294 (331)
                      +..-+..|+..+.+.|++..|..+|+.+...        .+....+..+..++.+.|+++.|...++++.+..|++..+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~   83 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRAN   83 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHH
Confidence            3344455666666777777777766665543        23567788888999999999999999999999889885554


Q ss_pred             HHH
Q 048799          295 VLM  297 (331)
Q Consensus       295 ~~l  297 (331)
                      ..+
T Consensus        84 ~n~   86 (104)
T 2v5f_A           84 GNL   86 (104)
T ss_dssp             HHH
T ss_pred             hhH
Confidence            443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.60  E-value=0.004  Score=57.08  Aligned_cols=132  Identities=13%  Similarity=0.027  Sum_probs=71.2

Q ss_pred             HHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccC
Q 048799           88 LAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHG  167 (331)
Q Consensus        88 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~  167 (331)
                      ..++..+.+.|..+.|.++.+.       + .     .-.......|++++|.++.+.+    .+...|..+...+.+.+
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~-------~-~-----~~f~~~l~~~~~~~A~~~~~~~----~~~~~W~~la~~al~~~  695 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD-------Q-D-----QKFELALKVGQLTLARDLLTDE----SAEMKWRALGDASLQRF  695 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC-------H-H-----HHHHHHHHHTCHHHHHHHHTTC----CCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCChHHheecCCC-------c-c-----hheehhhhcCCHHHHHHHHHhh----CcHhHHHHHHHHHHHcC
Confidence            4455555666666666655421       1 1     1123345567777777665443    34566777777777777


Q ss_pred             ChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHH
Q 048799          168 MGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVA  247 (331)
Q Consensus       168 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  247 (331)
                      +++.|.+.|.++..         |..+...+...|+.+...++-+..... |      -++.-..+|.+.|++++|.+++
T Consensus       696 ~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~-~------~~~~A~~~~~~~g~~~~a~~~~  759 (814)
T 3mkq_A          696 NFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETT-G------KFNLAFNAYWIAGDIQGAKDLL  759 (814)
T ss_dssp             CHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHH
T ss_pred             CHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHc-C------chHHHHHHHHHcCCHHHHHHHH
Confidence            77777777776543         333444444455555555444444332 2      1222333455566666666665


Q ss_pred             hhccc
Q 048799          248 SGIPS  252 (331)
Q Consensus       248 ~~~~~  252 (331)
                      .++..
T Consensus       760 ~~~~~  764 (814)
T 3mkq_A          760 IKSQR  764 (814)
T ss_dssp             HHTTC
T ss_pred             HHcCC
Confidence            55543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.54  E-value=0.00067  Score=43.42  Aligned_cols=63  Identities=11%  Similarity=-0.067  Sum_probs=28.6

Q ss_pred             hhHHHHHHHHHHHhcCC---HhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          119 HIHVSNCLIDTYAKCGC---IFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      ++..+..+..++...++   .++|..+++++....| ++.+...+...+.+.|++++|+..|+++.+
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            33444444444433222   3455555555444433 234444444444455555555555555444

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.46  E-value=0.007  Score=55.44  Aligned_cols=128  Identities=14%  Similarity=0.003  Sum_probs=87.0

Q ss_pred             HHHHHHcCCHHHHHH-HHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhH
Q 048799           24 ITGLVKWGELEYARS-LFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRN  102 (331)
Q Consensus        24 ~~~~~~~g~~~~A~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  102 (331)
                      .......+++++|.+ ++..++.  ......++..+.+.|..++|+++.+.-        .     .-.......|+++.
T Consensus       606 ~~~~~~~~~~~~a~~~~l~~i~~--~~~~~~~~~~l~~~~~~~~a~~~~~~~--------~-----~~f~~~l~~~~~~~  670 (814)
T 3mkq_A          606 FQTLTLRGEIEEAIENVLPNVEG--KDSLTKIARFLEGQEYYEEALNISPDQ--------D-----QKFELALKVGQLTL  670 (814)
T ss_dssp             HHHHHHTTCHHHHHHHTGGGCCC--HHHHHHHHHHHHHTTCHHHHHHHCCCH--------H-----HHHHHHHHHTCHHH
T ss_pred             HhHHHHhCCHHHHHHHHHhcCCc--hHHHHHHHHHHHhCCChHHheecCCCc--------c-----hheehhhhcCCHHH
Confidence            344457899999998 7755541  223377778888899999988765321        1     11334467899999


Q ss_pred             HHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 048799          103 CQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQ  180 (331)
Q Consensus       103 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  180 (331)
                      |.++.+.+.       +...|..+...+.+.|+++.|.+.|.++..       |..+...+...|+.+...++-+...
T Consensus       671 A~~~~~~~~-------~~~~W~~la~~al~~~~~~~A~~~y~~~~d-------~~~l~~l~~~~~~~~~~~~~~~~a~  734 (814)
T 3mkq_A          671 ARDLLTDES-------AEMKWRALGDASLQRFNFKLAIEAFTNAHD-------LESLFLLHSSFNNKEGLVTLAKDAE  734 (814)
T ss_dssp             HHHHHTTCC-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC-------HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhhC-------cHhHHHHHHHHHHHcCCHHHHHHHHHHccC-------hhhhHHHHHHcCCHHHHHHHHHHHH
Confidence            999876542       678999999999999999999999998732       3333444444565555444443333

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.45  E-value=0.001  Score=46.46  Aligned_cols=87  Identities=10%  Similarity=-0.134  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcC---CHHHHHHHHhhcccCC-c--cHHHHHHHHHHHhcCCchhHHHH
Q 048799          205 EEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAG---RLEQAEKVASGIPSEI-T--NVVVWRTLLGACSFHGNVEMGER  278 (331)
Q Consensus       205 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~-p--~~~~~~~l~~~~~~~g~~~~a~~  278 (331)
                      ..+.+-|.+..+. + +++..+...+..++++.+   +++++..+++...... |  +...+-.+.-++.+.|++++|.+
T Consensus        15 ~~~~~~y~~e~~~-~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           15 LKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHT-T-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHH
Confidence            4445555555443 3 256666667777777766   5557777777766653 4  34556667777888889999999


Q ss_pred             HHHHHHHhhcCCCcc
Q 048799          279 VTRKILEMERGYGGD  293 (331)
Q Consensus       279 ~~~~~~~~~~~~~~~  293 (331)
                      .++.+++.+|++...
T Consensus        93 y~~~lL~ieP~n~QA  107 (152)
T 1pc2_A           93 YVRGLLQTEPQNNQA  107 (152)
T ss_dssp             HHHHHHHHCTTCHHH
T ss_pred             HHHHHHhcCCCCHHH
Confidence            999988888877433

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.36  E-value=3.3e-09  Score=87.22  Aligned_cols=224  Identities=12%  Similarity=0.057  Sum_probs=136.8

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHH
Q 048799           47 NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL  126 (331)
Q Consensus        47 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  126 (331)
                      .+..|..|..+....+.+.+|++.|-+.       .|+..|..++.+..+.|.+++-...+..+.+..-+|   .+=+.|
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA-------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~---~IDteL  122 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES---YVETEL  122 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC-------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST---TTTHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC-------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc---ccHHHH
Confidence            3456888888888888888888777443       345567788888889999999998888887764433   344578


Q ss_pred             HHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHH
Q 048799          127 IDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEE  206 (331)
Q Consensus       127 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  206 (331)
                      +-+|++.++..+-++++.     .|+..-...+..-|...|.++.|.-+|..+-.         |..|...+.+.|++..
T Consensus       123 i~ayAk~~rL~elEefl~-----~~N~A~iq~VGDrcf~e~lYeAAKilys~isN---------~akLAstLV~L~~yq~  188 (624)
T 3lvg_A          123 IFALAKTNRLAELEEFIN-----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQA  188 (624)
T ss_dssp             HHHHHTSCSSSTTTSTTS-----CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCC---------CTTTSSSSSSCSGGGS
T ss_pred             HHHHHhhCcHHHHHHHHc-----CCCcccHHHHHHHHHHccCHHHHHHHHHhCcc---------HHHHHHHHHHHHHHHH
Confidence            889999888776554432     46666666777777888888877777754422         3334444555666655


Q ss_pred             HHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCchhHHHHHHHHHHHh
Q 048799          207 GLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGNVEMGERVTRKILEM  286 (331)
Q Consensus       207 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  286 (331)
                      |.+.-++       .-++.||..+-.+|...+.+.-|.-.--.++-.   +.-...++.-|-..|.+++.+.+++..+.+
T Consensus       189 AVdaArK-------Ans~ktWKeV~~ACvd~~EfrLAqicGLniIvh---adeL~elv~~YE~~G~f~ELIsLlEaglgl  258 (624)
T 3lvg_A          189 AVDGARK-------ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---ADELEELINYYQDRGYFEELITMLEAALGL  258 (624)
T ss_dssp             STTTTTT-------CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SSCCSGGGSSSSTTCCCTTSTTTHHHHTTS
T ss_pred             HHHHHHh-------cCChhHHHHHHHHHhCchHHHHHHHhcchhccc---HHHHHHHHHHHHhCCCHHHHHHHHHHHhCC
Confidence            5432211       224556666666666666555443332222111   001112344455556666666666665554


Q ss_pred             hcCCCccHHHHHHHHhhh
Q 048799          287 ERGYGGDYVLMYNILAGV  304 (331)
Q Consensus       287 ~~~~~~~~~~l~~~~~~~  304 (331)
                      ...+...|..|+.+|++.
T Consensus       259 ErAHmGmFTELaILYsKY  276 (624)
T 3lvg_A          259 ERAHMGMFTELAILYSKF  276 (624)
T ss_dssp             TTCCHHHHHHHHHHHHSS
T ss_pred             CchhHHHHHHHHHHHHhc
Confidence            444545555555555544

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.25  E-value=0.0022  Score=44.72  Aligned_cols=69  Identities=13%  Similarity=-0.024  Sum_probs=39.5

Q ss_pred             CchHHHHHHHHHHhhcC---chhHHHHHHhhhhhcC-CCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC
Q 048799           82 PSEITILAVFPAIWQNG---DVRNCQLIHGYGEKRG-FNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK  151 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  151 (331)
                      ++..+...+..++++++   +.++++.+++...+.. +.. ....+..|.-++.+.|++++|.+.++.+.+..|
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~-~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP  102 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEE-QRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEP  102 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHH-HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccc-hHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC
Confidence            45555555666666655   4556666666666654 111 233444555566666666666666666665555

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=97.20  E-value=0.11  Score=47.60  Aligned_cols=254  Identities=7%  Similarity=-0.070  Sum_probs=141.0

Q ss_pred             HHHHcCCHHHHHHHHhhCCC----CCch--hHHHHHHHHHhcCChhHHHHHHHHHHhccCC------CCchHHHHHH--H
Q 048799           26 GLVKWGELEYARSLFEEMPC----RNVV--SWTGIIDGYTRMNRSNGALALFRRMVACEYT------EPSEITILAV--F   91 (331)
Q Consensus        26 ~~~~~g~~~~A~~~~~~~~~----~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~~~l--~   91 (331)
                      +....|+.++++.++.....    .+..  .=..+.-+.+..|...++..++...+.....      .+....-..+  .
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            35567888888888887653    1211  2223334456667666788877776443210      0111112222  2


Q ss_pred             HHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcH-HHHHHHHHHHHccCChH
Q 048799           92 PAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNL-VSWTSIISGFAMHGMGK  170 (331)
Q Consensus        92 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~  170 (331)
                      .++.-.++ +++.+.+..++..........+-.+|...+.-.|+-+....++..+.....+. .-...+.-++...|+.+
T Consensus       463 la~~GS~~-eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~e  541 (963)
T 4ady_A          463 LAAMGSAN-IEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQE  541 (963)
T ss_dssp             HHSTTCCC-HHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCGG
T ss_pred             HHhcCCCC-HHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCChH
Confidence            23333333 34555555554432111011222344555667788777777777765543332 22333344555788888


Q ss_pred             HHHHHHHHHHhccCCCCHHHHH---HHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHH
Q 048799          171 EAVENFERMQKVVLKPNRVTFL---SVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVA  247 (331)
Q Consensus       171 ~a~~~~~~m~~~~~~p~~~~~~---~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  247 (331)
                      .+..+++.+... ..|. .-|.   .+..+|+..|+.....+++..+.+.  ...+......+.-++...|+.+.+.+++
T Consensus       542 ~~~~li~~L~~~-~dp~-vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          542 LADDLITKMLAS-DESL-LRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGHHHHHHHHHC-SCHH-HHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             HHHHHHHHHHhC-CCHH-HHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            888888887753 1222 2232   4455788899988888899988764  2233443344444555678877788888


Q ss_pred             hhcccC-CccHHHHHHHHHHHhcCCch-hHHHHHHHHHH
Q 048799          248 SGIPSE-ITNVVVWRTLLGACSFHGNV-EMGERVTRKIL  284 (331)
Q Consensus       248 ~~~~~~-~p~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~  284 (331)
                      ..+... .|....-..+.-+....|.. .++...+..+.
T Consensus       618 ~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          618 QLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             TTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            776655 44444444444445555554 46777777775

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.14  E-value=0.0038  Score=40.81  Aligned_cols=32  Identities=19%  Similarity=0.069  Sum_probs=15.4

Q ss_pred             hHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC
Q 048799          120 IHVSNCLIDTYAKCGCIFSALKLFEDISVERK  151 (331)
Q Consensus       120 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  151 (331)
                      ..++..|..++.+.|+++.|...++++....|
T Consensus        46 ~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P   77 (104)
T 2v5f_A           46 VSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC
Confidence            34444445555555555555555554444433

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.09  E-value=2.7e-06  Score=70.38  Aligned_cols=250  Identities=9%  Similarity=0.077  Sum_probs=157.6

Q ss_pred             cchhHHhhhcCCchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCC
Q 048799            3 KDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEP   82 (331)
Q Consensus         3 ~~A~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   82 (331)
                      +.|.+.-++..+|  ..|..|..+..+.|++.+|++-|  ++..|+..|..++.+..+.|.+++-+..+.-. ++..-.|
T Consensus        42 dRa~eyA~~~n~p--~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~Ma-Rk~~ke~  116 (624)
T 3lvg_A           42 DRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMA-RKKARES  116 (624)
T ss_dssp             TTTTTSSSSCCCC--CCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTT-STTCCST
T ss_pred             HHHHHHHHHhCCc--cHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHH-HHHhccc
Confidence            3344433343344  45888999998889888888777  44557777889999999999999999988765 4443333


Q ss_pred             chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhh--------------
Q 048799           83 SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISV--------------  148 (331)
Q Consensus        83 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------------  148 (331)
                        ..=+.|+-+|++.++..+..+++..       | +..-...+++-|...|.++.|.-+|..+..              
T Consensus       117 --~IDteLi~ayAk~~rL~elEefl~~-------~-N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~y  186 (624)
T 3lvg_A          117 --YVETELIFALAKTNRLAELEEFING-------P-NNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEY  186 (624)
T ss_dssp             --TTTHHHHHHHHTSCSSSTTTSTTSC-------C-SSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGG
T ss_pred             --ccHHHHHHHHHhhCcHHHHHHHHcC-------C-CcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHH
Confidence              3344688889998887766554432       2 333334567777778888777777665422              


Q ss_pred             --------cCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCC
Q 048799          149 --------ERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEV  220 (331)
Q Consensus       149 --------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  220 (331)
                              ...++.+|..+-.+|...+.+.-|.-.--.++   +.|+  ....++..|...|.+++-+.+++.-.   |.
T Consensus       187 q~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniI---vhad--eL~elv~~YE~~G~f~ELIsLlEagl---gl  258 (624)
T 3lvg_A          187 QAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHAD--ELEELINYYQDRGYFEELITMLEAAL---GL  258 (624)
T ss_dssp             GSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHH---CCSS--CCSGGGSSSSTTCCCTTSTTTHHHHT---TS
T ss_pred             HHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhc---ccHH--HHHHHHHHHHhCCCHHHHHHHHHHHh---CC
Confidence                    12356778888888888877665543332222   1122  12345666777888888877777765   33


Q ss_pred             -CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC--Cc-------cHHHHHHHHHHHhcCCchhHH
Q 048799          221 -LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE--IT-------NVVVWRTLLGACSFHGNVEMG  276 (331)
Q Consensus       221 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p-------~~~~~~~l~~~~~~~g~~~~a  276 (331)
                       .....+|+-|.-.|++- ++++..+.++....+  .|       ....|.-++-.|.+-.+++.|
T Consensus       259 ErAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA  323 (624)
T 3lvg_A          259 ERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNA  323 (624)
T ss_dssp             TTCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHH
T ss_pred             CchhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHH
Confidence             34667777777777654 455555555554443  22       234466666666666666544

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.05  E-value=0.004  Score=48.51  Aligned_cols=86  Identities=14%  Similarity=0.031  Sum_probs=59.9

Q ss_pred             hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhc-----CCHhHHHHHHHHhhhcCCc--HHHHHHHHHHHHcc-CChHH
Q 048799          100 VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKC-----GCIFSALKLFEDISVERKN--LVSWTSIISGFAMH-GMGKE  171 (331)
Q Consensus       100 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~~~~~--~~~~~~l~~~~~~~-~~~~~  171 (331)
                      ...|...++++++..+.-.+..+|..|+..|...     |+.++|.+.|++.....|+  ..++......++.. |+.++
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            4566777777777755433456777777777774     7888888888887777662  66666777777664 77888


Q ss_pred             HHHHHHHHHhccCC
Q 048799          172 AVENFERMQKVVLK  185 (331)
Q Consensus       172 a~~~~~~m~~~~~~  185 (331)
                      +.+.+++.+.....
T Consensus       259 a~~~L~kAL~a~p~  272 (301)
T 3u64_A          259 FDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHcCCCC
Confidence            88888777775544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.77  E-value=0.025  Score=37.98  Aligned_cols=89  Identities=10%  Similarity=-0.150  Sum_probs=61.0

Q ss_pred             hHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHH---HHHHHhhcccCC-c--cHHHHHHHHHHHhcCCchhHHH
Q 048799          204 VEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQ---AEKVASGIPSEI-T--NVVVWRTLLGACSFHGNVEMGE  277 (331)
Q Consensus       204 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~-p--~~~~~~~l~~~~~~~g~~~~a~  277 (331)
                      ...+.+-|...... +. ++..+-..+..++.+..+..+   +..+++...... |  .....-.+.-++.+.|++++|.
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 LLKFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHH-SC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            34445555555444 33 566666677777777776655   777777776663 4  2344555667888999999999


Q ss_pred             HHHHHHHHhhcCCCccH
Q 048799          278 RVTRKILEMERGYGGDY  294 (331)
Q Consensus       278 ~~~~~~~~~~~~~~~~~  294 (331)
                      +.++.+++..|++..+.
T Consensus        95 ~~~~~lL~~eP~n~QA~  111 (126)
T 1nzn_A           95 KYVRGLLQTEPQNNQAK  111 (126)
T ss_dssp             HHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHhCCCCHHHH
Confidence            99999999999874443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=96.64  E-value=0.14  Score=48.85  Aligned_cols=52  Identities=10%  Similarity=0.071  Sum_probs=36.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHH
Q 048799           22 VMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus        22 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      .++..+.+.+.++.|.++...... +...--.+..++...|++++|...|++.
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~~-~~~~~yl~g~~~L~~ge~~~A~~~F~ka  868 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLNS-DPIAVYLKALIYLKSKEAVKAVRCFKTT  868 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHTC
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccC-CcHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            355566677777777777666654 3333345667788888888888888775

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.59  E-value=0.087  Score=35.68  Aligned_cols=59  Identities=12%  Similarity=0.127  Sum_probs=31.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      ...-+..+...|+-+.-.+++..+... +|++.....+..+|.+.|+..+|.+++.++-+
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~  153 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACK  153 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            334444555556666655665553222 45555555556666666666666666655554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.57  E-value=0.025  Score=37.95  Aligned_cols=87  Identities=9%  Similarity=-0.135  Sum_probs=48.7

Q ss_pred             ChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhH---HHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHH
Q 048799           63 RSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRN---CQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSA  139 (331)
Q Consensus        63 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  139 (331)
                      ....+.+-|.+. ...+. |+..+-..+..+++++++...   ++.+++.+.+.+.+.........|.-++.+.|++++|
T Consensus        16 ~l~~~~~~y~~e-~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           16 DLLKFEKKFQSE-KAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHH-HHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHH-hccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            344445555544 22222 555565566666666655444   6666766666542111333444566667777777777


