Citrus Sinensis ID: 017234

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-----
Protein Sequence
MALACRVLSVAKSSRYLLMPLRFDRLLCNTNTNSTSVSSSNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESWFIWKVGFRDK
Secondary Structure (PSIPRED)
cccHHHHHHHHHHccccccHHHHHHHHHcccccccccEEHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
MALACRVLSVAKSSRYLLMPLRFDRLlcntntnstsvsssnplisrllqvpvsqikttldsvdifafnssqfSWDALITSLQSSSPKKAQLVLEWRLDKmlkgnescLDEYACLIALSgkvqnvpfAMHVFTSmeaqgikpdsavFNSLICACLCSGDVVTALSLFEIMVSseeykpnsktydAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHgslkardfdSVDRFYEEMMslgiipsipILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDrlddveysvgrmgkqglsfksaedveMESWFIWKVGFRDK
Flexible Loop (DISEMBL)
malacrvlsvakssrylLMPLRFDRLLCNTNTnstsvsssnpliSRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSeeykpnsktYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSlgiipsipILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGrmgkqglsfksaedvemeswfiwkvgfrdk
Low Complexity Region (SEG)
MALACRVLSVAKSSRYLLMPLRFDRLLCntntnstsvsssnPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESWFIWKVGFRDK
Disordered region (IsUnstruct)
***ACRVLSVAKSSRYLLMPLRFDRLLCNTNT*********PLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSLQ*****KAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESWFIWKVGF***
Disordered Region (DISOPRED)
MALACRVLSVAKSSRYLLMPLRFDRLLCNTNTNSTSVSSSNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESWFIWKVGFRD*
Disordered Region (DISEMBL)
MALACRVLSVAKSSRYLLMPLRFDRLLCNTNT********NPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESWFIWKVGFRDK
Disordered Region (DISPRO)
MALACRVLSVAKSSRYLLMPLRFDRLLCNTNTNSTSVSSSNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESWFIWKV*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MALACRVLSVAKSSRYLLMPLRFDRLLCNTNTNSTSVSSSNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESWFIWKVGFRDK
Positional Conservation
no confident homologs detected

---

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	375	2.2.26 [Sep-21-2011]
Q0WVK7	741	Pentatricopeptide repeat-	yes	no	0.64	0.323	0.259	9e-17
Q9C6S6	840	Putative pentatricopeptid	no	no	0.661	0.295	0.266	5e-16
Q9M302	659	Pentatricopeptide repeat-	no	no	0.661	0.376	0.232	6e-16
Q8GWE0	702	Pentatricopeptide repeat-	no	no	0.757	0.404	0.249	8e-16
Q9SH26	577	Pentatricopeptide repeat-	no	no	0.538	0.350	0.263	4e-15
Q9CAN6	590	Pentatricopeptide repeat-	no	no	0.674	0.428	0.246	4e-15
Q9LQ16	632	Pentatricopeptide repeat-	no	no	0.538	0.319	0.273	9e-15
Q76C99	791	Protein Rf1, mitochondria	N/A	no	0.621	0.294	0.250	1e-14
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.650	0.387	0.234	3e-14
Q9FNL2	472	Pentatricopeptide repeat-	no	no	0.562	0.447	0.253	5e-14

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

 Score = 88.2 bits (217), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 63/243 (25%), Positives = 110/243 (45%), Gaps = 3/243 (1%)

Query: 111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMV 170
           Y  LI    K  ++  A   F  M ++ I PD   + ++I      GD+V A  LF  M 
Sbjct: 354 YTTLIDGFCKRGDIRAASKFFYEMHSRDITPDVLTYTAIISGFCQIGDMVEAGKLFHEMF 413

Query: 171 SSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDF 230
             +  +P+S T+   I+G+   G++    + +   I AG S NV TY +LI G  K  D 
Sbjct: 414 C-KGLEPDSVTFTELINGYCKAGHMKDAFRVHNHMIQAGCSPNVVTYTTLIDGLCKEGDL 472

Query: 231 DSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKL 290
           DS +    EM  +G+ P+I     ++ GLC    ++     +      G   +      L
Sbjct: 473 DSANELLHEMWKIGLQPNIFTYNSIVNGLCKSGNIEEAVKLVGEFEAAGLNADTVTYTTL 532

Query: 291 VKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ 350
           +  YC+ G +D+ +E L+ +      P ++   F+ ++  + L   L+D E  +  M  +
Sbjct: 533 MDAYCKSGEMDKAQEILKEMLGKGLQPTIVT--FNVLMNGFCLHGMLEDGEKLLNWMLAK 590

Query: 351 GLS 353
           G++
Sbjct: 591 GIA 593

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C6S6|PPR67_ARATH Putative pentatricopeptide repeat-containing protein At1g31840 OS=Arabidopsis thaliana GN=At1g31840 PE=2 SV=2

 Score = 85.9 bits (211), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 67/251 (26%), Positives = 113/251 (45%), Gaps = 3/251 (1%)

Query: 102 KGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVT 161
           +G E  L  Y+ LI    K   +     +F+    +G+K D  VF+S I   + SGD+ T
Sbjct: 315 RGIEPDLIAYSTLIDGYFKAGMLGMGHKLFSQALHKGVKLDVVVFSSTIDVYVKSGDLAT 374

Query: 162 ALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLI 221
           A  +++ M+  +   PN  TY   I G    G +      Y   +  G   ++ TY SLI
Sbjct: 375 ASVVYKRMLC-QGISPNVVTYTILIKGLCQDGRIYEAFGMYGQILKRGMEPSIVTYSSLI 433

Query: 222 HGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWK 281
            G  K  +  S    YE+M+ +G  P + I   +++GL  +  +     F   +LG   +
Sbjct: 434 DGFCKCGNLRSGFALYEDMIKMGYPPDVVIYGVLVDGLSKQGLMLHAMRFSVKMLGQSIR 493

Query: 282 INENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVE 341
           +N  +   L+  +C L R DE  +    +      P+V    F+ ++R+  +  RL++  
Sbjct: 494 LNVVVFNSLIDGWCRLNRFDEALKVFRLMGIYGIKPDVAT--FTTVMRVSIMEGRLEEAL 551

Query: 342 YSVGRMGKQGL 352
           +   RM K GL
Sbjct: 552 FLFFRMFKMGL 562

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M302|PP270_ARATH Pentatricopeptide repeat-containing protein At3g48810 OS=Arabidopsis thaliana GN=At3g48810 PE=2 SV=1

 Score = 85.5 bits (210), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 58/250 (23%), Positives = 106/250 (42%), Gaps = 2/250 (0%)

Query: 74  WDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTS 133
           ++ALI  L      K     E   + + KG    +  Y+ LI +      +  A    T 
Sbjct: 249 YNALINGLCKEHDYKG--AFELMREMVEKGISPNVISYSTLINVLCNSGQIELAFSFLTQ 306

Query: 134 MEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLG 193
           M  +G  P+    +SL+  C   G    AL L+  M+     +PN   Y+  + GF S G
Sbjct: 307 MLKRGCHPNIYTLSSLVKGCFLRGTTFDALDLWNQMIRGFGLQPNVVAYNTLVQGFCSHG 366

Query: 194 NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILE 253
           N+      ++     G S N++TY SLI+G  K    D     + +M++ G  P++ +  
Sbjct: 367 NIVKAVSVFSHMEEIGCSPNIRTYGSLINGFAKRGSLDGAVYIWNKMLTSGCCPNVVVYT 426

Query: 254 KVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKC 313
            ++E LC   K    +S ++ +       +       +K  C+ GR+D  E+    + + 
Sbjct: 427 NMVEALCRHSKFKEAESLIEIMSKENCAPSVPTFNAFIKGLCDAGRLDWAEKVFRQMEQQ 486

Query: 314 NQSPEVLLHF 323
           ++ P  ++ +
Sbjct: 487 HRCPPNIVTY 496

Arabidopsis thaliana (taxid: 3702)

>sp|Q8GWE0|PP314_ARATH Pentatricopeptide repeat-containing protein At4g16390, chloroplastic OS=Arabidopsis thaliana GN=P67 PE=1 SV=3

 Score = 85.1 bits (209), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 81/325 (24%), Positives = 139/325 (42%), Gaps = 41/325 (12%)

Query: 64  IFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQN 123
           I  F    F  DA++T    ++P+ A LVL   L+ M    E  L  Y   + +  K ++
Sbjct: 133 ITGFGGKLFEQDAVVTLNNMTNPETAPLVLNNLLETMKPSREVIL--YNVTMKVFRKSKD 190

Query: 124 VPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYD 183
           +  +  +F  M  +GIKPD+A F ++I     +G    A+  FE M SS   +P++ T  
Sbjct: 191 LEKSEKLFDEMLERGIKPDNATFTTIISCARQNGVPKRAVEWFEKM-SSFGCEPDNVTMA 249

Query: 184 AFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL 243
           A I  +   GNVD     Y       + ++  T+ +LI     + ++D     YEEM +L
Sbjct: 250 AMIDAYGRAGNVDMALSLYDRARTEKWRIDAVTFSTLIRIYGVSGNYDGCLNIYEEMKAL 309

Query: 244 GIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCY--------- 294
           G+ P++ I  ++++ +   ++  + K   K L+  G+  N +    LV+ Y         
Sbjct: 310 GVKPNLVIYNRLIDSMGRAKRPWQAKIIYKDLITNGFTPNWSTYAALVRAYGRARYGDDA 369

Query: 295 -------------------------CELGR-VDELEEQLETLTKCNQ-SPEVLLHFFSGI 327
                                    C   R VDE  E  + +  C    P+     FS +
Sbjct: 370 LAIYREMKEKGLSLTVILYNTLLSMCADNRYVDEAFEIFQDMKNCETCDPDSWT--FSSL 427

Query: 328 IRLYALSDRLDDVEYSVGRMGKQGL 352
           I +YA S R+ + E ++ +M + G 
Sbjct: 428 ITVYACSGRVSEAEAALLQMREAGF 452

Involved in chloroplast RNA processing. Could bind RNA.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SH26|PP102_ARATH Pentatricopeptide repeat-containing protein At1g63400 OS=Arabidopsis thaliana GN=At1g63400 PE=2 SV=1

 Score = 82.8 bits (203), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 54/205 (26%), Positives = 100/205 (48%), Gaps = 3/205 (1%)

Query: 127 AMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI 186
           A  ++  M  + I PD   ++SLI        +  A  +FE+M+S + + PN  TY+  I
Sbjct: 349 AEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCF-PNVVTYNTLI 407

Query: 187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGII 246
           +GF     +D   + +      G   N  TY +LIHG  +ARD D+    +++M+S G+ 
Sbjct: 408 NGFCKAKRIDEGVELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVH 467

Query: 247 PSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQ 306
           P+I     +L+GLC   KL++     ++L     +        +++  C+ G+V++  + 
Sbjct: 468 PNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDL 527