Q ss_pred             HHHHHHhhhcCC
Q 048799          140 LKLFEDISVERK  151 (331)
Q Consensus       140 ~~~~~~~~~~~~  151 (331)
                      .+.++.+....|
T Consensus        94 ~~~~~~lL~~eP  105 (126)
T 1nzn_A           94 LKYVRGLLQTEP  105 (126)
T ss_dssp             HHHHHHHHHHCT
T ss_pred             HHHHHHHHHhCC
Confidence            777777766655

>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=96.55  E-value=0.37  Score=42.46  Aligned_cols=115  Identities=10%  Similarity=-0.006  Sum_probs=73.4

Q ss_pred             CChHHHHHHHHHHHhccCCCCHHHH----HHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHH
Q 048799          167 GMGKEAVENFERMQKVVLKPNRVTF----LSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQ  242 (331)
Q Consensus       167 ~~~~~a~~~~~~m~~~~~~p~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  242 (331)
                      .+.+.|...+....... ..+....    ..+.......+...++...+......   .++.....-.+..-.+.|+++.
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~  303 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRG  303 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHH
Confidence            37889999998876543 2233222    23333334445356667777765543   2344444455555567899999


Q ss_pred             HHHHHhhcccCCcc-HHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          243 AEKVASGIPSEITN-VVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       243 A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      |.+.|..+....++ ....-=+..++...|+.++|..+|+.+.+
T Consensus       304 a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            99999999876222 22222255677788999999999999874

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.39  E-value=0.16  Score=36.44  Aligned_cols=105  Identities=14%  Similarity=0.125  Sum_probs=65.5

Q ss_pred             HHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHH
Q 048799          128 DTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEG  207 (331)
Q Consensus       128 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  207 (331)
                      ......|+++.|.++.+.+    .+...|..+.......|+++-|...|.+...         +..+.-.|...|+.+..
T Consensus        13 ~LAL~lg~l~~A~e~a~~l----~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L   79 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL----NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKL   79 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH----CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh----CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHH
Confidence            4456677777777776655    3466777777777777777777777776544         33444445556666665


Q ss_pred             HHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhccc
Q 048799          208 LKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPS  252 (331)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  252 (331)
                      .++-+....+ |      -++.-...+...|+++++.++|.+...
T Consensus        80 ~kla~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~r  117 (177)
T 3mkq_B           80 SKMQNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGGS  117 (177)
T ss_dssp             HHHHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCCC
Confidence            5554444433 2      233444456667777777777766554

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=96.26  E-value=0.055  Score=38.15  Aligned_cols=124  Identities=9%  Similarity=0.004  Sum_probs=63.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhCC-----CCCc-------hhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchH-HHH
Q 048799           22 VMITGLVKWGELEYARSLFEEMP-----CRNV-------VSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEI-TIL   88 (331)
Q Consensus        22 ~l~~~~~~~g~~~~A~~~~~~~~-----~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~   88 (331)
                      .-+..+...|.++.|+-+.+.+.     .+++       .++..+.+++...|++.+|...|++.+.....-+... +..
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~  104 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRP  104 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence            34555666777777776666543     2332       1455566677777777777777777533322212111 111


Q ss_pred             HHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHH
Q 048799           89 AVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSI  159 (331)
Q Consensus        89 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l  159 (331)
                      .+. .   .......         ..... +..+-..+..+|.+.|++++|+.+++.+.....++..-..|
T Consensus       105 ~~~-~---~ss~p~s---------~~~~~-e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~kvnm~L  161 (167)
T 3ffl_A          105 STG-N---SASTPQS---------QCLPS-EIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTPKINMLL  161 (167)
T ss_dssp             -------------------------CCCC-HHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCHHHHHHH
T ss_pred             ccc-c---cCCCccc---------ccccc-hHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCHHHHHHH
Confidence            110 0   0000000         00111 44555668888888888888888888876554444433333

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=96.24  E-value=0.074  Score=37.50  Aligned_cols=130  Identities=12%  Similarity=-0.029  Sum_probs=72.4

Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHhhhc---CCcH-------HHHHHHHHHHHccCChHHHHHHHHHHHhcc-CCCCHH-HH
Q 048799          124 NCLIDTYAKCGCIFSALKLFEDISVE---RKNL-------VSWTSIISGFAMHGMGKEAVENFERMQKVV-LKPNRV-TF  191 (331)
Q Consensus       124 ~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~-~~  191 (331)
                      ..-+..+...|.++.|+-+...+...   +++.       .++..+..++...|++..|...|++.++.. ..+... +.
T Consensus        24 ~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~  103 (167)
T 3ffl_A           24 IDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVR  103 (167)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-------
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcc
Confidence            34466777788888888777665433   2331       245566677888888888888888765432 112111 11


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHH
Q 048799          192 LSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGAC  267 (331)
Q Consensus       192 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~  267 (331)
                      ..+.    .......         .. ...++...--.+..+|.+.|++++|+.+++.+....-++.+-..|.+.|
T Consensus       104 ~~~~----~~ss~p~---------s~-~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~kvnm~LakLy  165 (167)
T 3ffl_A          104 PSTG----NSASTPQ---------SQ-CLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTPKINMLLANLY  165 (167)
T ss_dssp             ---------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCHHHHHHHHHHC
T ss_pred             cccc----ccCCCcc---------cc-cccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCHHHHHHHHHHh
Confidence            1110    0000000         00 2233445555677888889999999999988876644555554454443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.15  E-value=0.025  Score=50.70  Aligned_cols=124  Identities=10%  Similarity=0.020  Sum_probs=79.2

Q ss_pred             HHHHHHHhccCC-hHHHHHHHHHHHHhcCCCCcHhhH--HHHHHHHHhcC-CHHHHHHHHhhcccC--------Cc-cH-
Q 048799          192 LSVLNACSHGGL-VEEGLKFFDKMVEECEVLPDIKHY--GCLIDMLGRAG-RLEQAEKVASGIPSE--------IT-NV-  257 (331)
Q Consensus       192 ~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g-~~~~A~~~~~~~~~~--------~p-~~-  257 (331)
                      ..++..+...++ .+.|.++++++.+.   .|...++  ..++..+...+ +--+|.+++.+..+.        .+ +. 
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~---~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~  328 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKK---DPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDAD  328 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhh---CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccc
Confidence            445555555556 47788888888775   3433322  22333222222 223444444443311        01 11 


Q ss_pred             ---------HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHh
Q 048799          258 ---------VVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVD  318 (331)
Q Consensus       258 ---------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  318 (331)
                               .....=..-+...|+++.|+++.+++....|....+|..|+.+|...|+++.|+-.++.+.
T Consensus       329 ~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          329 SARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                     1111113446678999999999999999999999999999999999999999999998874

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=96.10  E-value=0.43  Score=45.64  Aligned_cols=191  Identities=11%  Similarity=0.059  Sum_probs=119.6

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCC------------------
Q 048799          125 CLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP------------------  186 (331)
Q Consensus       125 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p------------------  186 (331)
                      .++..+...+.++-+.++..-.   +.++..--.+..++...|++++|.+.|.+... |+..                  
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~---~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL---NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS---CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc---cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccccc
Confidence            4555666777777776654433   23343444566788899999999999987521 1100                  


Q ss_pred             -----CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-c--HhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHH
Q 048799          187 -----NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-D--IKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVV  258 (331)
Q Consensus       187 -----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  258 (331)
                           -..-|..++..+.+.|.++.+.++-..+.+..+-.+ +  ...|..+.+.+...|++++|...+-.+....-...
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~~  972 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKKS  972 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCHH
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHHH
Confidence                 123367788888889999999988888876522121 1  12678889999999999999998877765533456


Q ss_pred             HHHHHHHHHhcCCchh------------HHHHHHHHH-HHh-hcCCCccHH-HHHHHHhhhccCcchHHH-HHHHhh
Q 048799          259 VWRTLLGACSFHGNVE------------MGERVTRKI-LEM-ERGYGGDYV-LMYNILAGVWRYGDAERL-RRVVDE  319 (331)
Q Consensus       259 ~~~~l~~~~~~~g~~~------------~a~~~~~~~-~~~-~~~~~~~~~-~l~~~~~~~g~~~~a~~~-~~~~~~  319 (331)
                      ....|+..++..|..+            +..+++..- ... .+.+.+.|. .|-.-+...|++..|-.+ ++...+
T Consensus       973 cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~R 1049 (1139)
T 4fhn_B          973 CLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSR 1049 (1139)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHH
Confidence            6677777666665543            333333222 222 344434444 445555677777776554 454433

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.05  E-value=0.25  Score=35.42  Aligned_cols=22  Identities=14%  Similarity=0.327  Sum_probs=8.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHH
Q 048799           51 WTGIIDGYTRMNRSNGALALFR   72 (331)
Q Consensus        51 ~~~l~~~~~~~~~~~~a~~~~~   72 (331)
                      |..|.......|+++-|...|.
T Consensus        37 Wk~Lg~~AL~~gn~~lAe~cy~   58 (177)
T 3mkq_B           37 WERLIQEALAQGNASLAEMIYQ   58 (177)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHH
Confidence            3333333333333333333333

>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=96.01  E-value=0.21  Score=34.57  Aligned_cols=48  Identities=17%  Similarity=0.128  Sum_probs=22.2

Q ss_pred             CChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 048799          167 GMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMV  215 (331)
Q Consensus       167 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  215 (331)
                      ++.++|.++|+.++..+-.. ...+......-.++|++..|.+++.+.+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~Ai  121 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAV  121 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHh
Confidence            45555555555554432222 3333333344444555555555555554

>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=95.90  E-value=0.15  Score=35.24  Aligned_cols=54  Identities=13%  Similarity=-0.061  Sum_probs=34.2

Q ss_pred             cCCHhHHHHHHHHhhhcC-CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCC
Q 048799          133 CGCIFSALKLFEDISVER-KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP  186 (331)
Q Consensus       133 ~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p  186 (331)
                      .++.++|.++|+.+.+.. .-...|......-.+.|+...|.+++.+.+..+..|
T Consensus        73 i~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             hcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            367777777777765441 224556566666667777777777777776655443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.83  E-value=1.1  Score=41.27  Aligned_cols=278  Identities=10%  Similarity=0.048  Sum_probs=150.1

Q ss_pred             ccchhHHhhhcCC----ch--HHHHHHHHHHHHHcCCHHHHHHHHhhCC-CCC----------chhHHHHHHHHHhcCC-
Q 048799            2 LKDGSKLFDELPE----RN--LVTWNVMITGLVKWGELEYARSLFEEMP-CRN----------VVSWTGIIDGYTRMNR-   63 (331)
Q Consensus         2 ~~~A~~~~~~~~~----p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----------~~~~~~l~~~~~~~~~-   63 (331)
                      +++++++++.-..    .+  ...-..+.-+....|..+++..++.... .++          ...-.++.-+++-.|. 
T Consensus       390 ~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla~~GS~  469 (963)
T 4ady_A          390 LLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSA  469 (963)
T ss_dssp             TTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHHSTTCC
T ss_pred             hHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHHHhcCCC
Confidence            3556666665442    12  2233334445556666667777666543 222          1112233333433343 


Q ss_pred             hhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHH
Q 048799           64 SNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLF  143 (331)
Q Consensus        64 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  143 (331)
                      -+++.+.+..++...........-..+...++-.|+.+-...++..+.+....  +..-...+.-++.-.|+.+.+..+.
T Consensus       470 ~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e--~vrR~aalgLGll~~g~~e~~~~li  547 (963)
T 4ady_A          470 NIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHG--NITRGLAVGLALINYGRQELADDLI  547 (963)
T ss_dssp             CHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCH--HHHHHHHHHHHHHTTTCGGGGHHHH
T ss_pred             CHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcH--HHHHHHHHHHHhhhCCChHHHHHHH
Confidence            24566666666442211000112223444566778888778888777654321  3333334445555789999999988


Q ss_pred             HHhhhcCCcHHHHH---HHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCC
Q 048799          144 EDISVERKNLVSWT---SIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEV  220 (331)
Q Consensus       144 ~~~~~~~~~~~~~~---~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  220 (331)
                      +.+........-|.   ++..+|+-.|+.....+++..+.... ..+......+.-++...|+.+.+.++++.+.+.  .
T Consensus       548 ~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~--~  624 (963)
T 4ady_A          548 TKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKS--H  624 (963)
T ss_dssp             HHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGC--S
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhc--C
Confidence            88865433333333   44557888899887777998887642 223333333333444567777777777766543  3


Q ss_pred             CCcHhhHHHHHHHHHhcCCH-HHHHHHHhhcccCCccHHHHHHHH--HHHhcCCchh----HHHHHHHHHHH
Q 048799          221 LPDIKHYGCLIDMLGRAGRL-EQAEKVASGIPSEITNVVVWRTLL--GACSFHGNVE----MGERVTRKILE  285 (331)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~p~~~~~~~l~--~~~~~~g~~~----~a~~~~~~~~~  285 (331)
                      .|....-..+.-+....|.. .+|...+..+... ++..+-..-+  -+....|..+    ....+.+.+.+
T Consensus       625 d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D-~d~~Vrq~Ai~ALG~Ig~gtnna~~~rva~~l~~L~~  695 (963)
T 4ady_A          625 NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKD-PVDFVRQAAMIALSMILIQQTEKLNPQVADINKNFLS  695 (963)
T ss_dssp             CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTC-SSHHHHHHHHHHHHHHSTTCCTTTCTTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccC-CCHHHHHHHHHHHHHHhcCCccccchHHHHHHHHHHH
Confidence            45555555555555555554 6788888888766 4443332222  2334444333    35555555554

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.81  E-value=0.51  Score=39.84  Aligned_cols=191  Identities=10%  Similarity=0.003  Sum_probs=112.5

Q ss_pred             cCChhHHHHHHHHHHhc----cCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHH----Hh
Q 048799           61 MNRSNGALALFRRMVAC----EYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTY----AK  132 (331)
Q Consensus        61 ~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~----~~  132 (331)
                      .|+++.|++.+..+.+.    ............++..|...++++...+.+.-+.+.....  ......+++.+    ..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql--k~ai~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL--KLSIQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS--HHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh--HHHHHHHHHHHHHHHhc
Confidence            47788888887666332    2233445677788888889999988877776665543332  22223333332    22


Q ss_pred             cCCHhH--HHHHHHHhhhcCC---c-----HHHHHHHHHHHHccCChHHHHHHHHHHHhc--cCCCC---HHHHHHHHHH
Q 048799          133 CGCIFS--ALKLFEDISVERK---N-----LVSWTSIISGFAMHGMGKEAVENFERMQKV--VLKPN---RVTFLSVLNA  197 (331)
Q Consensus       133 ~g~~~~--A~~~~~~~~~~~~---~-----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~--~~~p~---~~~~~~l~~~  197 (331)
                      ....+.  -..+.+.......   .     ......|...+...|++.+|.+++..+...  |..+.   ...+...++.
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            332222  2222222211111   1     122345677788888888888888887643  22222   2345666777


Q ss_pred             HhccCChHHHHHHHHHHHHhc---CCCCc--HhhHHHHHHHHHhcCCHHHHHHHHhhcccC
Q 048799          198 CSHGGLVEEGLKFFDKMVEEC---EVLPD--IKHYGCLIDMLGRAGRLEQAEKVASGIPSE  253 (331)
Q Consensus       198 ~~~~~~~~~a~~~~~~~~~~~---~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (331)
                      |...+++..|..++.++....   ..+|+  ...+...+..+...+++.+|.+.|.++...
T Consensus       187 ~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~  247 (445)
T 4b4t_P          187 SILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQT  247 (445)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            888888888888888764321   11222  234556666777788888888877776654

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.76  E-value=0.48  Score=39.18  Aligned_cols=71  Identities=14%  Similarity=0.323  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHh-----ccCCCCHHHHH
Q 048799          122 VSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQK-----VVLKPNRVTFL  192 (331)
Q Consensus       122 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~~~  192 (331)
                      +...++..+...|++++|...+..+....| +...|..+|.++...|+..+|++.|+++..     .|+.|+..+-.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            344566777778888888887777766655 666788888888888888888888877543     47777766543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.66  E-value=0.39  Score=43.23  Aligned_cols=128  Identities=12%  Similarity=0.028  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHhcCC-HhHHHHHHHHhhhcCCcHHHHH--HHHHHHHccC-ChHHHHHHHHHHHhc------cCCCC-H--
Q 048799          122 VSNCLIDTYAKCGC-IFSALKLFEDISVERKNLVSWT--SIISGFAMHG-MGKEAVENFERMQKV------VLKPN-R--  188 (331)
Q Consensus       122 ~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~--~l~~~~~~~~-~~~~a~~~~~~m~~~------~~~p~-~--  188 (331)
                      ....|+..+...|+ ++.|..+|+++....|....+-  .++..+...+ +--+|++++.+..+.      ...+. .  
T Consensus       250 L~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          250 LMYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            34455666666666 5889999999887777544332  3333333333 233566666554421      11111 1  


Q ss_pred             --------HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcc
Q 048799          189 --------VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIP  251 (331)
Q Consensus       189 --------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  251 (331)
                              .....=...+...|+++-|+.+-++....  .+.+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                    11122233456789999999999998863  34468899999999999999999999998885

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=95.59  E-value=0.16  Score=34.33  Aligned_cols=71  Identities=13%  Similarity=-0.069  Sum_probs=42.5

Q ss_pred             CCchHHHHHHHHHHhhcCc---hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc
Q 048799           81 EPSEITILAVFPAIWQNGD---VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN  152 (331)
Q Consensus        81 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  152 (331)
                      .|+..+-.....+++++.+   ..+++.+++.+.+.++.. ....+..|.-++.+.|++++|.+..+.+....|+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~-~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~  110 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESR-RRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  110 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGG-HHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcch-hHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCC
Confidence            4555555555555555543   345666666666655432 3344445666777777777777777777666553

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.52  E-value=0.33  Score=32.93  Aligned_cols=69  Identities=9%  Similarity=0.003  Sum_probs=52.7

Q ss_pred             CcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCC
Q 048799          151 KNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVL  221 (331)
Q Consensus       151 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  221 (331)
                      .+....+..+..+...|+-++-.+++..+.. +.+|++.....+..+|.+.|+..+|.+++.++-+. |++
T Consensus        89 ~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k-G~k  157 (172)
T 1wy6_A           89 TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKK-GEK  157 (172)
T ss_dssp             CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCH
T ss_pred             chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh-hhH
Confidence            4445566677778888888888888888543 35677888888888899999999998888888877 654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.24  E-value=1.2  Score=37.61  Aligned_cols=187  Identities=10%  Similarity=-0.009  Sum_probs=115.9

Q ss_pred             CCHHHHHHHHhhCC-----C----CCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHH--HHHHHHHhhcCc
Q 048799           31 GELEYARSLFEEMP-----C----RNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITI--LAVFPAIWQNGD   99 (331)
Q Consensus        31 g~~~~A~~~~~~~~-----~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~   99 (331)
                      |+++.|++.+-.+.     .    ........++..|...|+++...+.+.-+....|..+...+.  ..++........
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            67777777665443     1    123456778888999999999888887775555543333221  122222222332


Q ss_pred             hhH--HHHHHhhhh--hcCCC---cchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc--C--C---cHHHHHHHHHHHHc
Q 048799          100 VRN--CQLIHGYGE--KRGFN---AFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE--R--K---NLVSWTSIISGFAM  165 (331)
Q Consensus       100 ~~~--a~~~~~~~~--~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~--~---~~~~~~~l~~~~~~  165 (331)
                      .+.  -..+.+...  ..|..   .........|...+...|++.+|..++..+...  .  .   -...+...+..|..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~  189 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSIL  189 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            222  222222221  11111   102344567889999999999999999988543  1  1   23567777888999


Q ss_pred             cCChHHHHHHHHHHHhc--cCCCCH----HHHHHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          166 HGMGKEAVENFERMQKV--VLKPNR----VTFLSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       166 ~~~~~~a~~~~~~m~~~--~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      .+++..|..+++++...  ...++.    ..+...+..+...+++.+|.+.|.++.+.
T Consensus       190 ~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~  247 (445)
T 4b4t_P          190 KGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQT  247 (445)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            99999999999887431  122222    34566677777889999998888887664

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.02  E-value=0.52  Score=32.29  Aligned_cols=70  Identities=11%  Similarity=-0.088  Sum_probs=38.1