Query: 307 LETLTKCNQSPEVLLH--FFSGIIR 329
             +L+     P+V+++    SG  R
Sbjct: 528 FCSLSLKGVKPDVIIYNTMISGFCR 552

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN6|PPR97_ARATH Pentatricopeptide repeat-containing protein At1g63070, mitochondrial OS=Arabidopsis thaliana GN=At1g63070 PE=1 SV=1

 Score = 82.8 bits (203), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 73/296 (24%), Positives = 126/296 (42%), Gaps = 43/296 (14%)

Query: 73  SWDALITSLQSSSPKKAQLVLEWRLDKMLKGN-ESCLDEYACLIALSGKVQNVPFAMHVF 131
           ++ A+I  L         L L   L+KM KG  E+ +  Y  +I    K +++  A  +F
Sbjct: 217 TYGAVINGLCKRGEPDLALNL---LNKMEKGKIEADVVIYNTIIDGLCKYKHMDDAFDLF 273

Query: 132 TSMEAQGIKPDSAVFNSLICACLCS----------------------------------- 156
             ME +GIKPD   +N LI +CLC+                                   
Sbjct: 274 NKMETKGIKPDVFTYNPLI-SCLCNYGRWSDASRLLSDMLEKNINPDLVFFNALIDAFVK 332

Query: 157 -GDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQ 215
            G +V A  L++ MV S+   P+   Y+  I GF     V+   + +      G   N  
Sbjct: 333 EGKLVEAEKLYDEMVKSKHCFPDVVAYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTV 392

Query: 216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFL 275
           TY +LIHG  +ARD D+    +++M+S G+ P I     +L+GLC    ++      +++
Sbjct: 393 TYTTLIHGFFQARDCDNAQMVFKQMVSDGVHPDIMTYNILLDGLCNNGNVETALVVFEYM 452

Query: 276 LGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLH--FFSGIIR 329
                K++      +++  C+ G+V++  +   +L+     P V+ +    SG  R
Sbjct: 453 QKRDMKLDIVTYTTMIEALCKAGKVEDGWDLFCSLSLKGVKPNVVTYTTMMSGFCR 508

Arabidopsis thaliana (taxid: 3702)

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

 Score = 81.6 bits (200), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 56/205 (27%), Positives = 97/205 (47%), Gaps = 3/205 (1%)

Query: 127 AMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI 186
           A  ++  M  + I PD   ++SLI        +  A  +FE+M+S + + PN  TY   I
Sbjct: 347 AEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCF-PNVVTYSTLI 405

Query: 187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGII 246
            GF     V+   + +      G   N  TY +LIHG  +ARD D+    +++M+S+G+ 
Sbjct: 406 KGFCKAKRVEEGMELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVH 465

Query: 247 PSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQ 306
           P+I     +L+GLC   KL +     ++L     + +      +++  C+ G+V++  E 
Sbjct: 466 PNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCKAGKVEDGWEL 525

Query: 307 LETLTKCNQSPEVLLH--FFSGIIR 329
              L+    SP V+ +    SG  R
Sbjct: 526 FCNLSLKGVSPNVIAYNTMISGFCR 550

Arabidopsis thaliana (taxid: 3702)

>sp|Q76C99|RF1_ORYSI Protein Rf1, mitochondrial OS=Oryza sativa subsp. indica GN=Rf1 PE=2 SV=1

 Score = 81.3 bits (199), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 64/255 (25%), Positives = 111/255 (43%), Gaps = 22/255 (8%)

Query: 79  TSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYA-----CLIALSGKVQNVPFAMHVFTS 133
           T LQ  + K A + +   LD M++ N    D Y      C  A  GKV     AM VF+ 
Sbjct: 341 TLLQGYATKGALVEMHGLLDLMVR-NGIHPDHYVFSILICAYAKQGKVDQ---AMLVFSK 396

Query: 134 MEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLG 193
           M  QG+ P++  + ++I     SG V  A+  FE M+  E   P +  Y++ I G  +  
Sbjct: 397 MRQQGLNPNAVTYGAVIGILCKSGRVEDAMLYFEQMID-EGLSPGNIVYNSLIHGLCTC- 454

Query: 194 NVDAMNKWYAAN------IAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIP 247
                NKW  A       +  G  +N   + S+I    K       ++ +E M+ +G+ P
Sbjct: 455 -----NKWERAEELILEMLDRGICLNTIFFNSIIDSHCKEGRVIESEKLFELMVRIGVKP 509

Query: 248 SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQL 307
           ++     ++ G C   K+D     L  ++  G K N      L+  YC++ R+++     
Sbjct: 510 NVITYNTLINGYCLAGKMDEAMKLLSGMVSVGLKPNTVTYSTLINGYCKISRMEDALVLF 569

Query: 308 ETLTKCNQSPEVLLH 322
           + +     SP+++ +
Sbjct: 570 KEMESSGVSPDIITY 584

Reduces the expression of the cytoplasmic male sterility (CMS)-associated mitochondrial gene ORF79, encoding a cytotoxic peptide. Can restore male fertility by blocking ORF79 production via endonucleolytic cleavage of dicistronic ATP6/ORF79 mRNA. Promotes the editing of ATP6 mRNAs independently of its cleavage function.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q9CAN0|PPR99_ARATH Pentatricopeptide repeat-containing protein At1g63130, mitochondrial OS=Arabidopsis thaliana GN=At1g63130 PE=2 SV=1

 Score = 79.7 bits (195), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 58/247 (23%), Positives = 110/247 (44%), Gaps = 3/247 (1%)

Query: 66  AFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVP 125
            +    F+++ LI  L   +     + L  R+  ++KG +  L  Y  ++    K  ++ 
Sbjct: 181 GYQPDSFTFNTLIHGLFRHNRASEAVALVDRM--VVKGCQPDLVTYGIVVNGLCKRGDID 238

Query: 126 FAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF 185
            A+ +   ME   I+P   ++N++I A     +V  AL+LF  M  ++  +PN  TY++ 
Sbjct: 239 LALSLLKKMEQGKIEPGVVIYNTIIDALCNYKNVNDALNLFTEM-DNKGIRPNVVTYNSL 297

Query: 186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGI 245
           I    + G     ++  +  I    + NV T+ +LI   +K       ++ Y+EM+   I
Sbjct: 298 IRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSI 357

Query: 246 IPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEE 305
            P I     ++ G C   +LD  K   + ++      N      L+K +C+  RVDE  E
Sbjct: 358 DPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGME 417

Query: 306 QLETLTK 312
               +++
Sbjct: 418 LFREMSQ 424

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FNL2|PP418_ARATH Pentatricopeptide repeat-containing protein At5g46100 OS=Arabidopsis thaliana GN=At5g46100 PE=2 SV=1

 Score = 79.0 bits (193), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 54/213 (25%), Positives = 94/213 (44%), Gaps = 2/213 (0%)

Query: 111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICA-CLCSGDVVTALSLFEIM 169
           Y  ++A+  +   +  A   + +M   G+ P  A  N LI A C   G V   L +F + 
Sbjct: 124 YVTVLAILVEENQLNLAFKFYKNMREIGLPPTVASLNVLIKALCRNDGTVDAGLKIF-LE 182

Query: 170 VSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARD 229
           +      P+S TY   ISG    G +D   K +   +    +  V TY SLI+G   +++
Sbjct: 183 MPKRGCDPDSYTYGTLISGLCRFGRIDEAKKLFTEMVEKDCAPTVVTYTSLINGLCGSKN 242

Query: 230 FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQK 289
            D   R+ EEM S GI P++     +++GLC   +  +     + ++  G + N      
Sbjct: 243 VDEAMRYLEEMKSKGIEPNVFTYSSLMDGLCKDGRSLQAMELFEMMMARGCRPNMVTYTT 302

Query: 290 LVKCYCELGRVDELEEQLETLTKCNQSPEVLLH 322
           L+   C+  ++ E  E L+ +      P+  L+
Sbjct: 303 LITGLCKEQKIQEAVELLDRMNLQGLKPDAGLY 335

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	375
359476047	420	PREDICTED: pentatricopeptide repeat-cont	0.946	0.845	0.560	1e-105
224092342	424	predicted protein [Populus trichocarpa]	0.962	0.851	0.570	1e-105
147812171	1331	hypothetical protein VITISV_033964 [Viti	0.898	0.253	0.568	1e-103
255551056	416	pentatricopeptide repeat-containing prot	0.944	0.850	0.536	9e-97
356554511	421	PREDICTED: pentatricopeptide repeat-cont	0.850	0.757	0.545	2e-91
357436533	428	Pentatricopeptide repeat-containing prot	0.818	0.717	0.504	2e-75
449437306	320	PREDICTED: pentatricopeptide repeat-cont	0.826	0.968	0.455	7e-65
242042151	409	hypothetical protein SORBIDRAFT_01g04648	0.896	0.821	0.380	2e-56
357113964	413	PREDICTED: pentatricopeptide repeat-cont	0.845	0.767	0.403	2e-56
414864901	410	TPA: hypothetical protein ZEAMMB73_84309	0.882	0.807	0.367	6e-54

>gi|359476047|ref|XP_002281582.2| PREDICTED: pentatricopeptide repeat-containing protein At5g02860-like [Vitis vinifera] gi|296081891|emb|CBI20896.3| unnamed protein product [Vitis vinifera]

 Score =  389 bits (999), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 204/364 (56%), Positives = 256/364 (70%), Gaps = 9/364 (2%)

Query: 1   MALACRVLSVAKSS---RYLLMPLRFDRLLCNTNTNSTSVSSSNPLISRLLQVPVSQIKT 57
           M    RVLSVAK     R +L+P R  RL C+          SNPL+ +LLQ  +S+IKT
Sbjct: 1   MGFVLRVLSVAKRGLRPRLVLIPCRSQRLFCDKPL------VSNPLLIKLLQESISRIKT 54

Query: 58  TLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIAL 117
            LDS D F F SS FSWD L+T+L+SSSP KA LVLEWRL+KM++ NE  L  Y  LI L
Sbjct: 55  VLDSEDNFTFKSSDFSWDILLTTLKSSSPAKAHLVLEWRLEKMVRDNERDLVPYLELIFL 114

Query: 118 SGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKP 177
             KVQNVPFAM VF SMEA GIK  S+VFN+LI  CL SG+V+TALSLFEIM SSE  KP
Sbjct: 115 CSKVQNVPFAMRVFNSMEAHGIKLTSSVFNALIYTCLSSGNVMTALSLFEIMQSSENCKP 174

Query: 178 NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFY 237
           NS+TY+ FIS +S+LGN  AM  WY A   AGFS +++TYESLI G +++R+FD  DRFY
Sbjct: 175 NSETYNTFISVYSNLGNDKAMQAWYLAQKGAGFSADLRTYESLISGCVRSRNFDCADRFY 234

Query: 238 EEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCEL 297
           EEMM  GI+P+  ILE +L GLC +R + +V+  LKF++ G W+IN +MA+KL+  Y E 
Sbjct: 235 EEMMLSGIMPNGQILENILRGLCEQRSISKVEQLLKFMMDGEWEINVSMAEKLMGLYFEH 294