Q ss_pred             CCchHHHHHHHHHHhhcCc---hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC
Q 048799           81 EPSEITILAVFPAIWQNGD---VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK  151 (331)
Q Consensus        81 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  151 (331)
                      .|+..+-.....+++++.+   ..+++.+++.+...++.. .......|.-++.+.|++++|.+..+.+.+..|
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~-~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP  108 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESR-RRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  108 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCST-HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccc-hhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC
Confidence            4555555555555555443   345555666665544332 333333455666666666666666666665555

>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=94.93  E-value=1.3  Score=36.48  Aligned_cols=284  Identities=9%  Similarity=-0.040  Sum_probs=146.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHhhCCC--------CCchhHHHHHHHHHhc-CChhHHHHHHHHHHhccCCCCchHHH-
Q 048799           18 VTWNVMITGLVKWGELEYARSLFEEMPC--------RNVVSWTGIIDGYTRM-NRSNGALALFRRMVACEYTEPSEITI-   87 (331)
Q Consensus        18 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~-   87 (331)
                      .+...|...|.+.|+.++...++.....        .....-..|+..+... +..+.-.++..+......  -+..+| 
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~--~~~r~fl   97 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK--QEKRTFL   97 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH--HTTCHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH--HHHHHHH
Confidence            4556788889999999999998888763        1233456677766553 333444444444422111  111233 


Q ss_pred             -----HHHHHHHhhcCchhHHHHHHhhhhhcCCC----cchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc----CCcHH
Q 048799           88 -----LAVFPAIWQNGDVRNCQLIHGYGEKRGFN----AFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE----RKNLV  154 (331)
Q Consensus        88 -----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~  154 (331)
                           ..++..|...|++.+|..++.++.+.-..    ..-..++..-+..|...|++.++...+......    .+++.
T Consensus        98 r~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~  177 (394)
T 3txn_A           98 RQSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPK  177 (394)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHH
Confidence                 14677778888888887777776653111    112345555567777788888888877766443    12222


Q ss_pred             HHHH----HHHHHH-ccCChHHHHHHHHHHHhccCC---CC---HHHHHHHHHHHhccCChHHHHHHHH-HHHHhcCCCC
Q 048799          155 SWTS----IISGFA-MHGMGKEAVENFERMQKVVLK---PN---RVTFLSVLNACSHGGLVEEGLKFFD-KMVEECEVLP  222 (331)
Q Consensus       155 ~~~~----l~~~~~-~~~~~~~a~~~~~~m~~~~~~---p~---~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~  222 (331)
                      ....    -.-.+. ..++|..|...|-+....=..   |.   ...|..|...  -.++..+...++. .....+ ..|
T Consensus       178 i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL~aL--l~~~r~el~~~l~~~~~~~~-~~p  254 (394)
T 3txn_A          178 VQGALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLCKI--MLGQSDDVNQLVSGKLAITY-SGR  254 (394)
T ss_dssp             HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH--HTTCGGGHHHHHHSHHHHTT-CSH
T ss_pred             HHHHHHHHhhHHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHH--HcCCHHHHHHHhcccccccc-CCc
Confidence            2111    122344 677888887777655321101   11   1123222221  2233333333332 211211 234


Q ss_pred             cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH------hhcCCCccHH
Q 048799          223 DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILE------MERGYGGDYV  295 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~------~~~~~~~~~~  295 (331)
                      ....+..++.+| ..+++.+...++...... ..|+.....             ...+++.+.+      ..|-....+.
T Consensus       255 ei~~l~~L~~a~-~~~dl~~f~~iL~~~~~~l~~D~~l~~h-------------~~~L~~~Ir~~~L~~i~~pYsrIsl~  320 (394)
T 3txn_A          255 DIDAMKSVAEAS-HKRSLADFQAALKEYKKELAEDVIVQAH-------------LGTLYDTMLEQNLCRIIEPYSRVQVA  320 (394)
T ss_dssp             HHHHHHHHHHHH-HTTCHHHHHHHHHHSTTTTTTSHHHHHH-------------HHHHHHHHHHHHHHHHHTTCSEEEHH
T ss_pred             cHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHhcChHHHHH-------------HHHHHHHHHHHHHHHHhHhhceeeHH
Confidence            555555555544 456776666666655433 223322111             1122222222      2354445556


Q ss_pred             HHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          296 LMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       296 ~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      .++..+.-  ..++++..+-+|...|.
T Consensus       321 ~iA~~l~l--s~~evE~~L~~lI~dg~  345 (394)
T 3txn_A          321 HVAESIQL--PMPQVEKKLSQMILDKK  345 (394)
T ss_dssp             HHHHHHTC--CHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHCc--CHHHHHHHHHHHHHCCC
Confidence            66665543  56788888888877654

>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=93.93  E-value=0.098  Score=43.30  Aligned_cols=60  Identities=12%  Similarity=0.065  Sum_probs=39.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          226 HYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      ....++..+...|++++|...+..+... +-+...|..++.++...|+..+|.+.|+.+.+
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~  233 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  233 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445556666677777777666666554 33556677777777777777777777776655

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=93.65  E-value=2.2  Score=34.10  Aligned_cols=170  Identities=12%  Similarity=0.047  Sum_probs=92.6

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHH----HHHHhccCCCCHHHHHHHHH
Q 048799          121 HVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENF----ERMQKVVLKPNRVTFLSVLN  196 (331)
Q Consensus       121 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~----~~m~~~~~~p~~~~~~~l~~  196 (331)
                      ..+.++..=|.+.+++++|.+++..-.             ..+.+.|+...+-++-    +-..+.++++|..+...++.
T Consensus        36 Q~~RTi~~Ry~~~k~y~eAidLL~~GA-------------~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~  102 (336)
T 3lpz_A           36 QETRLVAARYSKQGNWAAAVDILASVS-------------QTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLG  102 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH-------------HHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHH-------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            344556666788888888888765432             1233344444433332    44445666777777766766


Q ss_pred             HHhccCChH-HHHHHHHHHHH---hcC--CCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcC
Q 048799          197 ACSHGGLVE-EGLKFFDKMVE---ECE--VLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFH  270 (331)
Q Consensus       197 ~~~~~~~~~-~a~~~~~~~~~---~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~  270 (331)
                      .+.....-+ .=.++.+++++   ..|  ..-|+.....+...|.+.+++.+|+..|-.  ...+.+..+..++.-+...
T Consensus       103 L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~il--g~~~s~~~~a~mL~ew~~~  180 (336)
T 3lpz_A          103 CLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVL--GTKESPEVLARMEYEWYKQ  180 (336)
T ss_dssp             HHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTT--SCTTHHHHHHHHHHHHHHT
T ss_pred             HHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHh--cCCchHHHHHHHHHHHHHh
Confidence            665544321 11223333322   113  223778888899999999999999998843  2223446665555554444


Q ss_pred             CchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          271 GNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       271 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      +...++--++-+              .+.-|...++...|..+++.+.+
T Consensus       181 ~~~~e~dlfiaR--------------aVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          181 DESHTAPLYCAR--------------AVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             SCGGGHHHHHHH--------------HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCccHHHHHHH--------------HHHHHHHhCCHHHHHHHHHHHHH
Confidence            332222111111              22234445666667666655544

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.32  E-value=0.95  Score=28.80  Aligned_cols=70  Identities=13%  Similarity=0.144  Sum_probs=53.4

Q ss_pred             HHHccC-ChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHH
Q 048799          162 GFAMHG-MGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDM  233 (331)
Q Consensus       162 ~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  233 (331)
                      .+.+.. +.-+..+-++.+....+.|++....+.+.+|.+.+++..|.++|+-++.+.+.  ...+|..+++-
T Consensus        18 ~F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~--~~~iY~~~lqE   88 (109)
T 1v54_E           18 YFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVIQE   88 (109)
T ss_dssp             HHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHHHH
T ss_pred             HcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC--chhhHHHHHHH
Confidence            333444 55677777888888888999999999999999999999999999998876333  34567766654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=93.18  E-value=1.4  Score=30.23  Aligned_cols=63  Identities=14%  Similarity=0.014  Sum_probs=27.4

Q ss_pred             hhHHHHHHHHHHHhcCCH---hHHHHHHHHhhhcCC-cH-HHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          119 HIHVSNCLIDTYAKCGCI---FSALKLFEDISVERK-NL-VSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~~-~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      +..+...+..+++++...   .+++.+++.+....| .. ...-.+.-++.+.|++++|.+..+.+++
T Consensus        38 s~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           38 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             CHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            334444444555544432   234444444443333 11 2222333345555555555555555544

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.11  E-value=2.7  Score=35.19  Aligned_cols=96  Identities=14%  Similarity=-0.072  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHhhhc----CCcHHHHHHHHHHHHccCChHHHHHHHHHHHhc---cCCCCHHH--HH
Q 048799          122 VSNCLIDTYAKCGCIFSALKLFEDISVE----RKNLVSWTSIISGFAMHGMGKEAVENFERMQKV---VLKPNRVT--FL  192 (331)
Q Consensus       122 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~--~~  192 (331)
                      +...++..|.+.|+++.|.+.|.++...    +.-...+..++..+...+++..+...+.++...   +..|+...  ..
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            5567889999999999999999988755    223566778888888899999999988887542   22233221  11


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHh
Q 048799          193 SVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       193 ~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      .-+..+...+++..|-..|-+....
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhcc
Confidence            1122345678899988888877665

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.70  E-value=3.1  Score=33.02  Aligned_cols=134  Identities=11%  Similarity=0.044  Sum_probs=78.8

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHH----HHHHHhccCCCCHHHHHHHHH
Q 048799          121 HVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVEN----FERMQKVVLKPNRVTFLSVLN  196 (331)
Q Consensus       121 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~m~~~~~~p~~~~~~~l~~  196 (331)
                      ..|.++..=|.+.+++++|.+++..-.             ..+.+.|+...|-++    ++-..+.+.+++......++.
T Consensus        34 Q~~Rtl~~Ry~~~~~~~eAidlL~~ga-------------~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~  100 (312)
T 2wpv_A           34 QTLRTIANRYVRSKSYEHAIELISQGA-------------LSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVR  100 (312)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH-------------HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHH-------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            344566666777888888888765432             223344555544443    344445667777777777777


Q ss_pred             HHhccCChH-HHHHHHHHHHHh---cCC--CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhc
Q 048799          197 ACSHGGLVE-EGLKFFDKMVEE---CEV--LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSF  269 (331)
Q Consensus       197 ~~~~~~~~~-~a~~~~~~~~~~---~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~  269 (331)
                      .+.....-+ .=.++++++++-   .|-  .-++.....+...|.+.|++.+|+..|-.....  +...+..++.-+..
T Consensus       101 l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~--s~~~~a~~l~~w~~  177 (312)
T 2wpv_A          101 LIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHD--SMIKYVDLLWDWLC  177 (312)
T ss_dssp             HHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHH--HHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCc--cHHHHHHHHHHHHH
Confidence            665533211 123444444421   121  237788889999999999999999887643321  44555555544443

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=91.83  E-value=2  Score=28.99  Aligned_cols=69  Identities=14%  Similarity=0.211  Sum_probs=52.9

Q ss_pred             HHccC-ChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHH
Q 048799          163 FAMHG-MGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDM  233 (331)
Q Consensus       163 ~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  233 (331)
                      +.+.. |.-+..+-++.+....+.|++......+.+|.+.+++.-|.++|+-++.+.+  +...+|..+++-
T Consensus        62 F~~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~--~~~~iY~y~lqE  131 (152)
T 2y69_E           62 FNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQE  131 (152)
T ss_dssp             HTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHHH
T ss_pred             cCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcC--CchhhHHHHHHH
Confidence            33444 4556777777777888899999999999999999999999999999987633  345567776654

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=91.04  E-value=4.3  Score=31.26  Aligned_cols=120  Identities=14%  Similarity=0.111  Sum_probs=65.8

Q ss_pred             HHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHh----hHHHHHHHHHhc
Q 048799          162 GFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIK----HYGCLIDMLGRA  237 (331)
Q Consensus       162 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~  237 (331)
                      ...+.|+.+++++....-++.. +-|...-..++..+|-.|+++.|.+-++...+.   .|+..    .|..+|.+-.. 
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l---~p~~~~~a~~yr~lI~aE~~-   80 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQA-   80 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHH-
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CchhhHHHHHHHHHHHHHHH-
Confidence            3456677777777776665543 345666666777777777777777777776654   34332    33333322111 


Q ss_pred             CCHHHHHHHHhhcccC---CccHHHHHHHHHHH--hcCCchhHHHHHHHHHHHhhcCCC
Q 048799          238 GRLEQAEKVASGIPSE---ITNVVVWRTLLGAC--SFHGNVEMGERVTRKILEMERGYG  291 (331)
Q Consensus       238 g~~~~A~~~~~~~~~~---~p~~~~~~~l~~~~--~~~g~~~~a~~~~~~~~~~~~~~~  291 (331)
                         .  .++|..-..-   .....-...++.+.  ...|+.++|.++-..+.+..|..+
T Consensus        81 ---R--~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~~~  134 (273)
T 1zbp_A           81 ---R--KDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKG  134 (273)
T ss_dssp             ---H--HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCC
T ss_pred             ---H--HHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcccC
Confidence               0  1122211111   11222334444443  345888888888888887666543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=90.58  E-value=4.8  Score=31.01  Aligned_cols=113  Identities=8%  Similarity=-0.054  Sum_probs=72.7

Q ss_pred             HHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcH----HHHHHHHHHHHccCC
Q 048799           93 AIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNL----VSWTSIISGFAMHGM  168 (331)
Q Consensus        93 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~  168 (331)
                      ...+.|+++++++....-++..+.  |......|+..+|-.|++++|.+-++...+..|+.    ..|..+|.+-     
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P~--da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~aE-----   78 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASPK--DASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAA-----   78 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHH-----
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHH-----
Confidence            456778888888888888887554  77888888999999999999998888877666543    3455554431     


Q ss_pred             hHHHHHHHHHHHhccCCC-----CHHHHHHHHHHHh--ccCChHHHHHHHHHHHHh
Q 048799          169 GKEAVENFERMQKVVLKP-----NRVTFLSVLNACS--HGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       169 ~~~a~~~~~~m~~~~~~p-----~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~  217 (331)
                           ..=.+....+-.|     ...-...++.+..  ..|+.++|.++-..+.+.
T Consensus        79 -----~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           79 -----QARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             -----HHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence                 1112222222222     2223344444433  458888888888887664

>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=90.51  E-value=2.8  Score=28.27  Aligned_cols=13  Identities=15%  Similarity=0.348  Sum_probs=4.7

Q ss_pred             hcCCHHHHHHHHh
Q 048799          236 RAGRLEQAEKVAS  248 (331)
Q Consensus       236 ~~g~~~~A~~~~~  248 (331)
                      +.|++++|.+..+
T Consensus        90 klgdY~~Ar~y~d  102 (134)
T 3o48_A           90 KLGEYSMAKRYVD  102 (134)
T ss_dssp             HHTCHHHHHHHHH
T ss_pred             HhhhHHHHHHHHH
Confidence            3333333333333

>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=89.19  E-value=2.9  Score=26.51  Aligned_cols=51  Identities=12%  Similarity=-0.007  Sum_probs=27.3

Q ss_pred             HHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcC
Q 048799           57 GYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRG  114 (331)
Q Consensus        57 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  114 (331)
                      .+...|+|++|..+.+..     .-||...|..+-.  .+.|--+++...+.++...|
T Consensus        49 SLmNrG~Yq~Al~l~~~~-----c~pdlepw~ALce--~rlGl~s~le~rL~~la~sg   99 (116)
T 2p58_C           49 SLMNRGDYASALQQGNKL-----AYPDLEPWLALCE--YRLGLGSALESRLNRLARSQ   99 (116)
T ss_dssp             HHHHTTCHHHHHHHHTTS-----CCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTTCC
T ss_pred             HHHcchhHHHHHHhcCCC-----CCchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC
Confidence            355666666666655554     3556555544433  24555555555555555444

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=89.16  E-value=2.7  Score=26.65  Aligned_cols=50  Identities=16%  Similarity=0.037  Sum_probs=24.7

Q ss_pred             HHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcC
Q 048799           58 YTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRG  114 (331)
Q Consensus        58 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  114 (331)
                      +...|+|++|..+.+..     .-||...|..+-.  .+.|--+++...+.++...|
T Consensus        49 LmNrG~Yq~Al~l~~~~-----c~pdlepw~ALce--~rlGl~s~le~rL~~la~sg   98 (115)
T 2uwj_G           49 LANQGRYQEALAFAHGN-----PWPALEPWFALCE--WHLGLGAALDRRLAGLGGSS   98 (115)
T ss_dssp             HHHTTCHHHHHGGGTTC-----CCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTCS
T ss_pred             HHcchhHHHHHHhcCCC-----CCchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC
Confidence            45555565555554443     3455555544332  24555555555554444444

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.26  E-value=10  Score=31.76  Aligned_cols=98  Identities=11%  Similarity=-0.078  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCc-chhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc---CCcHHHHHH--
Q 048799           85 ITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNA-FHIHVSNCLIDTYAKCGCIFSALKLFEDISVE---RKNLVSWTS--  158 (331)
Q Consensus        85 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~--  158 (331)
                      .+...+...+.+.|+++.|.+.+.++...-..+ .-...+-.+++.+...+++..+...+.++...   .++....+.  
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            366778899999999999999999988743221 14567778899999999999999999988644   233222211  


Q ss_pred             --HHHHHHccCChHHHHHHHHHHHhc
Q 048799          159 --IISGFAMHGMGKEAVENFERMQKV  182 (331)
Q Consensus       159 --l~~~~~~~~~~~~a~~~~~~m~~~  182 (331)
                        -+..+...+++..|.+.|-+....
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhcc
Confidence              122344678999999988876543

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=88.09  E-value=6  Score=28.71  Aligned_cols=108  Identities=14%  Similarity=0.013  Sum_probs=47.7

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNAC  198 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  198 (331)
                      +..+....+.++.+.|+.+....+. .+. ..++...-...+.++.+.++. ++...+..+..   .++...-...+.++
T Consensus        89 ~~~vr~~a~~aL~~~~~~~~~~~L~-~~l-~d~~~~vr~~a~~aL~~~~~~-~~~~~L~~~l~---d~~~~vr~~A~~aL  162 (201)
T 3ltj_A           89 DGWVRQSAAVALGQIGDERAVEPLI-KAL-KDEDWFVRIAAAFALGEIGDE-RAVEPLIKALK---DEDGWVRQSAADAL  162 (201)
T ss_dssp             SHHHHHHHHHHHHHHCCGGGHHHHH-HHT-TCSSHHHHHHHHHHHHHHTCG-GGHHHHHHHTT---CSSHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCcHHHHHHHH-HHH-cCCCHHHHHHHHHHHHHhCCH-HHHHHHHHHHc---CCCHHHHHHHHHHH
Confidence            4444445555555555543222222 222 233433333444444444443 23333333332   24555555555555


Q ss_pred             hccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhc
Q 048799          199 SHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRA  237 (331)
Q Consensus       199 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  237 (331)
                      ...|. +.+...+..+.+.    ++..+-...+.++.+.
T Consensus       163 ~~~~~-~~~~~~L~~~l~d----~~~~vr~~A~~aL~~l  196 (201)
T 3ltj_A          163 GEIGG-ERVRAAMEKLAET----GTGFARKVAVNYLETH  196 (201)
T ss_dssp             HHHCS-HHHHHHHHHHHHH----CCHHHHHHHHHHHHHC
T ss_pred             HHhCc-hhHHHHHHHHHhC----CCHHHHHHHHHHHHHH
Confidence            55554 3444555555443    3444444445554443

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=88.08  E-value=3.6  Score=26.21  Aligned_cols=62  Identities=8%  Similarity=0.034  Sum_probs=40.1

Q ss_pred             chhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC-CcHHHHHHHHH
Q 048799           99 DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVER-KNLVSWTSIIS  161 (331)
Q Consensus        99 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~  161 (331)
                      |.-+..+-++.+......| ++.+..+.+++|.+.+++.-|.++|+.++... .....|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP-~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVP-EPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCC-CcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            3345555666666666677 77777777777777777877877777776542 33334555543

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=87.33  E-value=6.9  Score=28.62  Aligned_cols=25  Identities=0%  Similarity=-0.012  Sum_probs=11.8