Query: 298 GRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSA 357
           G V+++EE L  L   NQS  VL     GIIR++A+ DRLDD+EYSVGRM KQG+SF+  
Sbjct: 295 GTVEKMEELLLNLMNSNQSFAVLQQVHCGIIRMHAMLDRLDDMEYSVGRMLKQGMSFRCP 354

Query: 358 EDVE 361
           +D+E
Sbjct: 355 DDIE 358

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224092342|ref|XP_002309567.1| predicted protein [Populus trichocarpa] gi|222855543|gb|EEE93090.1| predicted protein [Populus trichocarpa]

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 214/375 (57%), Positives = 266/375 (70%), Gaps = 14/375 (3%)

Query: 1   MALACR-VLSVAK-SSRY-----LLMPLRFDRLLCNTNTNSTSVSSSNPLISRLLQVPVS 53
           MAL  R V S+AK  SR      LL P+ F         + ++ SSS+PL+S+LLQ P S
Sbjct: 1   MALVLRGVPSLAKRGSRIPQIIQLLFPIPF-----QAQHSFSTASSSDPLLSKLLQTPTS 55

Query: 54  QIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYAC 113
           +I  TLDS   F   SSQ SWD LIT+L+SSSP+KA LVLEWRL +ML  NE   DEY+ 
Sbjct: 56  KIIITLDSDHSFNLKSSQLSWDPLITNLRSSSPEKAHLVLEWRLGRMLDDNEIDHDEYSS 115

Query: 114 LIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSE 173
           LI+L GK+QNV  AMHVF SMEA+GIKP ++VFNSL+ ACL S +V+TALSLFEIM +SE
Sbjct: 116 LISLCGKIQNVSLAMHVFASMEARGIKPTTSVFNSLLYACLLSSNVITALSLFEIMENSE 175

Query: 174 EYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSV 233
            YKPNS+TYD F++GFS+L +V+ M  W+    AAGFS ++Q YE LI G +KARDFD+ 
Sbjct: 176 SYKPNSETYDKFVAGFSNLRDVNKMQAWFVGKRAAGFSASLQNYECLISGCVKARDFDTA 235

Query: 234 DRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKC 293
           DR YEEMMSLGI+PS+ I+E VLEG C R   D+VK FL FLL   ++IN NM + +V+ 
Sbjct: 236 DRLYEEMMSLGIMPSLHIMEWVLEGHCKRGSCDKVKEFLNFLLECKFEINGNMIENVVRL 295

Query: 294 YCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLS 353
           Y ELG+VDE+E  LE L + NQ  E LL    GIIR YA+ D+LDDVE+SVGRM  QG+S
Sbjct: 296 YSELGKVDEMEMLLEMLMEFNQVGEALLQLHCGIIRFYAMLDKLDDVEFSVGRMMSQGMS 355

Query: 354 FKSAEDVE--MESWF 366
           FKS  DVE  + S+F
Sbjct: 356 FKSPSDVEKVISSYF 370

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147812171|emb|CAN61515.1| hypothetical protein VITISV_033964 [Vitis vinifera]

 Score =  380 bits (977), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 195/343 (56%), Positives = 244/343 (71%), Gaps = 6/343 (1%)

Query: 19   MPLRFDRLLCNTNTNSTSVSSSNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALI 78
            +P R  RL C+          SNPL+ +LLQ  +S+IKT LDS D F F SS FSWD L+
Sbjct: 933  IPQRSQRLFCDKPL------VSNPLLIKLLQESISRIKTVLDSEDNFTFKSSDFSWDILL 986

Query: 79   TSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQG 138
            T+L+SSSP KA LVLEWRL+KM++ NE  L  Y  LI L  KVQNVPFAM VF SMEA G
Sbjct: 987  TTLKSSSPAKAHLVLEWRLEKMVRDNERDLVPYLELIFLCSKVQNVPFAMRVFNSMEAHG 1046

Query: 139  IKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAM 198
            IK  S+VFN+LIC CL SG+V+TALSLFEIM SSE  KPNS+TY+ FIS +S+LGN  AM
Sbjct: 1047 IKLTSSVFNALICTCLSSGNVMTALSLFEIMQSSENCKPNSETYNTFISVYSNLGNDKAM 1106

Query: 199  NKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEG 258
              WY A   AGFS +++TYESLI G  ++R+FD  DRFYEEMM  GI+P   ILE +L G
Sbjct: 1107 QAWYLAXKGAGFSADLRTYESLISGCXRSRNFDCADRFYEEMMLSGIMPBGQILENILRG 1166

Query: 259  LCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPE 318
            LC +R + +V+  LKF++ G W+IN +MA+KL+  Y E G V+++EE L  L   NQS  
Sbjct: 1167 LCEQRSISKVEQLLKFMMDGEWEINVSMAEKLMGLYFEHGTVEKMEELLLNLMNSNQSFA 1226

Query: 319  VLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVE 361
            VL     GIIR++A+ DRLDD+EYSVGRM KQG+SF+  +D+E
Sbjct: 1227 VLQQVHCGIIRMHAMLDRLDDMEYSVGRMLKQGMSFRCPDDIE 1269

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255551056|ref|XP_002516576.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223544396|gb|EEF45917.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  360 bits (923), Expect = 9e-97,   Method: Compositional matrix adjust.
 Identities = 198/369 (53%), Positives = 253/369 (68%), Gaps = 15/369 (4%)