Q ss_pred             HHhhCCCCCchhHHHHHHHHHhcCC
Q 048799           39 LFEEMPCRNVVSWTGIIDGYTRMNR   63 (331)
Q Consensus        39 ~~~~~~~~~~~~~~~l~~~~~~~~~   63 (331)
                      +.+.+..++...-...+..+.+.|.
T Consensus        24 L~~~L~~~~~~vR~~A~~~L~~~~~   48 (211)
T 3ltm_A           24 YIKNLQDDSYYVRRAAAYALGKIGD   48 (211)
T ss_dssp             HHHHTTCSSHHHHHHHHHHHHHHCC
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            3333444454444444555555554

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=86.65  E-value=11  Score=30.21  Aligned_cols=141  Identities=8%  Similarity=-0.059  Sum_probs=70.4

Q ss_pred             HHHhcCChhHHHHHH----HHHHhccCCCCchHHHHHHHHHHhhcCchh-HHHHHHh----hhhhcC--CCcchhHHHHH
Q 048799           57 GYTRMNRSNGALALF----RRMVACEYTEPSEITILAVFPAIWQNGDVR-NCQLIHG----YGEKRG--FNAFHIHVSNC  125 (331)
Q Consensus        57 ~~~~~~~~~~a~~~~----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~----~~~~~~--~~~~~~~~~~~  125 (331)
                      .+.+.|+...|-++-    +.. ...++++|......++..+.....-+ .=..+.+    +-.+.|  ..- ++.....
T Consensus        64 ~ll~~~Q~~sg~DL~~llvevy-~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~G-dp~LH~~  141 (336)
T 3lpz_A           64 TLLRSGQGGSGGDLAVLLVDTF-RQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAG-DPELHHV  141 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH-HHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTC-CHHHHHH
T ss_pred             HHHHCCCcchHHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCC-CHHHHHH
Confidence            355666665554443    333 45567777777777777665544321 1112222    222222  122 5666667


Q ss_pred             HHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChH
Q 048799          126 LIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVE  205 (331)
Q Consensus       126 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  205 (331)
                      +...|.+.+++.+|+..|-  ....+++..|..++.-+...+...              .++...-..++ .|...++..
T Consensus       142 ig~~~~~e~~~~~Ae~H~i--lg~~~s~~~~a~mL~ew~~~~~~~--------------e~dlfiaRaVL-~yL~l~n~~  204 (336)
T 3lpz_A          142 VGTLYVEEGEFEAAEKHLV--LGTKESPEVLARMEYEWYKQDESH--------------TAPLYCARAVL-PYLLVANVR  204 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHT--TSCTTHHHHHHHHHHHHHHTSCGG--------------GHHHHHHHHHH-HHHHTTCHH
T ss_pred             HHHHHHccCCHHHHHHHHH--hcCCchHHHHHHHHHHHHHhcCCc--------------cHHHHHHHHHH-HHHHhCCHH
Confidence            7777777777777777662  222333345544443332222211              11222222222 344567777


Q ss_pred             HHHHHHHHHHH
Q 048799          206 EGLKFFDKMVE  216 (331)
Q Consensus       206 ~a~~~~~~~~~  216 (331)
                      .|..+++...+
T Consensus       205 ~A~~~~~~f~~  215 (336)
T 3lpz_A          205 AANTAYRIFTS  215 (336)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77776666554

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=84.93  E-value=13  Score=29.49  Aligned_cols=170  Identities=9%  Similarity=0.025  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHH----HHHHHhccCCCCchHHHHHHHHHH
Q 048799           19 TWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALAL----FRRMVACEYTEPSEITILAVFPAI   94 (331)
Q Consensus        19 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~~l~~~~   94 (331)
                      .|.++..-|.+.+++++|++++..           -...+.+.|+...|-++    ++.. ...+.+++......++..+
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~-~~~~~~~~~~~~~rl~~l~  102 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVY-DLAEVKVDDISVARLVRLI  102 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHH-HHTTCCCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHH
Confidence            344444445555555555555432           12234556776665553    3333 4556777777777777666


Q ss_pred             hhcCch-----hHHHHHHhhhhhcCC-CcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHcc--
Q 048799           95 WQNGDV-----RNCQLIHGYGEKRGF-NAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMH--  166 (331)
Q Consensus        95 ~~~~~~-----~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~--  166 (331)
                      .....-     .-..+...+..+.|. ..-++..+..+...|.+.|++.+|+..|-.-  ...+...+..++.-+...  
T Consensus       103 ~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~--~~~s~~~~a~~l~~w~~~~~  180 (312)
T 2wpv_A          103 AELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLG--THDSMIKYVDLLWDWLCQVD  180 (312)
T ss_dssp             TTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTS--CHHHHHHHHHHHHHHHHHTT
T ss_pred             HHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhC--CCccHHHHHHHHHHHHHhcC
Confidence            543211     112222333333322 1126677888888888888888888877521  112344444444333322  


Q ss_pred             -CChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          167 -GMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       167 -~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                       |...++              +...-..++ .|.-.|+...|..+++...+.
T Consensus       181 ~~~~~e~--------------dlf~~RaVL-~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          181 DIEDSTV--------------AEFFSRLVF-NYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             CCCHHHH--------------HHHHHHHHH-HHHHTTBHHHHHHHHHHHHHH
T ss_pred             CCCcchH--------------HHHHHHHHH-HHHHhcCHHHHHHHHHHHHHH
Confidence             222221              111112222 345678888888888877654

>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=84.78  E-value=7.2  Score=26.42  Aligned_cols=60  Identities=7%  Similarity=0.006  Sum_probs=39.1

Q ss_pred             hHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-CCcHHHHHHHHH
Q 048799          101 RNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-RKNLVSWTSIIS  161 (331)
Q Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~~  161 (331)
                      -+..+-++.+......| ++.+..+.++++.+.+++.-|.++|+.++.+ .+....|..++.
T Consensus        70 wElrrglN~l~~~DlVP-eP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~lq  130 (152)
T 2y69_E           70 WELRKGMNTLVGYDLVP-EPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHTTSSBCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCC-CcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHHH
Confidence            34455556666666677 7777777777777778888888877777655 233444555543

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=83.49  E-value=11  Score=27.51  Aligned_cols=160  Identities=12%  Similarity=0.052  Sum_probs=87.2

Q ss_pred             hhhcCCchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHH
Q 048799            9 FDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITIL   88 (331)
Q Consensus         9 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   88 (331)
                      .+.+..++...-...+..+++.|..+....+.+.+..++...-...+.++...++.+ +...+.++..    .++...-.
T Consensus        25 ~~~L~~~~~~vR~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~----~~~~~vr~   99 (211)
T 3ltm_A           25 IKNLQDDSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDER-AVEPLIKALK----DEDGWVRQ   99 (211)
T ss_dssp             HHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGG-GHHHHHHHTT----CSSHHHHH
T ss_pred             HHHHcCCCHHHHHHHHHHHHHhCCccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHH-HHHHHHHHHc----CCCHHHHH
Confidence            333446777777777888888887555556666666777766666777777777643 3444444422    35556666


Q ss_pred             HHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCC
Q 048799           89 AVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGM  168 (331)
Q Consensus        89 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  168 (331)
                      ..+.++...++.+ +...+..+.+   .+ +..+....+.++...|..+ +...+..+. ..++...-...+.++.+.+.
T Consensus       100 ~a~~aL~~~~~~~-~~~~L~~~l~---d~-~~~vr~~a~~aL~~~~~~~-~~~~L~~~l-~d~~~~vr~~a~~aL~~~~~  172 (211)
T 3ltm_A          100 SAAVALGQIGDER-AVEPLIKALK---DE-DWFVRIAAAFALGEIGDER-AVEPLIKAL-KDEDGWVRQSAADALGEIGG  172 (211)
T ss_dssp             HHHHHHHHHCCGG-GHHHHHHHTT---CS-SHHHHHHHHHHHHHHCCGG-GHHHHHHHT-TCSSHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHhCcHH-HHHHHHHHHh---CC-CHHHHHHHHHHHHHcCCHH-HHHHHHHHH-cCCCHHHHHHHHHHHHHhCc
Confidence            6666666666543 3333333332   22 4455555666666666543 333333333 23444444444455555444


Q ss_pred             hHHHHHHHHHHHh
Q 048799          169 GKEAVENFERMQK  181 (331)
Q Consensus       169 ~~~a~~~~~~m~~  181 (331)
                       .++...+..+.+
T Consensus       173 -~~~~~~L~~~l~  184 (211)
T 3ltm_A          173 -ERVRAAMEKLAE  184 (211)
T ss_dssp             -HHHHHHHHHHHH
T ss_pred             -hhHHHHHHHHHh
Confidence             344444444443

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=82.71  E-value=19  Score=29.69  Aligned_cols=168  Identities=8%  Similarity=-0.038  Sum_probs=93.5

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCch---HHHHHHHHHHhhc-CchhHHHHH----HhhhhhcCCCcchhH
Q 048799           50 SWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSE---ITILAVFPAIWQN-GDVRNCQLI----HGYGEKRGFNAFHIH  121 (331)
Q Consensus        50 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~-~~~~~a~~~----~~~~~~~~~~~~~~~  121 (331)
                      +...|...|.+.|+.++..+++.....--+.-|-.   .....++..+... +..+.-.++    +++.......-....
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~~  100 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQS  100 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45567777888888888877777762222222222   2455666666543 233333333    333333321110222


Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHhhhc--C---C--cHHHHHHHHHHHHccCChHHHHHHHHHHHhc--cCCCCHHHHH
Q 048799          122 VSNCLIDTYAKCGCIFSALKLFEDISVE--R---K--NLVSWTSIISGFAMHGMGKEAVENFERMQKV--VLKPNRVTFL  192 (331)
Q Consensus       122 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~--~~~p~~~~~~  192 (331)
                      +-..|+..|...|++.+|.+++.++...  .   +  -...|..-+..|...+++.++...+......  .+.+++....
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            3346778888888888887777777654  1   1  1234556666777788888888877766542  2323333222


Q ss_pred             H----HHHHHh-ccCChHHHHHHHHHHHHh
Q 048799          193 S----VLNACS-HGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       193 ~----l~~~~~-~~~~~~~a~~~~~~~~~~  217 (331)
                      .    -...+. ..+++..|...|-+..+.
T Consensus       181 ~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~  210 (394)
T 3txn_A          181 ALDLQSGILHAADERDFKTAFSYFYEAFEG  210 (394)
T ss_dssp             HHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHhccCHHHHHHHHHHHHhc
Confidence            1    112244 677888887777666543

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=82.36  E-value=12  Score=27.07  Aligned_cols=17  Identities=29%  Similarity=0.194  Sum_probs=7.5

Q ss_pred             cHhhHHHHHHHHHhcCC
Q 048799          223 DIKHYGCLIDMLGRAGR  239 (331)
Q Consensus       223 ~~~~~~~l~~~~~~~g~  239 (331)
                      +..+-...+.++.+.|.
T Consensus       151 ~~~vr~~A~~aL~~~~~  167 (201)
T 3ltj_A          151 DGWVRQSAADALGEIGG  167 (201)
T ss_dssp             SHHHHHHHHHHHHHHCS
T ss_pred             CHHHHHHHHHHHHHhCc
Confidence            34444444444444444

>3bqo_A Telomeric repeat-binding factor 1; TRF1 TRFH domain dimerization domain TIN2, ADP-ribosylation, alternative splicing, cell cycle, cell division; 2.00A {Homo sapiens} SCOP: a.146.1.1 PDB: 3l82_A 1h6o_A

Probab=81.58  E-value=13  Score=27.00  Aligned_cols=69  Identities=19%  Similarity=0.162  Sum_probs=41.4

Q ss_pred             HHHHHHHHhhcccCCccH-HHHHHH-----HHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCc
Q 048799          240 LEQAEKVASGIPSEITNV-VVWRTL-----LGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYG  308 (331)
Q Consensus       240 ~~~A~~~~~~~~~~~p~~-~~~~~l-----~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  308 (331)
                      ++.|+.+|+.+....+.. .....|     +..|.+.|.+++|.+++++.....+.+...-..|.....+.....
T Consensus        94 LESAl~v~~~I~~e~~~lheei~~Llk~qAV~VCiekg~Fk~A~eiLkr~f~~~~~~~~lr~kL~~II~~Kd~~H  168 (211)
T 3bqo_A           94 LESALMIWGSIEKEHDKLHEEIQNLIKIQAIAVCMENGNFKEAEEVFERIFGDPNSHMPFKSKLLMIISQKDTFH  168 (211)
T ss_dssp             HHHHHHHHTTSCSCCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHC-----CCTTHHHHHHHHHTTCTTC
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHhcCCCCchHHHHHHHHHHHccCCCc
Confidence            577888888887763321 222222     456889999999999999987766666555555555555444333

>4gq2_M Nucleoporin NUP120; beta propeller alpha helical, component of nuclear pore COMP transport protein; 2.40A {Schizosaccharomyces pombe} PDB: 4fhm_B

Probab=81.35  E-value=23  Score=33.24  Aligned_cols=129  Identities=9%  Similarity=0.000  Sum_probs=76.4

Q ss_pred             HHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhH
Q 048799           23 MITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRN  102 (331)
Q Consensus        23 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  102 (331)
                      ++..|...|.++-|.++...++. ++..--.+..+|...|++++|...|+++ . .|+..+.....          ....
T Consensus       816 l~~~L~~~~~~~~a~eL~~~~~~-t~~~~yv~gr~~L~~ge~~~A~~~F~kA-A-~gl~~~~~~~~----------~~~~  882 (950)
T 4gq2_M          816 LVEKLFLFKQYNACMQLIGWLNS-DPIAVYLKALIYLKSKEAVKAVRCFKTT-S-LVLYSHTSQFA----------VLRE  882 (950)
T ss_dssp             HHHHHHHTTCHHHHHHHGGGCCS-SHHHHHHHHHHHHHTTCHHHHHHHHHTC-C-CTTCSSCCSCG----------GGHH
T ss_pred             HHHHHHHhcHHHHHHHHHhhcCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHH-h-hhcccCccccc----------chhh
Confidence            56677778888888887777765 3333345777888888999998888876 3 33322211000          0001


Q ss_pred             HHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-C---C--cHHHHHHHHHHHHccC
Q 048799          103 CQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-R---K--NLVSWTSIISGFAMHG  167 (331)
Q Consensus       103 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~---~--~~~~~~~l~~~~~~~~  167 (331)
                      ...++....   ........|..++..+-+.+-++-+..+-+.+.+. .   +  ....|+.+..+.+..|
T Consensus       883 ~~~ll~~~e---~~~~~~~YY~hV~~LFE~~~a~~~vi~fA~lAI~~~~~dd~~l~~~l~~r~f~~a~a~g  950 (950)
T 4gq2_M          883 FQEIAEKYH---HQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAG  950 (950)
T ss_dssp             HHHHHHHTT---TCSHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCSCCHHHHHHHHHHHHHHHHHHC
T ss_pred             hhhccCccc---ccchhHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHhhCC
Confidence            111111111   11113457888999999999999988888777654 1   2  1235777777665443

---

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	331
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.95
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.83
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.83
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.61
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.6
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.59
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.57
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.53
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.52
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.5
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.48
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.47
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.39
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.15
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.14
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.1
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.1
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.06
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.05
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.03
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.98
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.97
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.95
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.91
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.9
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.87
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.84
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.8
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.75
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.71
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.71
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.69
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.69
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.69
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.66
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.63
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.61
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.61
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.56
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.49
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.47
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.4
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.39
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.37
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.31
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.31
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.28
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.26
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.22
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.19
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	98.15
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	98.14
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.82
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.84
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.68
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.62
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.38
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.35
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.12
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.99
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	93.31
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.68
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.24

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=9.5e-25  Score=180.64  Aligned_cols=313  Identities=13%  Similarity=0.053  Sum_probs=232.8

Q ss_pred             CccchhHHhhhcC--Cc-hHHHHHHHHHHHHHcCCHHHHHHHHhhCC--CC-CchhHHHHHHHHHhcCChhHHHHHHHHH
Q 048799            1 FLKDGSKLFDELP--ER-NLVTWNVMITGLVKWGELEYARSLFEEMP--CR-NVVSWTGIIDGYTRMNRSNGALALFRRM   74 (331)
Q Consensus         1 ~~~~A~~~~~~~~--~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~   74 (331)
                      ++++|++.|+++.  .| +..++..+..+|.+.|++++|+..|++..  .| +..+|..+..++...|++++|+..+...
T Consensus        14 ~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~   93 (388)
T d1w3ba_          14 DFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHA   93 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccccccccccc
Confidence            4678888888875  34 67888999999999999999999999876  33 4578899999999999999999999888


Q ss_pred             HhccCCCCchHHHHH----------------------------------HHHHHhhcCchhHHHHHHhhhhhcCCCcchh
Q 048799           75 VACEYTEPSEITILA----------------------------------VFPAIWQNGDVRNCQLIHGYGEKRGFNAFHI  120 (331)
Q Consensus        75 ~~~~~~~~~~~~~~~----------------------------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  120 (331)
                      .....  .+......                                  ........+....+...+.+.....+.  +.
T Consensus        94 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~  169 (388)
T d1w3ba_          94 LRLKP--DFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN--FA  169 (388)
T ss_dssp             HHHCT--TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTT--CH
T ss_pred             ccccc--ccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcc--hh
Confidence            44322  11111111                                  112222333344444455555444332  56


Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHh
Q 048799          121 HVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACS  199 (331)
Q Consensus       121 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~  199 (331)
                      ..+..+...+...|++++|...++++....| +..+|..+...+...|++++|+..+++....+ +.+...+..+...+.
T Consensus       170 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  248 (388)
T d1w3ba_         170 VAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYY  248 (388)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHH
Confidence            6777788888888888888888888776655 46677888888888888888888888877653 345566777778888


Q ss_pred             ccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHH
Q 048799          200 HGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGER  278 (331)
Q Consensus       200 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~  278 (331)
                      +.|++++|...|+++.+.  .+.+...+..+...+...|++++|.+.++.+... +.+...+..+...+...|++++|++
T Consensus       249 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  326 (388)
T d1w3ba_         249 EQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVR  326 (388)
T ss_dssp             HTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHHHH
Confidence            888888888888888763  2335677788888888888888888888877666 4466777788888888888888888


Q ss_pred             HHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          279 VTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       279 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      .++++++..|+++.++..++.++.+.|++++|...+++..+.
T Consensus       327 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         327 LYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888888888888788888888888888888888888887664

>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=99.94  E-value=1.4e-23  Score=173.51  Aligned_cols=291  Identities=12%  Similarity=0.000  Sum_probs=238.5

Q ss_pred             HHHHHHHcCCHHHHHHHHhhCC--CC-CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCc
Q 048799           23 MITGLVKWGELEYARSLFEEMP--CR-NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGD   99 (331)
Q Consensus        23 l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   99 (331)
                      +...+.+.|++++|++.|+++.  .| +...+..+..++.+.|++++|...|++++...  |.+..++..+..++...|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHhhhhcc
Confidence            4567789999999999999986  34 56788999999999999999999999985532  3456789999999999999


Q ss_pred             hhHHHHHHhhhhhcCCCcchhHHHHHHHH----------------------------------HHHhcCCHhHHHHHHHH
Q 048799          100 VRNCQLIHGYGEKRGFNAFHIHVSNCLID----------------------------------TYAKCGCIFSALKLFED  145 (331)
Q Consensus       100 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~----------------------------------~~~~~g~~~~A~~~~~~  145 (331)
                      +++|...+....+.....  .........                                  .....+....+...+..
T Consensus        83 ~~~A~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDF--IDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             cccccccccccccccccc--ccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHH
Confidence            999999999988775542  222222222                                  22233444455555555


Q ss_pred             hhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcH
Q 048799          146 ISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDI  224 (331)
Q Consensus       146 ~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  224 (331)
                      .....| +...+..+...+...|++++|...+++..+.. +-+...+..+...+...|++++|...+++.... . +.+.
T Consensus       161 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~  237 (388)
T d1w3ba_         161 AIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSL-S-PNHA  237 (388)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH-C-TTCH
T ss_pred             hhccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHH-h-hhHH
Confidence            544445 46778888899999999999999999988753 235678888999999999999999999999875 2 3467


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh
Q 048799          225 KHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG  303 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  303 (331)
                      ..+..+...+.+.|++++|...|+++.+..| +..++..+..++...|++++|.+.++.+....|.+...+..++.++..
T Consensus       238 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  317 (388)
T d1w3ba_         238 VVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHH
Confidence            7888899999999999999999999887744 578899999999999999999999999999999998999999999999


Q ss_pred             hccCcchHHHHHHHhhc
Q 048799          304 VWRYGDAERLRRVVDER  320 (331)
Q Consensus       304 ~g~~~~a~~~~~~~~~~  320 (331)
                      .|++++|...+++..+.
T Consensus       318 ~~~~~~A~~~~~~al~~  334 (388)
T d1w3ba_         318 QGNIEEAVRLYRKALEV  334 (388)
T ss_dssp             TTCHHHHHHHHHHHTTS
T ss_pred             CCCHHHHHHHHHHHHHh
Confidence            99999999999998764

>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=99.83  E-value=6.2e-19  Score=142.15  Aligned_cols=243  Identities=11%  Similarity=-0.079  Sum_probs=182.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHH
Q 048799           51 WTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTY  130 (331)
Q Consensus        51 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  130 (331)
                      .-.....+.+.|++++|+..|++++...  |.+..+|..+..++...|++++|...+.++++..+.  +...+..++.+|
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~--~~~~~~~la~~~   97 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD--NQTALMALAVSF   97 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc--cccccccccccc
Confidence            3356777889999999999999985532  345778889999999999999999999999988554  778888899999


Q ss_pred             HhcCCHhHHHHHHHHhhhcCCcHHH----------------HHHHHHHHHccCChHHHHHHHHHHHhccC-CCCHHHHHH
Q 048799          131 AKCGCIFSALKLFEDISVERKNLVS----------------WTSIISGFAMHGMGKEAVENFERMQKVVL-KPNRVTFLS  193 (331)
Q Consensus       131 ~~~g~~~~A~~~~~~~~~~~~~~~~----------------~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~  193 (331)
                      ...|++++|.+.++++....|+...                ....+..+...+.+.++.+.|.+...... .++...+..
T Consensus        98 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~  177 (323)
T d1fcha_          98 TNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCG  177 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHH
T ss_pred             cccccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchh
Confidence            9999999999999988766443211                11112233445667788888887766432 235667777


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCc
Q 048799          194 VLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGN  272 (331)
Q Consensus       194 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~  272 (331)
                      +...+...|++++|...+++....  .+-+...+..+...|...|++++|.+.|+++.+..| +...|..++.+|.+.|+
T Consensus       178 l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~  255 (323)
T d1fcha_         178 LGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGA  255 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCC
Confidence            888888889999999999888764  233577788888888889999999998888876633 56778888888888899


Q ss_pred             hhHHHHHHHHHHHhhcCCCccHHHHHH
Q 048799          273 VEMGERVTRKILEMERGYGGDYVLMYN  299 (331)
Q Consensus       273 ~~~a~~~~~~~~~~~~~~~~~~~~l~~  299 (331)
                      +++|+..|++++++.|++...+.....
T Consensus       256 ~~~A~~~~~~al~l~p~~~~~~~~~~~  282 (323)
T d1fcha_         256 HREAVEHFLEALNMQRKSRGPRGEGGA  282 (323)
T ss_dssp             HHHHHHHHHHHHHHHHTC------CCC
T ss_pred             HHHHHHHHHHHHHhCCcChhhhhhhHH
Confidence            999999999998888887665554433

>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=99.83  E-value=5.2e-18  Score=136.65  Aligned_cols=227  Identities=14%  Similarity=0.041  Sum_probs=158.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhCC--CC-CchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcC
Q 048799           22 VMITGLVKWGELEYARSLFEEMP--CR-NVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNG   98 (331)
Q Consensus        22 ~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   98 (331)
                      .....+.+.|++++|+..|+++.  .| ++.+|..+..++...|++++|...|.+.+...  +-+...+..+..++...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK--PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc--cccccccccccccccccc
Confidence            35666778888888888888765  23 45678888888888888888888888874432  234667777778888888


Q ss_pred             chhHHHHHHhhhhhcCCCcchh-------------HHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC---cHHHHHHHHHH
Q 048799           99 DVRNCQLIHGYGEKRGFNAFHI-------------HVSNCLIDTYAKCGCIFSALKLFEDISVERK---NLVSWTSIISG  162 (331)
Q Consensus        99 ~~~~a~~~~~~~~~~~~~~~~~-------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~l~~~  162 (331)
                      ++++|.+.++++....+.....             ......+..+...+.+.+|...|.++....|   +...+..+...
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~  181 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVL  181 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHH
Confidence            8888888888877654331010             0011122234455667777777777765543   45667777778


Q ss_pred             HHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHH
Q 048799          163 FAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQ  242 (331)
Q Consensus       163 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  242 (331)
                      +...|++++|+..|++..... +-+...+..+...+...|++++|.+.|+++.+. . +-+...+..++.+|.+.|++++
T Consensus       182 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~-p~~~~a~~~lg~~~~~~g~~~~  258 (323)
T d1fcha_         182 FNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL-Q-PGYIRSRYNLGISCINLGAHRE  258 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHH-h-hccHHHHHHHHHHHHHCCCHHH
Confidence            888888888888888877643 234667777888888888888888888887764 1 2256677788888888888888


Q ss_pred             HHHHHhhcccC
Q 048799          243 AEKVASGIPSE  253 (331)
Q Consensus       243 A~~~~~~~~~~  253 (331)
                      |.+.|+++.+.
T Consensus       259 A~~~~~~al~l  269 (323)
T d1fcha_         259 AVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            88888877665

>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=99.61  E-value=2.6e-14  Score=110.90  Aligned_cols=226  Identities=9%  Similarity=-0.104  Sum_probs=153.7

Q ss_pred             ChhHHHHHHHHHHhccCCCC--chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHH
Q 048799           63 RSNGALALFRRMVACEYTEP--SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSAL  140 (331)
Q Consensus        63 ~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  140 (331)
                      +.+.++.-+++.+......+  ...++..+..+|.+.|++++|+..|+++++..+.  ++.+|..++.+|.+.|++++|+
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~--~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD--MPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC--CHHHHhhhchHHHHHHHHHHhh
Confidence            44566666667644333222  2346777888899999999999999999988544  7888999999999999999999


Q ss_pred             HHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcC
Q 048799          141 KLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECE  219 (331)
Q Consensus       141 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  219 (331)
                      ..|+++....| +..++..+..++...|++++|++.|++..+.. +.+......+..++.+.+..+.+..+.......  
T Consensus        92 ~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  168 (259)
T d1xnfa_          92 EAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS--  168 (259)
T ss_dssp             HHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS--
T ss_pred             hhhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc--
Confidence            99999988766 56788889999999999999999999988754 224444444444555556555555555555432  


Q ss_pred             CCCcHhhHHHHHHHHHhc----CCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccH
Q 048799          220 VLPDIKHYGCLIDMLGRA----GRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDY  294 (331)
Q Consensus       220 ~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  294 (331)
                       .++...+. ++..+...    +..+.+...+.......| ...+|..+...+...|++++|.+.|+++++.+|++...|
T Consensus       169 -~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  246 (259)
T d1xnfa_         169 -DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  246 (259)
T ss_dssp             -CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             -chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence             22222222 22222221    223333333332222223 245777889999999999999999999999999875444


Q ss_pred             H
Q 048799          295 V  295 (331)
Q Consensus       295 ~  295 (331)
                      .
T Consensus       247 ~  247 (259)
T d1xnfa_         247 R  247 (259)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.60  E-value=1.2e-12  Score=105.98  Aligned_cols=271  Identities=10%  Similarity=-0.046  Sum_probs=184.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhCC--CCC------chhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc----hHH
Q 048799           19 TWNVMITGLVKWGELEYARSLFEEMP--CRN------VVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPS----EIT   86 (331)
Q Consensus        19 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~   86 (331)
                      ........+...|++++|+.++++..  .|+      ..++..+..++...|++++|+..|++........++    ...
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            34445667788999999999988754  222      235677788888999999999999887443222222    234


Q ss_pred             HHHHHHHHhhcCchhHHHHHHhhhhhcC------CCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcC------CcHH
Q 048799           87 ILAVFPAIWQNGDVRNCQLIHGYGEKRG------FNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVER------KNLV  154 (331)
Q Consensus        87 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~  154 (331)
                      +..+...+...|++..+...+.......      ..+.....+..+...+...|+++.+...+.......      ....
T Consensus        94 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  173 (366)
T d1hz4a_          94 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  173 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHH
Confidence            5566777888899999998888776421      111123455667788888899999998888776541      1234


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhcc--CCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCC--CcHhh
Q 048799          155 SWTSIISGFAMHGMGKEAVENFERMQKVV--LKPN----RVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVL--PDIKH  226 (331)
Q Consensus       155 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~  226 (331)
                      ++......+...+++..+...+.+.....  ....    ...+..+...+...|+++.|...+....+.....  .....
T Consensus       174 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  253 (366)
T d1hz4a_         174 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  253 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHH
Confidence            55566677778888888888887765432  1111    2334556666778888999988888765431111  12344


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccC------Cc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSE------IT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~------~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      +..+...+...|++++|...++.+...      .| ....+..+..+|...|++++|.+.+++++++.+.
T Consensus       254 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~  323 (366)
T d1hz4a_         254 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANR  323 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhh
Confidence            556778888889999998888877532      22 2456777788888899999999999998886543

>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=99.59  E-value=2.3e-12  Score=104.14  Aligned_cols=269  Identities=10%  Similarity=-0.051  Sum_probs=189.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCc---hHHHHHHHHHHhhcCchhHHHHHHhhhhhcC----CCcchhHHH
Q 048799           51 WTGIIDGYTRMNRSNGALALFRRMVACEYTEPS---EITILAVFPAIWQNGDVRNCQLIHGYGEKRG----FNAFHIHVS  123 (331)
Q Consensus        51 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~  123 (331)
                      .......+...|++++|+.++++.+...+..++   ..++..+..++...|++++|...++++.+..    ..+.....+
T Consensus        15 ~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          15 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            334456678889999999999987553322121   2366778888889999999999998876532    222134566


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHhhhc--------CC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhcc----CCCCHHH
Q 048799          124 NCLIDTYAKCGCIFSALKLFEDISVE--------RK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVV----LKPNRVT  190 (331)
Q Consensus       124 ~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~----~~p~~~~  190 (331)
                      ..+...+...|++..+...+.+....        .+ ....+..+...+...|+++.+...+.......    .......
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            67788888999999998888776542        11 12355666778888899999999888876532    2223455


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhcCCC---C--cHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-----CccHHHH
Q 048799          191 FLSVLNACSHGGLVEEGLKFFDKMVEECEVL---P--DIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-----ITNVVVW  260 (331)
Q Consensus       191 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~  260 (331)
                      +......+...++...+...+..........   +  ....+..+...+...|++++|...+......     ......+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            6666777778888888888887765532111   1  1234566677788889999999998887665     1224556


Q ss_pred             HHHHHHHhcCCchhHHHHHHHHHHHh------hcCCCccHHHHHHHHhhhccCcchHHHHHHHhh
Q 048799          261 RTLLGACSFHGNVEMGERVTRKILEM------ERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE  319 (331)
Q Consensus       261 ~~l~~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  319 (331)
                      ..+..++...|++++|...++++...      .|.....+..++.+|...|++++|.+.+++..+
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            67788888999999999999988753      244445677888899999999999988887654

>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=99.57  E-value=1.6e-12  Score=103.40  Aligned_cols=224  Identities=9%  Similarity=0.063  Sum_probs=127.3

Q ss_pred             HHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcC-CHhHHHHHHHHhhhcCC-cHHHHHHHHHHH
Q 048799           86 TILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCG-CIFSALKLFEDISVERK-NLVSWTSIISGF  163 (331)
Q Consensus        86 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  163 (331)
                      .++.+...+.+.+..++|+++++++++..+.  +..+|+....++...| ++++|+..++++....| +..+|+.+...+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~--~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELNAA--NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHCCC--ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHH
Confidence            4444445555566666666666666666433  5566666666666654 36666666666655544 455666666666


Q ss_pred             HccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC----
Q 048799          164 AMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR----  239 (331)
Q Consensus       164 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----  239 (331)
                      .+.|++++|++.++++.+.. +-+...|..+...+...|++++|.+.++++++. . +.+...|+.+...+.+.+.    
T Consensus       123 ~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~-~-p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE-D-VRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH-C-CccHHHHHHHHHHHHHccccchh
Confidence            66666666666666666532 224556666666666666666666666666654 1 2245555555555544443    


Q ss_pred             --HHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCcc--HHHHHHHHhhh--ccCcchHH
Q 048799          240 --LEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGD--YVLMYNILAGV--WRYGDAER  312 (331)
Q Consensus       240 --~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~l~~~~~~~--g~~~~a~~  312 (331)
                        +++|.+.+..+....| +...|..+...+.. ...+++.+.++.+.++.|+....  +..++..|...  +..+.+..
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~  278 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  278 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHH
Confidence              4566666666655533 45566655555443 33566777777777766654333  33445554332  34444444


Q ss_pred             HHH
Q 048799          313 LRR  315 (331)
Q Consensus       313 ~~~  315 (331)
                      .++
T Consensus       279 ~~~  281 (315)
T d2h6fa1         279 ILN  281 (315)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>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=99.53  E-value=1.7e-14  Score=116.42  Aligned_cols=272  Identities=6%  Similarity=-0.101  Sum_probs=198.7

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhCC--CCCc-hhHHHHHHH----------HHhcCChhHHHHHHHHHHhccCCCCchHH
Q 048799           20 WNVMITGLVKWGELEYARSLFEEMP--CRNV-VSWTGIIDG----------YTRMNRSNGALALFRRMVACEYTEPSEIT   86 (331)
Q Consensus        20 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~-~~~~~l~~~----------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   86 (331)
                      ...++....+.+..++|++++++..  .|+. ..|+..-..          +...|++++|+..++......  +.+...
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~--pk~~~~  109 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN--PKSYGT  109 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHH
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC--CCcHHH
Confidence            3334443334444589999999876  4554 345433322          333455789999999985432  345666


Q ss_pred             HHHHHHHHhhcC--chhHHHHHHhhhhhcCCCcchhHHH-HHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHH
Q 048799           87 ILAVFPAIWQNG--DVRNCQLIHGYGEKRGFNAFHIHVS-NCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISG  162 (331)
Q Consensus        87 ~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~  162 (331)
                      |..+..++...+  ++++|...++++++..+.  +...+ ......+...|.+++|+..++.+....| +..+|+.+..+
T Consensus       110 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~--~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~  187 (334)
T d1dcea1         110 WHHRCWLLSRLPEPNWARELELCARFLEADER--NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCL  187 (334)
T ss_dssp             HHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHH
T ss_pred             HHHhhHHHHHhccccHHHHHHHHHHHHhhCch--hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            776666665554  588999999999988554  44444 4556778889999999999999988876 67889999999


Q ss_pred             HHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHH
Q 048799          163 FAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQ  242 (331)
Q Consensus       163 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  242 (331)
                      +.+.|++++|...+++....  .|+..   .....+...+..+++...+......  .+++...+..++..+...|+..+
T Consensus       188 ~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~~--~~~~~~~~~~l~~~~~~~~~~~~  260 (334)
T d1dcea1         188 LPQLHPQPDSGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLLG--RAEPLFRCELSVEKSTVLQSELE  260 (334)
T ss_dssp             HHHHSCCCCSSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHHS--CCCCSSSCCCCHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHHh--CcchhhHHHHHHHHHHHHhhHHH
Confidence            99999998887777655442  13221   2233345567777888888887763  34566667777888888999999


Q ss_pred             HHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHh
Q 048799          243 AEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILA  302 (331)
Q Consensus       243 A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  302 (331)
                      |...+.+.....| +..++..++.++...|++++|.+.++++.+++|+....|..+...+.
T Consensus       261 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         261 SCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHHHHHh
Confidence            9999999988844 46788889999999999999999999999999988777777766554

>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=99.52  E-value=8.7e-13  Score=104.96  Aligned_cols=202  Identities=10%  Similarity=0.003  Sum_probs=169.2

Q ss_pred             CcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccC-ChHHHHHHHHHHHhccCCCCHHHHHH
Q 048799          116 NAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHG-MGKEAVENFERMQKVVLKPNRVTFLS  193 (331)
Q Consensus       116 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~  193 (331)
                      .|....+++.+...+.+.+.+++|+..++++....| +..+|+....++...| ++++|+..+++..+.. +-+..+|..
T Consensus        39 ~p~~~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~  117 (315)
T d2h6fa1          39 SDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHH  117 (315)
T ss_dssp             CHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHH
Confidence            343467888888899999999999999999998877 5778999998888876 5999999999998754 335788999


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCC-ccHHHHHHHHHHHhcCCc
Q 048799          194 VLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEI-TNVVVWRTLLGACSFHGN  272 (331)
Q Consensus       194 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~  272 (331)
                      +...+.+.|++++|+..++++.+.  -+.+...|..+...+...|++++|.+.++.+.+.. .+...|+.+..++.+.+.
T Consensus       118 ~~~~~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~  195 (315)
T d2h6fa1         118 RRVLVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTG  195 (315)
T ss_dssp             HHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HhHHHHhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccc
Confidence            999999999999999999999975  23478899999999999999999999999998884 467888887777665554


Q ss_pred             ------hhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          273 ------VEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       273 ------~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                            +++|++.+.++++.+|++...+..++.++...| .+++.+.++...+..
T Consensus       196 ~~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~  249 (315)
T d2h6fa1         196 YNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQ  249 (315)
T ss_dssp             SCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHT
T ss_pred             cchhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhC
Confidence                  578999999999999999888888888776554 578888888776643

>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=99.50  E-value=2.6e-13  Score=105.11  Aligned_cols=220  Identities=10%  Similarity=-0.077  Sum_probs=156.0

Q ss_pred             chhHHHHHHhhhhhcCC--CcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHH
Q 048799           99 DVRNCQLIHGYGEKRGF--NAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVEN  175 (331)
Q Consensus        99 ~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~  175 (331)
                      +.+.++.-++++.....  ++....++..++.+|.+.|++++|...|++.....| ++.+|+.+..+|.+.|++++|+..
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            44556666666665432  222456777889999999999999999999998876 688999999999999999999999


Q ss_pred             HHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc
Q 048799          176 FERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT  255 (331)
Q Consensus       176 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  255 (331)
                      |+++.+... -+..++..+..++...|++++|...|+...+. . +.+......+...+.+.+..+.+..+........+
T Consensus        94 ~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~-~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (259)
T d1xnfa_          94 FDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD-D-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDK  170 (259)
T ss_dssp             HHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCC
T ss_pred             hhHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh-c-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccch
Confidence            999988542 24567888899999999999999999999875 2 33444444455555666665555555444433312


Q ss_pred             cHHHHHHHHHHHh----cCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhccc
Q 048799          256 NVVVWRTLLGACS----FHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       256 ~~~~~~~l~~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      ....+. ++..+.    ..+..+.+...+.......|....++..++..+...|++++|.+.+++....++
T Consensus       171 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         171 EQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             hhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            222222 222222    223344445555555556677667888999999999999999999999877554

>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=99.48  E-value=2.3e-11  Score=96.45  Aligned_cols=190  Identities=8%  Similarity=-0.035  Sum_probs=150.5

Q ss_pred             CchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-c-HHHHHHHHHHHHccCChHHHHHH
Q 048799           98 GDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-N-LVSWTSIISGFAMHGMGKEAVEN  175 (331)
Q Consensus        98 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~-~~~~~~l~~~~~~~~~~~~a~~~  175 (331)
                      +..++|..+++++++...+. +...|..++....+.|+++.|..+|+++....| + ...|...+..+.+.|+.+.|.++
T Consensus        78 ~~~~~a~~i~~ral~~~~p~-~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i  156 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKK-NMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMI  156 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHH
Confidence            34678889999988764333 777888889999999999999999999987755 3 45788999999999999999999


Q ss_pred             HHHHHhccCCCCHHHHHHHHHH-HhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-
Q 048799          176 FERMQKVVLKPNRVTFLSVLNA-CSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-  253 (331)
Q Consensus       176 ~~~m~~~~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-  253 (331)
                      |+++.+.+.. +...|...... +...|+.+.|..+|+.+.+.  .+.+...+...++.+.+.|+++.|..+|+++... 
T Consensus       157 ~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~  233 (308)
T d2onda1         157 FKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  233 (308)
T ss_dssp             HHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS
T ss_pred             HHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC
Confidence            9998875432 33334333332 34568899999999999875  3456788999999999999999999999998765 