Query: 2   ALACRVLSVAK-SSRYLLMPLRFDRLLCNTNTNSTSVSSSNPLISRLLQVPVSQIKTTLD 60
           A+  RVLSVAK  S+ L +  +       +    T  +SSNPL+S+LLQ+P S+IK+TLD
Sbjct: 6   AVVRRVLSVAKLQSQSLQIHFK-------SKQQYTITNSSNPLLSKLLQLPNSKIKSTLD 58

Query: 61  SVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGK 120
           S      NSSQF +DAL+T+L SSSP+KA+LVLEWRLD MLK NE     Y+ LI+L  K
Sbjct: 59  S----DLNSSQFPFDALVTALASSSPEKARLVLEWRLDCMLKQNEIDHVHYSNLISLCAK 114

Query: 121 VQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCS-GDVVTALSLFEIMVSSEEYKPNS 179
           + NV  AM VFTSME  GI P++ VFNSLI  CL S  +V+TALSLFEIM  SE  KP+S
Sbjct: 115 IHNVSLAMRVFTSMEGNGIIPNTTVFNSLIQVCLSSISNVLTALSLFEIMDISEFCKPDS 174

Query: 180 KTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEE 239
           +TYD F+ GFS+L +V  M  W+AA  AAG++ NVQ YE LI   +K +D D  DR ++E
Sbjct: 175 QTYDTFVLGFSNLRDVVKMQAWFAAKKAAGYTANVQNYECLISTCVKTKDLDKADRLFDE 234

Query: 240 MMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGR 299
           MMS+G++PS  ILE VLEGLC RR  DRV+ FL FLL   ++ N NM +K+V+ Y ELG+
Sbjct: 235 MMSMGVMPSAAILEWVLEGLCKRRDCDRVRGFLNFLLECRFEFNGNMIEKIVELYSELGK 294

Query: 300 VDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAED 359
           VDE+E+ L+   + NQ  E L     GIIR YA +DRLDDVEYSVGRM   G+ F+S +D
Sbjct: 295 VDEMEKLLDICAEFNQVGETLSRLHCGIIRFYAKADRLDDVEYSVGRMTSSGMLFRSPDD 354

Query: 360 VE--MESWF 366
           VE  + S+F
Sbjct: 355 VEKVISSYF 363

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356554511|ref|XP_003545589.1| PREDICTED: pentatricopeptide repeat-containing protein At5g04810, chloroplastic-like [Glycine max]

 Score =  342 bits (876), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 175/321 (54%), Positives = 226/321 (70%), Gaps = 2/321 (0%)

Query: 42  PLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKML 101
           PL+ +LLQVP S IKTTLD  ++ +  SSQ SWD LITSL  SS  KA+L+LEW L+KML
Sbjct: 40  PLLLKLLQVPNSHIKTTLDQ-EMASLQSSQRSWDFLITSLSPSSSDKARLILEWILEKML 98

Query: 102 KGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVT 161
           K NE   D ++ LI L GKV++V   M VF+SMEA G+KP+S VFNSLI  CL S D+VT
Sbjct: 99  KENEKDRDLFSELIFLCGKVKDVMLGMRVFSSMEATGVKPNSLVFNSLISVCLSSHDIVT 158

Query: 162 ALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLI 221
           A+SLFEIM SSE YKP+  TY+ FIS FS  GNVDAM  WY+A  AA    ++Q +ESLI
Sbjct: 159 AVSLFEIMESSESYKPDFHTYNIFISAFSKSGNVDAMLAWYSAKKAARLGPDLQMFESLI 218

Query: 222 HGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWK 281
            G + +R F   DR +EEMM  GI+PS  I+E +L G+C +++L R + F  F +  GW+
Sbjct: 219 SGCVNSRKFKIADRIFEEMMISGIVPSASIIESMLNGICKQKRLGRAEEFFTFAMDSGWE 278

Query: 282 INENMAQKLVKCYCELGRVDELEEQLETLTK-CNQSPEVLLHFFSGIIRLYALSDRLDDV 340
           INENM  KLV  Y +LG+ +E+E  L+T+ K C  +  VL     GI+++YA+ DRLDD+
Sbjct: 279 INENMVDKLVAMYLQLGKAEEMEGLLKTMMKPCVTTTGVLTRIHCGIVKMYAMVDRLDDI 338

Query: 341 EYSVGRMGKQGLSFKSAEDVE 361
           E++VGRM KQGLSF SA+DVE
Sbjct: 339 EFAVGRMLKQGLSFTSADDVE 359

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357436533|ref|XP_003588542.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355477590|gb|AES58793.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  288 bits (738), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 156/309 (50%), Positives = 208/309 (67%), Gaps = 2/309 (0%)

Query: 53  SQIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYA 112
           S IK TLD  +  +  +S  S+D LITSL  SS +K  LVLEW L+K+LK N      ++
Sbjct: 49  SHIKPTLDH-EFPSLPTSLLSFDFLITSLSPSS-QKPNLVLEWILEKLLKENVKDHGRFS 106

Query: 113 CLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSS 172
            LI L GK++NV   ++VFTSME  G+KP S VFNSLI ACL S D+VTA SLFEIM SS
Sbjct: 107 ELIFLCGKLKNVQLGINVFTSMEGVGVKPTSLVFNSLISACLSSHDIVTAYSLFEIMESS 166

Query: 173 EEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDS 232
           E YKP+  TY+ FIS FS  GNVDAM  WY+A  A G   ++QT+ES+I G + +++++ 
Sbjct: 167 ENYKPDFHTYNNFISAFSKSGNVDAMLAWYSAKKATGLGPDLQTFESVISGCVNSKNYEI 226