Q ss_pred             --Cc--cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCC
Q 048799          254 --IT--NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYG  291 (331)
Q Consensus       254 --~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  291 (331)
                        .|  ....|...+.--...|+.+.+.++++++.+..|...
T Consensus       234 ~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         234 SLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             SSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             CCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcccc
Confidence              22  246788888887888999999999999998877654

>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=99.47  E-value=8.2e-12  Score=99.10  Aligned_cols=185  Identities=8%  Similarity=-0.052  Sum_probs=149.2

Q ss_pred             CCHhHHHHHHHHhhhc-CC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 048799          134 GCIFSALKLFEDISVE-RK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFF  211 (331)
Q Consensus       134 g~~~~A~~~~~~~~~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  211 (331)
                      +..++|..+|++.... .| +...|...+..+...|+++.|..+|++++..........|...+..+.+.|+.+.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            3467889999998865 34 566788888899999999999999999987543334557888899999999999999999


Q ss_pred             HHHHHhcCCCCcHhhHHHHHHH-HHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcC
Q 048799          212 DKMVEECEVLPDIKHYGCLIDM-LGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERG  289 (331)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  289 (331)
                      +++.+.  .+.+...|...+.. +...|+.+.|.++|+.+... +.+...|...+..+...|+++.|..+|+++++..|.
T Consensus       158 ~~al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHh--CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            999864  23344555554443 34468999999999999887 556889999999999999999999999999997665


Q ss_pred             CCc----cHHHHHHHHhhhccCcchHHHHHHHhhc
Q 048799          290 YGG----DYVLMYNILAGVWRYGDAERLRRVVDER  320 (331)
Q Consensus       290 ~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~  320 (331)
                      ++.    .|...+..-...|+.+.+.++.+++.+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            433    5777777778899999999999988664

>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=99.39  E-value=1.6e-13  Score=110.57  Aligned_cols=252  Identities=6%  Similarity=-0.141  Sum_probs=188.8

Q ss_pred             HHhcCChhHHHHHHHHHHhccCCCCch-HHHHHHHH----------HHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHH
Q 048799           58 YTRMNRSNGALALFRRMVACEYTEPSE-ITILAVFP----------AIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCL  126 (331)
Q Consensus        58 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~----------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  126 (331)
                      ....+..++|++++++++..   .|+. ..|+..-.          .+...|++++|+.+++.+++..+.  +...|..+
T Consensus        39 ~~~~~~~~~al~~~~~~l~~---~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk--~~~~~~~~  113 (334)
T d1dcea1          39 RQAGELDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK--SYGTWHHR  113 (334)
T ss_dssp             HHTTCCSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT--CHHHHHHH
T ss_pred             HhcccccHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC--cHHHHHHh
Confidence            33344458999999998553   3543 34433222          233455688999999999988655  77888888


Q ss_pred             HHHHHhcCC--HhHHHHHHHHhhhcCC-cHHHHH-HHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccC
Q 048799          127 IDTYAKCGC--IFSALKLFEDISVERK-NLVSWT-SIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGG  202 (331)
Q Consensus       127 ~~~~~~~g~--~~~A~~~~~~~~~~~~-~~~~~~-~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~  202 (331)
                      ..++...++  +++|...+.++....| +...+. .....+...+.+++|+..++++...+ +-+...|..+...+...|
T Consensus       114 ~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~  192 (334)
T d1dcea1         114 CWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLH  192 (334)
T ss_dssp             HHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHS
T ss_pred             hHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhc
Confidence            888777664  8899999999987755 466654 44567778899999999999988754 236778888999999999


Q ss_pred             ChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHH
Q 048799          203 LVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTR  281 (331)
Q Consensus       203 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~  281 (331)
                      ++++|...+....+.   .|+.   ..+...+...+..+++...+...... +++...+..++..+...|++++|...+.
T Consensus       193 ~~~~A~~~~~~~~~~---~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  266 (334)
T d1dcea1         193 PQPDSGPQGRLPENV---LLKE---LELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQ  266 (334)
T ss_dssp             CCCCSSSCCSSCHHH---HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhHHh---HHHH---HHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHH
Confidence            999887766655543   1211   22333455667777788877776655 4455666677778888899999999999


Q ss_pred             HHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          282 KILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       282 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                      +..+.+|.+...+..++.++...|++++|.+.+++..+.+
T Consensus       267 ~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld  306 (334)
T d1dcea1         267 ELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  306 (334)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC
T ss_pred             HHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            9999999988999999999999999999999999998754

>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=99.15  E-value=2.1e-09  Score=78.46  Aligned_cols=117  Identities=12%  Similarity=-0.034  Sum_probs=57.4

Q ss_pred             HHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHh
Q 048799           58 YTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIF  137 (331)
Q Consensus        58 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  137 (331)
                      +...|++++|++.|+++     .+|++.+|..+..++...|++++|++.|+++++..+.  ...+|..+..++.+.|+++
T Consensus        15 ~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~--~~~a~~~~g~~~~~~g~~~   87 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH--LAVAYFQRGMLYYQTEKYD   87 (192)
T ss_dssp             HHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh--hhhhHHHHHHHHHhhccHH
Confidence            44445555555555443     2344444444555555555555555555555544322  4445555555555555555


Q ss_pred             HHHHHHHHhhhcC----------------C-cHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          138 SALKLFEDISVER----------------K-NLVSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       138 ~A~~~~~~~~~~~----------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      +|...|++.....                . ...++..+..++.+.|++++|.+.|.....
T Consensus        88 ~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_          88 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            5555555443210                0 113344445555566666666666655554

>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=99.14  E-value=3e-09  Score=83.22  Aligned_cols=196  Identities=9%  Similarity=-0.073  Sum_probs=120.0

Q ss_pred             HHHHHhhcCchhHHHHHHhhhhhc----CCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc---CC----cHHHHHH
Q 048799           90 VFPAIWQNGDVRNCQLIHGYGEKR----GFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE---RK----NLVSWTS  158 (331)
Q Consensus        90 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~----~~~~~~~  158 (331)
                      ....|...+++++|.+.|.++.+.    +..+....+|..++.+|.+.|++++|.+.+++....   ..    ...++..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            345566777777777777776553    222213456777788888888888888888876543   11    1344556


Q ss_pred             HHHHHH-ccCChHHHHHHHHHHHhc----cCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcH-----hhH
Q 048799          159 IISGFA-MHGMGKEAVENFERMQKV----VLKP-NRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDI-----KHY  227 (331)
Q Consensus       159 l~~~~~-~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~  227 (331)
                      +...|. ..|++++|++.+++..+.    +.++ ...++..+...+...|++++|...|+++.......+..     ..+
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~  202 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYF  202 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHH
Confidence            666664 458888888888876542    1111 13456777888888888888888888877641111111     123


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcccCCcc------HHHHHHHHHHHhc--CCchhHHHHHHHHHHH
Q 048799          228 GCLIDMLGRAGRLEQAEKVASGIPSEITN------VVVWRTLLGACSF--HGNVEMGERVTRKILE  285 (331)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~------~~~~~~l~~~~~~--~g~~~~a~~~~~~~~~  285 (331)
                      ...+..+...|+++.|.+.+++.....|.      ......++.++-.  .+.+++|+..|+.+.+
T Consensus       203 ~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         203 LKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence            34445566788888888888888776332      2234455555543  2345666666654443

>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=99.10  E-value=2.6e-08  Score=77.78  Aligned_cols=203  Identities=13%  Similarity=-0.010  Sum_probs=135.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcc---CCCC-chHHHHHHHHHHhhcCchhHHHHHHhhhhhc----CCCcchhHH
Q 048799           51 WTGIIDGYTRMNRSNGALALFRRMVACE---YTEP-SEITILAVFPAIWQNGDVRNCQLIHGYGEKR----GFNAFHIHV  122 (331)
Q Consensus        51 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~  122 (331)
                      |......|...|++++|.+.|.++....   +.++ ...+|..+..+|.+.|++++|.+.+++..+.    +.......+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            3345677888888888888888774321   1111 2347788888888999999999988877653    221113456


Q ss_pred             HHHHHHHHHh-cCCHhHHHHHHHHhhhc---C--C--cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCC-----CH-
Q 048799          123 SNCLIDTYAK-CGCIFSALKLFEDISVE---R--K--NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKP-----NR-  188 (331)
Q Consensus       123 ~~~l~~~~~~-~g~~~~A~~~~~~~~~~---~--~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-----~~-  188 (331)
                      +..++..|.. .|++++|...|+++...   .  +  ...++..+...+...|++++|++.|+++.......     .. 
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~  199 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHH
Confidence            6667777744 69999999999887643   1  1  23457888899999999999999999987643111     11 


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCc---HhhHHHHHHHHHh--cCCHHHHHHHHhhcccC
Q 048799          189 VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPD---IKHYGCLIDMLGR--AGRLEQAEKVASGIPSE  253 (331)
Q Consensus       189 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~  253 (331)
                      ..+...+..+...|+++.|...+++..+...--++   ......++.++-.  .+.+++|+..|+.+...
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~l  269 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRL  269 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhc
Confidence            22344555667789999999999988653100111   2344566666654  34588999999887765

>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=99.10  E-value=5.9e-09  Score=75.98  Aligned_cols=131  Identities=13%  Similarity=-0.041  Sum_probs=108.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcC
Q 048799           19 TWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNG   98 (331)
Q Consensus        19 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   98 (331)
                      .|+. ...+...|+++.|++.|+++..++..+|..+..+|...|++++|++.|++.+...  +.+...|..+..++.+.|
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld--p~~~~a~~~~g~~~~~~g   84 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQTE   84 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTT
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh--hhhhhhHHHHHHHHHhhc
Confidence            3443 5667889999999999999998999999999999999999999999999996543  356778999999999999


Q ss_pred             chhHHHHHHhhhhhcCC--------------CcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc
Q 048799           99 DVRNCQLIHGYGEKRGF--------------NAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN  152 (331)
Q Consensus        99 ~~~~a~~~~~~~~~~~~--------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  152 (331)
                      ++++|...|++.+....              ......++..+..++.+.|++++|.+.|..+....|+
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            99999999998875311              1112356677889999999999999999998876554

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.06  E-value=1.1e-09  Score=80.82  Aligned_cols=106  Identities=9%  Similarity=-0.110  Sum_probs=64.2

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHH
Q 048799          186 PNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLL  264 (331)
Q Consensus       186 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~  264 (331)
                      |+...+......+.+.|++++|+..|.++++.  .|.+...|..+..+|.+.|++++|...|+.+....| +...|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            44555555566666666666666666666553  123555666666666666666666666666665533 355666666


Q ss_pred             HHHhcCCchhHHHHHHHHHHHhhcCCCcc
Q 048799          265 GACSFHGNVEMGERVTRKILEMERGYGGD  293 (331)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  293 (331)
                      .+|...|++++|...|+++.++.|+....
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~  108 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLN  108 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHH
Confidence            66666666666666666666665554333

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=1.3e-09  Score=72.63  Aligned_cols=105  Identities=12%  Similarity=0.030  Sum_probs=76.0

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCc
Q 048799          194 VLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGN  272 (331)
Q Consensus       194 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~  272 (331)
                      -...+...|++++|+..|+++++.  -+.+...|..+..+|...|++++|...+..+... +.++..|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            345566777888888888777764  2336667777777777888888888888777765 4466777777888888888


Q ss_pred             hhHHHHHHHHHHHhhcCCCccHHHHHHH
Q 048799          273 VEMGERVTRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       273 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      +++|+..|+++++.+|+++..+..+..+
T Consensus        87 ~~~A~~~~~~a~~~~p~~~~~~~~l~~l  114 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEANNPQLKEGLQNM  114 (117)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            8888888888888777776665555444

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.03  E-value=3.6e-10  Score=83.40  Aligned_cols=101  Identities=10%  Similarity=-0.066  Sum_probs=92.6

Q ss_pred             CcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHH
Q 048799          222 PDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      |+...+...+..|.+.|++++|...|+++... +.++..|..+..+|.+.|++++|+..|+++++++|+++.+|..++.+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~   81 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHH
Confidence            66777778889999999999999999998877 55789999999999999999999999999999999999999999999


Q ss_pred             HhhhccCcchHHHHHHHhhccc
Q 048799          301 LAGVWRYGDAERLRRVVDERNA  322 (331)
Q Consensus       301 ~~~~g~~~~a~~~~~~~~~~~~  322 (331)
                      |...|++++|...+++..+...
T Consensus        82 ~~~l~~~~~A~~~~~~al~l~p  103 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAYSLAK  103 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCc
Confidence            9999999999999998877543

>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=98.98  E-value=4.8e-09  Score=74.06  Aligned_cols=118  Identities=11%  Similarity=-0.013  Sum_probs=87.7

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCC
Q 048799          193 SVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHG  271 (331)
Q Consensus       193 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g  271 (331)
                      .....|.+.|++++|...|+++.+. . +.+...|..+..+|...|++++|...|+.+.+. +.+...|..++.++...|
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~-~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIEL-N-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH-S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhcccc-c-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcC
Confidence            3455677888888888888888875 2 346778888888888888888888888888776 345678888888888888


Q ss_pred             chhHHHHHHHHHHHhhcCCCccHHHHHHHH--hhhccCcchHH
Q 048799          272 NVEMGERVTRKILEMERGYGGDYVLMYNIL--AGVWRYGDAER  312 (331)
Q Consensus       272 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~~~a~~  312 (331)
                      ++++|...++++.+..|+++..+..+..+.  ...+.++++..
T Consensus        93 ~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~  135 (159)
T d1a17a_          93 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIA  135 (159)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            888888888888888888876666655443  33344555543

>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=98.97  E-value=1.3e-09  Score=72.60  Aligned_cols=93  Identities=15%  Similarity=0.094  Sum_probs=85.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccC
Q 048799          229 CLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRY  307 (331)
Q Consensus       229 ~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  307 (331)
                      .-...+.+.|++++|...|+++... +.++..|..+..++...|++++|+..++++++.+|+++..|..++.++...|++
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            3466788999999999999999887 456889999999999999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHhhcc
Q 048799          308 GDAERLRRVVDERN  321 (331)
Q Consensus       308 ~~a~~~~~~~~~~~  321 (331)
                      ++|+..+++..+..
T Consensus        88 ~~A~~~~~~a~~~~  101 (117)
T d1elwa_          88 EEAKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999998754

>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=98.95  E-value=1.4e-09  Score=71.84  Aligned_cols=90  Identities=8%  Similarity=-0.140  Sum_probs=81.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhcc
Q 048799          228 GCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWR  306 (331)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  306 (331)
                      ..+...+.+.|++++|...|+++....| ++..|..+..++.+.|++++|+..++++++.+|+++..+..++..|...|+
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            3456678899999999999999887745 688999999999999999999999999999999999999999999999999


Q ss_pred             CcchHHHHHHH
Q 048799          307 YGDAERLRRVV  317 (331)
Q Consensus       307 ~~~a~~~~~~~  317 (331)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999875

>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=98.91  E-value=1.3e-06  Score=66.75  Aligned_cols=63  Identities=6%  Similarity=-0.036  Sum_probs=32.6

Q ss_pred             chhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhh----cCchhHHHHHHhhhhhcC
Q 048799           48 VVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQ----NGDVRNCQLIHGYGEKRG  114 (331)
Q Consensus        48 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  114 (331)
                      +..+..|...+.+.+++++|++.|++. ...|   +...+..|...|..    ..+...|...+....+.+
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kA-a~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~   68 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKA-CDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN   68 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHH-HHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc
Confidence            344555555556666666666666665 2222   33344444444433    345555555555555544

>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=98.90  E-value=1.9e-08  Score=71.68  Aligned_cols=135  Identities=9%  Similarity=-0.053  Sum_probs=94.1

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHH
Q 048799          154 VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDM  233 (331)
Q Consensus       154 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  233 (331)
                      ..+......+.+.|++++|+..|.+.+..-  |..            .+....-......+        ...+|+.+..+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~--~~~------------~~~~~~~~~~~~~~--------~~~~~~nla~~   71 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYE------------SSFSNEEAQKAQAL--------RLASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTC------------CCCCSHHHHHHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHh--hhc------------cccchHHHhhhchh--------HHHHHHHHHHH
Confidence            344555666777777777777777766521  100            00000000111111        12356778888


Q ss_pred             HHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcch
Q 048799          234 LGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDA  310 (331)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  310 (331)
                      |.+.|++++|+..++.+....| ++..|..++.++...|++++|+..|+++++++|+++.+...+..+..+.+...+.
T Consensus        72 y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999888744 7889999999999999999999999999999999988887777776665544433

>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=98.87  E-value=1.2e-08  Score=67.97  Aligned_cols=107  Identities=13%  Similarity=-0.124  Sum_probs=84.0

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCC---HHHHHHHHhhcccCCccH---HHHHHHHH
Q 048799          192 LSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGR---LEQAEKVASGIPSEITNV---VVWRTLLG  265 (331)
Q Consensus       192 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~---~~~~~l~~  265 (331)
                      ..+++.+...+++++|++.|++....  -+.+..++..+..++.+.++   +++|..+++++....|++   .++..+..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            45677788889999999999999875  24477888888888887554   456999999988763432   46788899


Q ss_pred             HHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHH
Q 048799          266 ACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNI  300 (331)
Q Consensus       266 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  300 (331)
                      +|.+.|++++|++.|+++++.+|++..+......+
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I  115 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLI  115 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHH
Confidence            99999999999999999999999986555444433

>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=98.84  E-value=1.2e-07  Score=66.73  Aligned_cols=88  Identities=13%  Similarity=0.093  Sum_probs=36.9

Q ss_pred             HHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHH
Q 048799          128 DTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEE  206 (331)
Q Consensus       128 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  206 (331)
                      ..|.+.|++++|+..|+++....| +...|..+..+|...|++++|+..|+++++.. +-+...|..+..++...|++++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHHH
Confidence            334444444444444444443333 23344444444444444444444444444321 1122334444444444444444


Q ss_pred             HHHHHHHHHH
Q 048799          207 GLKFFDKMVE  216 (331)
Q Consensus       207 a~~~~~~~~~  216 (331)
                      |...+++..+
T Consensus        97 A~~~~~~a~~  106 (159)
T d1a17a_          97 ALRDYETVVK  106 (159)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.80  E-value=1.1e-05  Score=61.55  Aligned_cols=222  Identities=8%  Similarity=-0.052  Sum_probs=92.8

Q ss_pred             HHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh----cCCHhHHHHHHHHhhhcCCcHHHHHHHH
Q 048799           85 ITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK----CGCIFSALKLFEDISVERKNLVSWTSII  160 (331)
Q Consensus        85 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~  160 (331)
                      ..+..|...+...+++++|++.|++..+.|    +..++..|...|..    ..+...|...+....... +......+.
T Consensus         3 ~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g----~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~-~~~a~~~l~   77 (265)
T d1ouva_           3 KELVGLGAKSYKEKDFTQAKKYFEKACDLK----ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN-YSNGCHLLG   77 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc-ccchhhccc
Confidence            344444444455555555555555555443    22333344444443    334555555555443221 222222222


Q ss_pred             HHHH----ccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHh----ccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHH
Q 048799          161 SGFA----MHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACS----HGGLVEEGLKFFDKMVEECEVLPDIKHYGCLID  232 (331)
Q Consensus       161 ~~~~----~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  232 (331)
                      ..+.    ..++.+.|...++.....|....   ...+...+.    .......+...+......    .+...+..+..
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a---~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~L~~  150 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKYAEG---CASLGGIYHDGKVVTRDFKKAVEYFTKACDL----NDGDGCTILGS  150 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCHHH---HHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhhhhH---HHhhcccccCCCcccchhHHHHHHhhhhhcc----cccchhhhhhh
Confidence            2222    13344555555555444332111   111111111    122333444444433321    23344444444


Q ss_pred             HHHh----cCCHHHHHHHHhhcccCCccHHHHHHHHHHHhc----CCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh-
Q 048799          233 MLGR----AGRLEQAEKVASGIPSEITNVVVWRTLLGACSF----HGNVEMGERVTRKILEMERGYGGDYVLMYNILAG-  303 (331)
Q Consensus       233 ~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-  303 (331)
                      .|..    ..+...+..+++...+. .+......+...|..    ..+++.|...|+++.+.  +++..+..|+.+|.+ 
T Consensus       151 ~~~~~~~~~~~~~~~~~~~~~a~~~-g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~--g~~~a~~~LG~~y~~G  227 (265)
T d1ouva_         151 LYDAGRGTPKDLKKALASYDKACDL-KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACEL--ENGGGCFNLGAMQYNG  227 (265)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHTT
T ss_pred             hhccCCCcccccccchhhhhccccc-cccccccchhhhcccCcccccchhhhhhhHhhhhcc--cCHHHHHHHHHHHHcC
Confidence            4443    23444455555444433 233333344433332    34555555555555443  233444555555543 


Q ss_pred             ---hccCcchHHHHHHHhhcc
Q 048799          304 ---VWRYGDAERLRRVVDERN  321 (331)
Q Consensus       304 ---~g~~~~a~~~~~~~~~~~  321 (331)
                         ..+.++|.+.|++..+.|
T Consensus       228 ~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         228 EGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             SSSSCCSTTHHHHHHHHHHHT
T ss_pred             CCCccCHHHHHHHHHHHHHCc
Confidence               224555555555554443

>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=98.75  E-value=4.6e-08  Score=64.27  Aligned_cols=23  Identities=17%  Similarity=-0.204  Sum_probs=8.5

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHH
Q 048799          123 SNCLIDTYAKCGCIFSALKLFED  145 (331)
Q Consensus       123 ~~~l~~~~~~~g~~~~A~~~~~~  145 (331)
                      |..++.++.+.|++++|+..|++
T Consensus        53 ~~~lg~~~~~~~~~~~A~~~~~~   75 (112)
T d1hxia_          53 WRSLGLTQAENEKDGLAIIALNH   75 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhhhhhhhhhhhHHHhhccccc
Confidence            33333333333333333333333

>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=98.71  E-value=1e-07  Score=63.36  Aligned_cols=97  Identities=11%  Similarity=-0.019  Sum_probs=47.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcC---chhHHHHHHhhhhhcCCCcchhHHHHHHHHH
Q 048799           53 GIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNG---DVRNCQLIHGYGEKRGFNAFHIHVSNCLIDT  129 (331)
Q Consensus        53 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  129 (331)
                      .+++.+...+++++|.+.|++.+...  +.++.++..+..++.+++   ++++|+.+++++++..+.|....++..|+.+
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~--p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            34455555555555555555553321  234445555555554433   2334555555555544333112344455555


Q ss_pred             HHhcCCHhHHHHHHHHhhhcCC
Q 048799          130 YAKCGCIFSALKLFEDISVERK  151 (331)
Q Consensus       130 ~~~~g~~~~A~~~~~~~~~~~~  151 (331)
                      |.+.|++++|++.|+++....|
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~P  103 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTEP  103 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHhhhHHHHHHHHHHHHhCc
Confidence            5555555555555555555444

>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=98.71  E-value=1e-07  Score=66.52  Aligned_cols=129  Identities=13%  Similarity=-0.028  Sum_probs=89.0

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHH
Q 048799          154 VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDM  233 (331)
Q Consensus       154 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  233 (331)
                      ..+..-...+.+.|++++|+..|.+.+..  .|..           .... +..  .......     ....+|..+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~-----------~~~~-~~~--~~~~~~~-----~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHT-----------EEWD-DQI--LLDKKKN-----IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTC-----------TTCC-CHH--HHHHHHH-----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--Ccch-----------hhhh-hHH--HHHhhhh-----HHHHHHhhHHHH
Confidence            34555666777778888888888776652  1110           0000 000  0011111     123467788889


Q ss_pred             HHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh
Q 048799          234 LGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG  303 (331)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  303 (331)
                      |.+.|++++|++.++.+... +.+..+|..++.++...|++++|...|+++++++|++..+...+..+..+
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~k  147 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  147 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            99999999999999998877 44688999999999999999999999999999999987766665554433

>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=98.69  E-value=9.1e-08  Score=68.03  Aligned_cols=129  Identities=8%  Similarity=-0.037  Sum_probs=91.7

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHH
Q 048799          156 WTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDML  234 (331)
Q Consensus       156 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~  234 (331)
                      +......+...|++++|++.|.++++..  +.          ..........         . .+.| ....+..+..++
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~--~~----------~~~~~~~~~~---------~-~~~~~~~~~~~nla~~~   87 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYV--EG----------SRAAAEDADG---------A-KLQPVALSCVLNIGACK   87 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH--HH----------HHHHSCHHHH---------G-GGHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhh--hh----------hhhhhhhHHH---------H-HhChhhHHHHHHHHHHH
Confidence            4455566777788888888877765410  00          0000000000         0 1112 455677788899


Q ss_pred             HhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhcc
Q 048799          235 GRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWR  306 (331)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  306 (331)
                      .+.|++++|+..++.+.+. +.++..|..+..++...|++++|+..|+++++++|++..+...+..+..+...
T Consensus        88 ~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~  160 (169)
T d1ihga1          88 LKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKA  160 (169)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999888 55688999999999999999999999999999999987777777666554443

>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=98.69  E-value=1.8e-07  Score=66.28  Aligned_cols=95  Identities=9%  Similarity=-0.072  Sum_probs=75.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhh
Q 048799          225 KHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAG  303 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  303 (331)
                      .+|+.+..+|.+.|++++|+..++.+... +.+...|..+..++...|++++|...|+++++++|+++.+...+..+...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  144 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKK  144 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            35667788889999999999999998877 55788899999999999999999999999999999988777777777666


Q ss_pred             hccCc-chHHHHHHHhh
Q 048799          304 VWRYG-DAERLRRVVDE  319 (331)
Q Consensus       304 ~g~~~-~a~~~~~~~~~  319 (331)
                      .+... ...+++..|-+
T Consensus       145 ~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         145 AKEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHh
Confidence            55443 34455554433

>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=98.69  E-value=2.7e-09  Score=89.98  Aligned_cols=228  Identities=10%  Similarity=-0.052  Sum_probs=126.0

Q ss_pred             HHHHHHHHHHhccCCCCc-hHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHH
Q 048799           66 GALALFRRMVACEYTEPS-EITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFE  144 (331)
Q Consensus        66 ~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  144 (331)
                      +|.+.|++...   +.|+ ...+..+..++...+++++|   |++++...+.  ....++......  ...+..+.+.++
T Consensus         4 eA~q~~~qA~~---l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~--~a~~~~~e~~Lw--~~~y~~~ie~~r   73 (497)
T d1ya0a1           4 QSAQYLRQAEV---LKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTDLE--YALDKKVEQDLW--NHAFKNQITTLQ   73 (497)
T ss_dssp             HHHHHHHHHHH---HHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHCHH--HHHHHTHHHHHH--HHHTHHHHHHHH
T ss_pred             HHHHHHHHHHH---cCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcChh--hHHHHhHHHHHH--HHHHHHHHHHHH
Confidence            67788888744   2344 34566677777777888765   6777665322  122222111111  112455666666


Q ss_pred             HhhhcC--CcHHHHHH-HH-HHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCC
Q 048799          145 DISVER--KNLVSWTS-II-SGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEV  220 (331)
Q Consensus       145 ~~~~~~--~~~~~~~~-l~-~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  220 (331)
                      ...+..  ++...... +. ......+.++.++..+.+..+.. +++...+..+...+.+.|+.+.|...+...... . 
T Consensus        74 ~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-~-  150 (497)
T d1ya0a1          74 GQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY-I-  150 (497)
T ss_dssp             HHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHH-H-
T ss_pred             HhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC-C-
Confidence            665442  22221111 11 11223445556655555443321 234556677777888888888888888776643 1 


Q ss_pred             CCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHH
Q 048799          221 LPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYN  299 (331)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  299 (331)
                        ...++..++..+...|++++|...|+++....| +...|+.++..+...|+..+|...|.+++...|+.+.++..|..
T Consensus       151 --~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~  228 (497)
T d1ya0a1         151 --CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQK  228 (497)
T ss_dssp             --HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence              135677788888899999999999999887744 56889999999999999999999999999888888888888888


Q ss_pred             HHhhhccCc
Q 048799          300 ILAGVWRYG  308 (331)
Q Consensus       300 ~~~~~g~~~  308 (331)
                      ++.+..+..
T Consensus       229 ~~~~~~~~~  237 (497)
T d1ya0a1         229 ALSKALESR  237 (497)
T ss_dssp             HHHHHTTSC
T ss_pred             HHHHhhhhh
Confidence            887665443

>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=98.66  E-value=7e-07  Score=63.29  Aligned_cols=60  Identities=10%  Similarity=-0.085  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          122 VSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       122 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      +|+.+..+|.+.|++++|+..++.+....| ++.+|..+..+|...|++++|+..|++..+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            344455556666666666666665555544 455555555566666666666666665555

>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=98.63  E-value=1.3e-05  Score=62.78  Aligned_cols=271  Identities=11%  Similarity=0.038  Sum_probs=152.2

Q ss_pred             CchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHH
Q 048799           14 ERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPA   93 (331)
Q Consensus        14 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~   93 (331)
                      .||..--..+++.|.+.|.++.|..+|..+..     |..++..+.+.++++.|.+++.+.       -+..+|..+...
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d-----~~rl~~~~v~l~~~~~avd~~~k~-------~~~~~~k~~~~~   78 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN-----FGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFA   78 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC-----HHHHHHHHHTTTCHHHHHHHHHHH-------TCHHHHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC-----HHHHHHHHHhhccHHHHHHHHHHc-------CCHHHHHHHHHH
Confidence            46666666788889999999999999987764     777888899999999999988876       355688888888


Q ss_pred             HhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-CCcHHHHHHHHHHHHccCChHHH
Q 048799           94 IWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-RKNLVSWTSIISGFAMHGMGKEA  172 (331)
Q Consensus        94 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a  172 (331)
                      +.+......+.-     ....... ++.....++..|-..|.+++...+++..... ..+...++.++..|++.+ .++.
T Consensus        79 l~~~~e~~la~i-----~~~~~~~-~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl  151 (336)
T d1b89a_          79 CVDGKEFRLAQM-----CGLHIVV-HADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKM  151 (336)
T ss_dssp             HHHTTCHHHHHH-----TTTTTTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHH
T ss_pred             HHhCcHHHHHHH-----HHHHhhc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHH
Confidence            887766654322     2222222 4445567888999999999999999987654 456777888888888764 4444


Q ss_pred             HHHHHHHHhccCCCCH--------HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHH
Q 048799          173 VENFERMQKVVLKPNR--------VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAE  244 (331)
Q Consensus       173 ~~~~~~m~~~~~~p~~--------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  244 (331)
                      .+.++.... ...+..        ..|.-++-.|.+.|+++.|..+.   .++   +++..-...+++.+.+.++++...
T Consensus       152 ~e~l~~~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~~---~~~~~~~~~f~e~~~k~~N~e~~~  224 (336)
T d1b89a_         152 REHLELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH---PTDAWKEGQFKDIITKVANVELYY  224 (336)
T ss_dssp             HHHHHHHST-TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HHS---TTTTCCHHHHHHHHHHCSSTHHHH
T ss_pred             HHHHHhccc-cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HHc---chhhhhHHHHHHHHHccCChHHHH
Confidence            444443211 111110        01233444444455554443322   221   233333444555566666666555


Q ss_pred             HHHhhcccCCccHH-----------HHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHH
Q 048799          245 KVASGIPSEITNVV-----------VWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAER  312 (331)
Q Consensus       245 ~~~~~~~~~~p~~~-----------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  312 (331)
                      ++.....+..|+..           ....++..+.+.++.......++...+  .++......+...|...++++.-.+
T Consensus       225 ~~i~~yL~~~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~--~n~~~vn~al~~lyie~~d~~~l~~  301 (336)
T d1b89a_         225 RAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQN--HNNKSVNESLNNLFITEEDYQALRT  301 (336)
T ss_dssp             HHHHHHHHHCGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHT--TCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHcCHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHH--cChHHHHHHHHHHHhCcchhHHHHH
Confidence            55444433322210           012234445556666666666655443  2333567778888888877544333

>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=98.61  E-value=4.7e-07  Score=60.88  Aligned_cols=92  Identities=9%  Similarity=0.027  Sum_probs=52.6

Q ss_pred             HHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc--------HHHHHHH
Q 048799           88 LAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN--------LVSWTSI  159 (331)
Q Consensus        88 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--------~~~~~~l  159 (331)
                      ..+...+...|++++|+..|.++++..+.  +..++..+..+|.+.|++++|+..++++....|+        ..+|..+
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~p~--~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELDPT--NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCcc--cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            34455556666666666666666665433  5556666666666666666666666665543221        1244455


Q ss_pred             HHHHHccCChHHHHHHHHHHHh
Q 048799          160 ISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       160 ~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      ...+...+++++|++.|++...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh
Confidence            5555566666666666665544

>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=98.61  E-value=8.6e-08  Score=64.62  Aligned_cols=96  Identities=10%  Similarity=0.004  Sum_probs=67.9

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC---Ccc-----HHHHHH
Q 048799          191 FLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE---ITN-----VVVWRT  262 (331)
Q Consensus       191 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~p~-----~~~~~~  262 (331)
                      +..+...+...|++++|+..|.+.++.  .+.+...+..+..+|.+.|++++|.+.+++++..   .+.     ..+|..
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            455667777788888888888887764  2336677777788888888888888888877654   111     245666


Q ss_pred             HHHHHhcCCchhHHHHHHHHHHHhhc
Q 048799          263 LLGACSFHGNVEMGERVTRKILEMER  288 (331)
Q Consensus       263 l~~~~~~~g~~~~a~~~~~~~~~~~~  288 (331)
                      +...+...+++++|++.|++.....|
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~~~~  110 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLAEHR  110 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            67777777788888888877776544

>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=98.56  E-value=4.5e-08  Score=82.39  Aligned_cols=266  Identities=10%  Similarity=-0.028  Sum_probs=144.9

Q ss_pred             HHHHHHhhCC--CCC-chhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchH-HHHHHHHHHhhcCchhHHHHHHhhh
Q 048799           35 YARSLFEEMP--CRN-VVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEI-TILAVFPAIWQNGDVRNCQLIHGYG  110 (331)
Q Consensus        35 ~A~~~~~~~~--~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~  110 (331)
                      +|.+.|++..  +|+ +.++..+..++...|++++|   |++++.   ..|+.. ..+. ...+. ...+..+.+.++..
T Consensus         4 eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~---~dp~~a~~~~~-e~~Lw-~~~y~~~ie~~r~~   75 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLV---TDLEYALDKKV-EQDLW-NHAFKNQITTLQGQ   75 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHH---HCHHHHHHHTH-HHHHH-HHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHH---cChhhHHHHhH-HHHHH-HHHHHHHHHHHHHh
Confidence            5667777765  343 45677788889999988876   666633   123211 1111 11111 12345667777776


Q ss_pred             hhcCCCcchhHHHHHH-HHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCH
Q 048799          111 EKRGFNAFHIHVSNCL-IDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNR  188 (331)
Q Consensus       111 ~~~~~~~~~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  188 (331)
                      .+....+........+ .......+.++.|+..+....+..| +...+..+...+.+.|+.+.|...+.+.....  | .
T Consensus        76 ~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~  152 (497)
T d1ya0a1          76 AKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-Q  152 (497)
T ss_dssp             HSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC-------------------------------CCHHHHHH--H-H
T ss_pred             cccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-H
Confidence            6654433122222222 2223345666777766665544444 56678888889999999999999888766532  2 3


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHH
Q 048799          189 VTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGAC  267 (331)
Q Consensus       189 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~  267 (331)
                      .++..+...+...|++++|...|.++.+.  .+.+...|+.|+..+...|+..+|...|.+.... +|.+.++..|...+
T Consensus       153 ~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         153 HCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            56778899999999999999999999975  2336789999999999999999999999999887 77788899988877


Q ss_pred             hcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHH
Q 048799          268 SFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVV  317 (331)
Q Consensus       268 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  317 (331)
                      .+..+..++.+.-.    ..+.....+..+...+...+..+....+.+.+
T Consensus       231 ~~~~~~~~~~~~~~----~~~~~~~~f~~~~~~l~~~~~~~~~~~~~~~~  276 (497)
T d1ya0a1         231 SKALESRDEVKTKW----GVSDFIKAFIKFHGHVYLSKSLEKLSPLREKL  276 (497)
T ss_dssp             HHHTTSCCCCCSSC----CHHHHHHHHHHHHHHHHHTCCGGGHHHHHHHH
T ss_pred             HHhhhhhhhhcccc----ccchHHHHHHHHHHHHHhCCchhhHHHHHHHH
Confidence            64433222110000    00011123344444455566666666655544

>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=98.49  E-value=4.2e-06  Score=59.05  Aligned_cols=60  Identities=13%  Similarity=-0.051  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          122 VSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       122 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      +|+.+..+|.+.|++++|+..++++....| +..+|..+..++...|++++|+..|+++..
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~  126 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  126 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344455555666666666666665555433 455555555566666666666666666554

>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=98.47  E-value=3.5e-06  Score=58.42  Aligned_cols=60  Identities=18%  Similarity=0.085  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          122 VSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       122 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      +++.++.+|.+.|++++|+..++++....| ++.+|..+..++...|++++|+..|++..+
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            444555555555555555555555554444 345555555555555555555555555554

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.40  E-value=1.2e-05  Score=57.01  Aligned_cols=122  Identities=11%  Similarity=0.128  Sum_probs=77.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHh
Q 048799           53 GIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAK  132 (331)
Q Consensus        53 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  132 (331)
                      .........|++++|.+.|.+.+...   +...        +......+.+......+...     ...++..++..+.+
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~---rG~~--------l~~~~~~~w~~~~r~~l~~~-----~~~a~~~la~~~~~   79 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREW---RGPV--------LDDLRDFQFVEPFATALVED-----KVLAHTAKAEAEIA   79 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC---CSST--------TGGGTTSTTHHHHHHHHHHH-----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC---cccc--------cccCcchHHHHHHHHHHHHH-----HHHHHHHHHHHHHH
Confidence            34455677888888888888774421   1110        00011111111112222211     44566778888888


Q ss_pred             cCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHh-----ccCCCCHHH
Q 048799          133 CGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQK-----VVLKPNRVT  190 (331)
Q Consensus       133 ~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~  190 (331)
                      .|++++|+..++++....| +...|..++.+|...|+..+|++.|+++..     .|+.|+..+
T Consensus        80 ~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          80 CGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            8888888888888877766 677888888888888888888888887633     577777654

>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=98.39  E-value=5.1e-06  Score=58.65  Aligned_cols=63  Identities=10%  Similarity=-0.049  Sum_probs=41.0

Q ss_pred             hhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 048799          119 HIHVSNCLIDTYAKCGCIFSALKLFEDISVERK-NLVSWTSIISGFAMHGMGKEAVENFERMQK  181 (331)
Q Consensus       119 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  181 (331)
                      ....+..+..++.+.|++++|+..++++....| ++.+|..+..++...|++++|+..|++..+
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            445555666666666777777776666666544 455666666666666667777666666665

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.37  E-value=9.9e-07  Score=62.87  Aligned_cols=121  Identities=12%  Similarity=-0.053  Sum_probs=77.9

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHHhhcccCCccHHHHHHHHHHHhcCCc
Q 048799          193 SVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVASGIPSEITNVVVWRTLLGACSFHGN  272 (331)
Q Consensus       193 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  272 (331)
                      .........|++++|.+.|.+....+.-.+-...         ..+.+  +...-..+..  .....+..++.++...|+
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~---------~~~~w--~~~~r~~l~~--~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREWRGPVLDDL---------RDFQF--VEPFATALVE--DKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGG---------TTSTT--HHHHHHHHHH--HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcccccccC---------cchHH--HHHHHHHHHH--HHHHHHHHHHHHHHHCCC
Confidence            3345677889999999999988864211110000         00000  0000011111  134566777888888888


Q ss_pred             hhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHHhh-----ccccCCC
Q 048799          273 VEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVVDE-----RNALKFP  326 (331)
Q Consensus       273 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~  326 (331)
                      +++|+..++++++.+|.+...|..++.++.+.|+..+|++.|+++..     .|+.|.+
T Consensus        83 ~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~  141 (179)
T d2ff4a2          83 ASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  141 (179)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             chHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCH
Confidence            88888888888888888888888888888888888888888887743     4665543

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=1.6e-06  Score=54.71  Aligned_cols=75  Identities=15%  Similarity=0.007  Sum_probs=57.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcccC-------Cc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHH
Q 048799          226 HYGCLIDMLGRAGRLEQAEKVASGIPSE-------IT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLM  297 (331)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  297 (331)
                      .+-.++..+.+.|++++|...|+++...       .+ ...++..+..++.+.|++++|+..++++++++|+++.++..+
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl   86 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            3445666777777777777777766543       11 257788899999999999999999999999999998777766