Query: 233 VDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVK 292
            DR +EEM    +IP++ ILE +L+G C+++ L R   F KF+L   W+I+E MA  LV 
Sbjct: 227 ADRVFEEMKISEMIPNVTILESMLKGFCSQKSLCRANEFFKFVLDNRWQISETMAAMLVV 286

Query: 293 CYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGL 352
            Y E G+V+++EE LET+T       VL     GI+ +YA+ DRLD+VE SVGRM KQG+
Sbjct: 287 LYHEQGQVEKMEELLETITSYPIDSGVLSQIHCGIVTMYAMLDRLDEVELSVGRMLKQGM 346

Query: 353 SFKSAEDVE 361
           SF S++DVE
Sbjct: 347 SFTSSDDVE 355

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437306|ref|XP_004136433.1| PREDICTED: pentatricopeptide repeat-containing protein At2g16880-like [Cucumis sativus] gi|449517255|ref|XP_004165661.1| PREDICTED: pentatricopeptide repeat-containing protein At2g16880-like [Cucumis sativus]

 Score =  253 bits (647), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 144/316 (45%), Positives = 202/316 (63%), Gaps = 6/316 (1%)

Query: 1   MALACRV-LSVAKSSRYLLMPLRFDRLLCNTNTNSTSVSSSNPLISRLLQVPVSQIKTTL 59
           +ALA  V LSV   S+    PL F        +   S+S +NPL+ +LLQ P S +K+ L
Sbjct: 9   LALARNVSLSVPLQSQQPHYPLIFRGFF----STDPSISITNPLLLKLLQEPTSSVKSVL 64

Query: 60  DSVDIFAFNSSQFSWDALITSLQSSSP-KKAQLVLEWRLDKMLKGNESCLDEYACLIALS 118
           DS +     SS+ S +AL+TSL SSS  KKAQLVLEW+L+ M K NE  LD Y  LI L 
Sbjct: 65  DSQENGFLCSSRLSLNALVTSLISSSMLKKAQLVLEWKLENMSKKNERDLDFYINLICLC 124

Query: 119 GKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN 178
           GK++N   AM VF  ME QG+KP    FNSLI AC+ S +++TA S+FE+M +S+ +KPN
Sbjct: 125 GKLRNSSLAMRVFNVMEFQGVKPTVTAFNSLIEACISSNNMITAFSIFEVMKNSKNFKPN 184

Query: 179 SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYE 238
           + T+  FIS F+ L +V++M  WY+A  A  FS +++TYE+LIHGS+K+  FD   + +E
Sbjct: 185 TDTFYYFISAFAKLHDVNSMQAWYSAKKAFEFSPDLRTYEALIHGSVKSNCFDFGVKCFE 244

Query: 239 EMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELG 298
           EM+   I+P+  ILE +LEGLC R+  D VK FL  +L  GW+I+ N+ +K +  + E G
Sbjct: 245 EMILSDIVPNTIILENMLEGLCKRKNFDEVKKFLNVVLDNGWEIDWNVVEKFIPVWFESG 304

Query: 299 RVDELEEQLETLTKCN 314
            ++ ++E L  L K N
Sbjct: 305 ELEGMKEILTKLNKWN 320

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242042151|ref|XP_002468470.1| hypothetical protein SORBIDRAFT_01g046480 [Sorghum bicolor] gi|241922324|gb|EER95468.1| hypothetical protein SORBIDRAFT_01g046480 [Sorghum bicolor]

 Score =  226 bits (575), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 130/342 (38%), Positives = 202/342 (59%), Gaps = 6/342 (1%)

Query: 25  RLLCNTNTNSTSVSSSNP--LISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSL- 81
           RL     T + +V+S     L++RL+  P  ++K T++       +     W+ L  +L 
Sbjct: 9   RLWRGLGTAAAAVASGTDGNLLARLVSEPECRVKATMEEAASSGTHRDGAFWEPLAAALL 68

Query: 82  QSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKP 141
           ++SSP KA L+LEW L+K+LK N    + Y+ +I   G+ +N   AM VF  +EA+GI+ 
Sbjct: 69  RASSPTKAHLILEWELEKLLKENIQDCEPYSRIIRFCGQTRNATLAMRVFECVEAKGIQL 128

Query: 142 DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKW 201
           ++ +FN+LI A L +GD+++A++L+E M   +   PNS TYDAFI  FS LG+  AM  W
Sbjct: 129 NTNIFNALINAFLSAGDLLSAMTLYESMEDMDGCNPNSATYDAFICAFSLLGSGHAMMSW 188

Query: 202 YAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA 261
           Y A   AGF+ ++QT+ESLI G ++    D     +EEM++L I P+  ILE  LE L  
Sbjct: 189 YVAAKNAGFTPSIQTFESLITGFVQLNMLDDAKTIFEEMIALEIKPNSTILEASLEILYR 248

Query: 262 RRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQ-SPEVL 320
           + +  RV+ FLK +  G W++N+ +  +L +   + G +DE+E+ L  + K    S E  
Sbjct: 249 KEEASRVRDFLKRVSDGNWELNKAIVVRLTRICLDGGEIDEMEQLLALIQKGPHLSSETQ 308

Query: 321 LHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEM 362
           LH   GIIR YA +D+L D+E+++ RM   G+ F   EDVE+
Sbjct: 309 LH--HGIIRFYAKADQLADMEHAIYRMLDNGVVFMCPEDVEV 348

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357113964|ref|XP_003558771.1| PREDICTED: pentatricopeptide repeat-containing protein At2g48000-like [Brachypodium distachyon]