Q ss_pred             HHH
Q 048799          298 YNI  300 (331)
Q Consensus       298 ~~~  300 (331)
                      ...
T Consensus        87 ~~~   89 (95)
T d1tjca_          87 KYF   89 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.31  E-value=1e-06  Score=60.55  Aligned_cols=76  Identities=7%  Similarity=-0.043  Sum_probs=46.1

Q ss_pred             HHHHHHHHhhcccC-CccHHHHHHHHHHHhcCC-----------chhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccC
Q 048799          240 LEQAEKVASGIPSE-ITNVVVWRTLLGACSFHG-----------NVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRY  307 (331)
Q Consensus       240 ~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g-----------~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  307 (331)
                      +++|...|+++.+. +.+..+|..+..+|...|           +++.|.+.|+++++++|++...+..+...       
T Consensus        57 ~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------  129 (145)
T d1zu2a1          57 IQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT-------  129 (145)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------
T ss_pred             HHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHH-------
Confidence            34555555555544 223455555555554433           46889999999999999985444444443       


Q ss_pred             cchHHHHHHHhhccc
Q 048799          308 GDAERLRRVVDERNA  322 (331)
Q Consensus       308 ~~a~~~~~~~~~~~~  322 (331)
                      .+|.+++.++.+.|+
T Consensus       130 ~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         130 AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HTHHHHHHHHHHSSS
T ss_pred             HHHHHHHHHHHHHhc
Confidence            356666666666553

>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=98.28  E-value=1.1e-06  Score=66.79  Aligned_cols=122  Identities=9%  Similarity=-0.065  Sum_probs=74.8

Q ss_pred             HhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc-HHHHHHHHHHHHccCChHHH
Q 048799           94 IWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN-LVSWTSIISGFAMHGMGKEA  172 (331)
Q Consensus        94 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a  172 (331)
                      ..+.|++++|+..+++.++..+.  +...+..++..++..|++++|...|+...+..|+ ...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~P~--d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKASPK--DASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            34667888888888888877544  7778888888888888888888888888776664 44454444444333333332


Q ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh
Q 048799          173 VENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEE  217 (331)
Q Consensus       173 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  217 (331)
                      ..-.......+.+++...+......+...|+.++|.+.++++.+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            222111111111222333444455566778888888888887765

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.26  E-value=3e-06  Score=58.08  Aligned_cols=96  Identities=11%  Similarity=-0.028  Sum_probs=47.5

Q ss_pred             hcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhc----------CCHhHHHHHHHHhhhcCC-cHHHHHHHHHHHH
Q 048799           96 QNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKC----------GCIFSALKLFEDISVERK-NLVSWTSIISGFA  164 (331)
Q Consensus        96 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~  164 (331)
                      +.+.+++|+..|+.+++..+.  +..++..+..++...          +.+++|+..|+++.+..| +..+|..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~P~--~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSNPL--DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCCc--chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHH
Confidence            334455555555555555332  445555555554432          233455555555555444 3455555555554


Q ss_pred             ccC-----------ChHHHHHHHHHHHhccCCCCHHHHHHHH
Q 048799          165 MHG-----------MGKEAVENFERMQKVVLKPNRVTFLSVL  195 (331)
Q Consensus       165 ~~~-----------~~~~a~~~~~~m~~~~~~p~~~~~~~l~  195 (331)
                      ..|           .+++|.+.|++..+  +.|+..+|..-+
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L  126 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSL  126 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHH
Confidence            332           24556666666555  345544444333

>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=98.22  E-value=0.0006  Score=53.08  Aligned_cols=249  Identities=11%  Similarity=-0.007  Sum_probs=149.7

Q ss_pred             cchhHHhhhcCCchHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCC
Q 048799            3 KDGSKLFDELPERNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEP   82 (331)
Q Consensus         3 ~~A~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   82 (331)
                      +.|..+|..+.     -|..++..+.+.++++.|.+++.+..  +..+|..+...+.+.....-+.     + .......
T Consensus        31 e~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~~--~~~~~k~~~~~l~~~~e~~la~-----i-~~~~~~~   97 (336)
T d1b89a_          31 DAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKAN--STRTWKEVCFACVDGKEFRLAQ-----M-CGLHIVV   97 (336)
T ss_dssp             TTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHHT--CHHHHHHHHHHHHHTTCHHHHH-----H-TTTTTTT
T ss_pred             HHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHcC--CHHHHHHHHHHHHhCcHHHHHH-----H-HHHHhhc
Confidence            34444444443     35667788888888888888887653  5668888888888877665432     2 1122335


Q ss_pred             chHHHHHHHHHHhhcCchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-CCc--------H
Q 048799           83 SEITILAVFPAIWQNGDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-RKN--------L  153 (331)
Q Consensus        83 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~--------~  153 (331)
                      ++.....++..|...|.+++...+++......  +.+...++.++.+|++.+ .++-.+.+...... ++.        .
T Consensus        98 ~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~--~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~~y~~~k~~~~c~~~  174 (336)
T d1b89a_          98 HADELEELINYYQDRGYFEELITMLEAALGLE--RAHMGMFTELAILYSKFK-PQKMREHLELFWSRVNIPKVLRAAEQA  174 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST--TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHSTTSCHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC--ccchHHHHHHHHHHHHhC-hHHHHHHHHhccccCCHHHHHHHHHHc
Confidence            66666788999999999999999999887542  327778889999999875 34444555443211 111        1


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHH
Q 048799          154 VSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDM  233 (331)
Q Consensus       154 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  233 (331)
                      ..|.-++-.|.+.|+++.|..++-   .  ..++.......+..+.+..+.+...++.....+.   .|  ...+.++..
T Consensus       175 ~l~~elv~Ly~~~~~~~~A~~~~i---~--~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~---~p--~~i~~lL~~  244 (336)
T d1b89a_         175 HLWAELVFLYDKYEEYDNAIITMM---N--HPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF---KP--LLLNDLLMV  244 (336)
T ss_dssp             TCHHHHHHHHHHTTCHHHHHHHHH---H--STTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH---CG--GGHHHHHHH
T ss_pred             CChHHHHHHHHhcCCHHHHHHHHH---H--cchhhhhHHHHHHHHHccCChHHHHHHHHHHHHc---CH--HHHHHHHHH
Confidence            113445555555666665554432   1  2233333344555666777777666666665553   23  334455555


Q ss_pred             HHhcCCHHHHHHHHhhcccC------------CccHHHHHHHHHHHhcCCchhHHH
Q 048799          234 LGRAGRLEQAEKVASGIPSE------------ITNVVVWRTLLGACSFHGNVEMGE  277 (331)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~------------~p~~~~~~~l~~~~~~~g~~~~a~  277 (331)
                      ....-++.+..+.+++-...            ..+..+.+.+...|...++++.-.
T Consensus       245 v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n~~~vn~al~~lyie~~d~~~l~  300 (336)
T d1b89a_         245 LSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALR  300 (336)
T ss_dssp             HGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcChHHHHHHHHHHHhCcchhHHHH
Confidence            55555555555555443222            134567777888888887765433

>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=98.19  E-value=5.2e-06  Score=62.96  Aligned_cols=128  Identities=12%  Similarity=-0.005  Sum_probs=84.9

Q ss_pred             HHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCC-cHhhHHHHHHHHHhcCCHH
Q 048799          163 FAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLP-DIKHYGCLIDMLGRAGRLE  241 (331)
Q Consensus       163 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~  241 (331)
                      ..+.|++++|+..+++.++.. +-+...+..+...++..|++++|...++...+.   .| +...+..+...+...+..+
T Consensus         6 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           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccH
Confidence            345688888888888877743 345677778888888888888888888888764   44 3445555555554444444


Q ss_pred             HHHHHHhhcccC-Cc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccH
Q 048799          242 QAEKVASGIPSE-IT-NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDY  294 (331)
Q Consensus       242 ~A~~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  294 (331)
                      ++..-....... .| +...+......+...|+.++|.+.++++.+..|..+..+
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~  136 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  136 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccc
Confidence            443333222211 23 334444556677888999999999999999888876543

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=98.15  E-value=9.6e-06  Score=56.32  Aligned_cols=66  Identities=14%  Similarity=-0.059  Sum_probs=43.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcccC-------Cc-----cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCC
Q 048799          225 KHYGCLIDMLGRAGRLEQAEKVASGIPSE-------IT-----NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGY  290 (331)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~p-----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  290 (331)
                      ..|+.+..+|...|++++|...+++....       .+     ....+..+..+|...|++++|+..|++++++.|..
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence            34555666666666666666655554422       11     12356677888889999999999999998876654

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=98.14  E-value=5.8e-06  Score=57.48  Aligned_cols=91  Identities=15%  Similarity=-0.011  Sum_probs=68.6

Q ss_pred             HHHHHhcCCHHHHHHHHhhcccC---Cc----------cHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCC------
Q 048799          231 IDMLGRAGRLEQAEKVASGIPSE---IT----------NVVVWRTLLGACSFHGNVEMGERVTRKILEMERGYG------  291 (331)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~---~p----------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~------  291 (331)
                      ...+.+.|++++|.+.|++....   .|          ....|+.+..+|...|++++|...+++++++.|...      
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            33445566677666666666543   11          246788899999999999999999999998654321      


Q ss_pred             -----ccHHHHHHHHhhhccCcchHHHHHHHhhcc
Q 048799          292 -----GDYVLMYNILAGVWRYGDAERLRRVVDERN  321 (331)
Q Consensus       292 -----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  321 (331)
                           ..+..++.+|...|++++|...|++..+..
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~  130 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMI  130 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence                 256778999999999999999999987653

>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=97.82  E-value=0.00012  Score=45.64  Aligned_cols=31  Identities=19%  Similarity=0.038  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHhhhcCC
Q 048799          121 HVSNCLIDTYAKCGCIFSALKLFEDISVERK  151 (331)
Q Consensus       121 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  151 (331)
                      .++..|..++.+.|++++|+..++++.+..|
T Consensus        47 ~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P   77 (95)
T d1tjca_          47 SVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhhHHHhcCChHHHHHHHHHHHHhCc
Confidence            3444455555555555555555555544444

>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=0.022  Score=37.37  Aligned_cols=79  Identities=13%  Similarity=-0.073  Sum_probs=34.6

Q ss_pred             CChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHh----cCCHHHHHHHHhhcccCCccHHHHHHHHHHHhc----CCch
Q 048799          202 GLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGR----AGRLEQAEKVASGIPSEITNVVVWRTLLGACSF----HGNV  273 (331)
Q Consensus       202 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~  273 (331)
                      .+.++|.+++++..+. |   ++.....|...|..    ..+.++|.++|++..+. -++.....|...|..    ..+.
T Consensus        37 ~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~-g~~~a~~~Lg~~y~~G~gv~~d~  111 (133)
T d1klxa_          37 INKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL-NDQDGCLILGYKQYAGKGVVKNE  111 (133)
T ss_dssp             SCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTSSSCCCH
T ss_pred             cCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhcc-CcchHHHHHHHHHHcCCccCCCH
Confidence            4455555555555443 2   22333333333332    23445555555555443 223333333333332    2355


Q ss_pred             hHHHHHHHHHHH
Q 048799          274 EMGERVTRKILE  285 (331)
Q Consensus       274 ~~a~~~~~~~~~  285 (331)
                      ++|.++|+++.+
T Consensus       112 ~~A~~~~~~Aa~  123 (133)
T d1klxa_         112 KQAVKTFEKACR  123 (133)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555544

>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=96.68  E-value=0.036  Score=36.29  Aligned_cols=15  Identities=20%  Similarity=0.248  Sum_probs=7.2

Q ss_pred             ChHHHHHHHHHHHHh
Q 048799          203 LVEEGLKFFDKMVEE  217 (331)
Q Consensus       203 ~~~~a~~~~~~~~~~  217 (331)
                      +.++|.++|++..+.
T Consensus       110 d~~~A~~~~~~Aa~~  124 (133)
T d1klxa_         110 NEKQAVKTFEKACRL  124 (133)
T ss_dssp             CHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHC
Confidence            444555555554443

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.62  E-value=0.011  Score=37.84  Aligned_cols=70  Identities=13%  Similarity=-0.062  Sum_probs=37.2

Q ss_pred             CchHHHHHHHHHHhhc---CchhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhcCCc
Q 048799           82 PSEITILAVFPAIWQN---GDVRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVERKN  152 (331)
Q Consensus        82 ~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  152 (331)
                      |+..|-....-+++++   .+.++++.+++.+.+.++.. ....+..|.-+|.+.|++++|.+.++.+.+..|+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~-~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~  105 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESR-RRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  105 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGG-HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchh-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            4444444444444433   23456666666666543221 2234445566666666666666666666655553

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=96.38  E-value=0.18  Score=40.71  Aligned_cols=115  Identities=10%  Similarity=-0.008  Sum_probs=72.6

Q ss_pred             CChHHHHHHHHHHHhccCCCCHHHHH----HHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHH
Q 048799          167 GMGKEAVENFERMQKVVLKPNRVTFL----SVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQ  242 (331)
Q Consensus       167 ~~~~~a~~~~~~m~~~~~~p~~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  242 (331)
                      .+.+.+..++........ .+.....    .+.......+..+.+...+......   ..+.......+......+++..
T Consensus       228 ~d~~~a~~~l~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~w~~~~al~~~~~~~  303 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRG  303 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHH
T ss_pred             cChhHHHHHHHhhhhccc-ccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccc---ccchHHHHHHHHHHHHcCChHH
Confidence            467788888877665432 2222222    2222333456677787777776654   2344444555555667789999


Q ss_pred             HHHHHhhcccCCc-cHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          243 AEKVASGIPSEIT-NVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       243 A~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      +...+..+..... ...-.-=+..++...|+.+.|...|..+..
T Consensus       304 ~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            9999998876622 222223356788889999999999988763

>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=96.35  E-value=0.054  Score=34.47  Aligned_cols=59  Identities=12%  Similarity=0.127  Sum_probs=35.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcccC-CccHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Q 048799          227 YGCLIDMLGRAGRLEQAEKVASGIPSE-ITNVVVWRTLLGACSFHGNVEMGERVTRKILE  285 (331)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  285 (331)
                      ...-++.+..+|+-+.-.++++.+.+. .|++.....+..+|.+.|...++-++++++-+
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe  148 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACK  148 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            344445556666666666666664334 56666666666666666666666666666654

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.12  E-value=0.031  Score=35.75  Aligned_cols=71  Identities=18%  Similarity=0.085  Sum_probs=48.8

Q ss_pred             CcHhhHHHHHHHHHhcC---CHHHHHHHHhhcccCCc-c-HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCc
Q 048799          222 PDIKHYGCLIDMLGRAG---RLEQAEKVASGIPSEIT-N-VVVWRTLLGACSFHGNVEMGERVTRKILEMERGYGG  292 (331)
Q Consensus       222 ~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p-~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  292 (331)
                      ++..+--....++.+..   +.+++..+++.+....| + ...+-.|.-+|.+.|++++|.+.++.+++.+|++..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~q  108 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  108 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHH
Confidence            44455555555666543   45677777777765433 3 356667777888889999999999999988888743

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.99  E-value=0.22  Score=31.65  Aligned_cols=68  Identities=9%  Similarity=0.002  Sum_probs=51.4

Q ss_pred             cHHHHHHHHHHHHccCChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCC
Q 048799          152 NLVSWTSIISGFAMHGMGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVL  221 (331)
Q Consensus       152 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  221 (331)
                      +...++..++.....|+-++-.++++.+.+. -.|++.....+..+|.+.|...++.+++.++-+. |++
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~-G~K  152 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK-GEK  152 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH-hHH
Confidence            3444566677788888888888888886664 4577777778888899999999998888888877 654

>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=93.31  E-value=1.5  Score=34.93  Aligned_cols=279  Identities=10%  Similarity=-0.002  Sum_probs=149.5

Q ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHhhCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCchHHHHHHHHHH
Q 048799           15 RNLVTWNVMITGLVKWGELEYARSLFEEMPCRNVVSWTGIIDGYTRMNRSNGALALFRRMVACEYTEPSEITILAVFPAI   94 (331)
Q Consensus        15 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~   94 (331)
                      .+...+-.-+......|++..|..+...+...........+....   +...+.......      .++......+..++
T Consensus       152 lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~---~p~~~~~~~~~~------~~~~~~~~~~~~~l  222 (450)
T d1qsaa1         152 QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLAN---NPNTVLTFARTT------GATDFTRQMAAVAF  222 (450)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHH---CGGGHHHHHHHS------CCCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHh---ChHhHHHHHhcC------CCChhhhHHHHHHH
Confidence            344444455666667788888888888776544444444444432   233333332221      22333322233333


Q ss_pred             hh--cCchhHHHHHHhhhhhcCCCcchhHHH---HHHHHHHHhcCCHhHHHHHHHHhhhcCCcHHHHHHHHHHHHccCCh
Q 048799           95 WQ--NGDVRNCQLIHGYGEKRGFNAFHIHVS---NCLIDTYAKCGCIFSALKLFEDISVERKNLVSWTSIISGFAMHGMG  169 (331)
Q Consensus        95 ~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  169 (331)
                      .+  ..+.+.+...+.......... .....   ..+...+...+..+.+...+........+.....-.+......+++
T Consensus       223 ~rla~~d~~~a~~~l~~~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~  301 (450)
T d1qsaa1         223 ASVARQDAENARLMIPSLAQAQQLN-EDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDR  301 (450)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHHTTCC-HHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHhccChhHHHHHHHhhhhccccc-HHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHHHHHcCCh
Confidence            22  346777777777766543322 22111   1222223345666777777776655544444434444445567888


Q ss_pred             HHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHHHHHhcCCHHHHHHHH-h
Q 048799          170 KEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLIDMLGRAGRLEQAEKVA-S  248 (331)
Q Consensus       170 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~-~  248 (331)
                      ..+...++.|-.. ......-.--+..++...|+.+.|...|..+..    .++  -|..|..  .+.|..-.   +- .
T Consensus       302 ~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa--~~Lg~~~~---~~~~  369 (450)
T d1qsaa1         302 RGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAA--QRIGEEYE---LKID  369 (450)
T ss_dssp             HHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHH--HHTTCCCC---CCCC
T ss_pred             HHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHH--HHcCCCCC---CCcC
Confidence            8888888877432 222334445577888888999999988888753    233  2333321  12222100   00 0


Q ss_pred             hcccCCccH---HHHHHHHHHHhcCCchhHHHHHHHHHHHhhcCCCccHHHHHHHHhhhccCcchHHHHHHH
Q 048799          249 GIPSEITNV---VVWRTLLGACSFHGNVEMGERVTRKILEMERGYGGDYVLMYNILAGVWRYGDAERLRRVV  317 (331)
Q Consensus       249 ~~~~~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  317 (331)
                      .........   ..-..-+..+...|+...|...+..+.+.  .++.....++....+.|.++.|+....+.
T Consensus       370 ~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~--~~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         370 KAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS--KSKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             CCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             CCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence            000000000   00112345566788888888888877642  23345666777778888888887766554

>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=92.68  E-value=0.55  Score=28.13  Aligned_cols=63  Identities=14%  Similarity=0.219  Sum_probs=49.2

Q ss_pred             ChHHHHHHHHHHHhccCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhcCCCCcHhhHHHHHH
Q 048799          168 MGKEAVENFERMQKVVLKPNRVTFLSVLNACSHGGLVEEGLKFFDKMVEECEVLPDIKHYGCLID  232 (331)
Q Consensus       168 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  232 (331)
                      +.-++.+-++.+....+.|++....+.+.+|.+.+++.-|.++|+....+.+  ++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            5557777777877788889999999999999999999999999998887633  34456666554

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=88.24  E-value=1.6  Score=26.08  Aligned_cols=60  Identities=7%  Similarity=0.006  Sum_probs=37.5

Q ss_pred             hhHHHHHHhhhhhcCCCcchhHHHHHHHHHHHhcCCHhHHHHHHHHhhhc-CCcHHHHHHHH
Q 048799          100 VRNCQLIHGYGEKRGFNAFHIHVSNCLIDTYAKCGCIFSALKLFEDISVE-RKNLVSWTSII  160 (331)
Q Consensus       100 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~  160 (331)
                      .-+..+-++.+......| ++.+..+-+++|.+.+++.-|.++|+.++.. .++...|..++
T Consensus        22 ~we~rrgmN~l~~~DlVP-eP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yil   82 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVP-EPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhccccCC-CcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            334555556666666666 7777777777777777777777777766544 23344454443