 Score =  226 bits (575), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 131/325 (40%), Positives = 196/325 (60%), Gaps = 8/325 (2%)

Query: 42  PLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSL-QSSSPKKAQLVLEWRLDKM 100
           PL++RL+  P  ++K T++     A +     W+ L  +L ++SS  KA LVLEW+L+K+
Sbjct: 30  PLLARLVAEPEFRVKATMEEASSSAPHRDAAFWEPLAAALLRASSLGKAHLVLEWKLEKL 89

Query: 101 LK---GNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSG 157
           LK    N SC + Y+ +I   G+ +N   AM VF  +EAQGI+ ++ +FN+LI A L  G
Sbjct: 90  LKEGVHNHSC-EPYSTIIRFCGETRNAALAMRVFEGVEAQGIQLNTGIFNALINAFLSVG 148

Query: 158 DVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTY 217
           D++ A++L+E M   E+ KP+S TYDAFIS FS +G+ DAM  WY A   A F  ++QT+
Sbjct: 149 DLLAAVTLYETMEGMEDCKPDSATYDAFISAFSRIGSGDAMMSWYLAAKNAEFIPSIQTF 208

Query: 218 ESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG 277
           ESLI G ++    D  +  +EEM+S  I P+  ILE  LE L   ++ +RVK F+K    
Sbjct: 209 ESLIVGLVRLNRLDDDEVVFEEMISFEIKPNFTILEAQLEVLSRTKEANRVKRFIKKFSD 268

Query: 278 GGWKINENMAQKLVKCYCELGRVDELEEQLETL-TKCNQSPEVLLHFFSGIIRLYALSDR 336
           G W++N+    +L +   +   VD++E+ L  + T  + S    LH  SGIIR YA +DR
Sbjct: 269 GNWELNKATVGRLTRLCLDGCEVDQMEQLLALIQTGVDLSSVTRLH--SGIIRFYASTDR 326

Query: 337 LDDVEYSVGRMGKQGLSFKSAEDVE 361
           L D+E ++ RM   G++F   EDVE
Sbjct: 327 LPDMENAICRMFDDGMTFMCPEDVE 351

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414864901|tpg|DAA43458.1| TPA: hypothetical protein ZEAMMB73_843092 [Zea mays]

 Score =  217 bits (553), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 123/335 (36%), Positives = 196/335 (58%), Gaps = 4/335 (1%)

Query: 30  TNTNSTSVSSSNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSL-QSSSPKK 88
           T   + ++ +   L +RL+  P  ++K T++       +     W+  +T+L ++SSP K
Sbjct: 16  TAAAAAALGTDGNLFARLVSEPECRVKATMEEAASSGTHRDGAFWEPPVTALLRASSPTK 75

Query: 89  AQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNS 148
           A L+LEW+L+K+LK +    + Y+ +I   G+ +N  FAM VF  +EA+GI+ ++ + N+
Sbjct: 76  AHLILEWKLEKLLKEDIQDCEPYSRIIRFCGQTRNATFAMRVFECVEAKGIQLNTNICNA 135

Query: 149 LICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAA 208
           L+ A L +GD+++A++L+E M S +   PNS TYDAFI  FS LG+  AM  WY A   A
Sbjct: 136 LVDAFLSAGDLLSAMTLYETMESMDACSPNSATYDAFICAFSLLGSGHAMMSWYVAAKNA 195

Query: 209 GFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRV 268
           GF+ ++Q +ESLI G ++    D     +EEM++L I P+  ILE  LE L  + +  RV
Sbjct: 196 GFTPSIQAFESLITGFVRLNMLDDAKTVFEEMIALEIKPNSTILEASLEILSRKEETSRV 255

Query: 269 KSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQ-SPEVLLHFFSGI 327
             FLK    G W++N+    +L +   + G +DE+E+ L  + K    + E  LH   GI
Sbjct: 256 GDFLKRARDGNWELNKATVVRLTRICLDGGVIDEMEQLLALIQKGTHLNSETQLH--HGI 313

Query: 328 IRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEM 362
           IR YA +DRL D+E ++ RM   G+ F   EDV++
Sbjct: 314 IRFYANADRLADMEDAIYRMLDNGVMFTCPEDVDV 348

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

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	375
TAIR|locus:2034528	840	AT1G31840 [Arabidopsis thalian	0.701	0.313	0.261	3.7e-15
TAIR|locus:2099458	659	AT3G48810 "AT3G48810" [Arabido	0.746	0.424	0.224	4.2e-15
TAIR|locus:2031301	577	AT1G63400 [Arabidopsis thalian	0.536	0.348	0.271	2.1e-14
TAIR|locus:2130549	702	SVR7 "suppressor of variegatio	0.618	0.330	0.271	2.3e-14
TAIR|locus:2015218	590	AT1G63070 [Arabidopsis thalian	0.541	0.344	0.263	6.4e-14
TAIR|locus:2161408	472	AT5G46100 "AT5G46100" [Arabido	0.56	0.444	0.266	2.6e-13
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.506	0.260	0.295	3.5e-13
TAIR|locus:2155730	915	AT5G65560 "AT5G65560" [Arabido	0.72	0.295	0.260	4.9e-13
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.650	0.387	0.248	7.7e-13
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.578	0.344	0.261	1.3e-12

TAIR|locus:2034528 AT1G31840 [Arabidopsis thaliana (taxid:3702)]

 Score = 220 (82.5 bits), Expect = 3.7e-15, P = 3.7e-15
 Identities = 70/268 (26%), Positives = 122/268 (45%)

Query:    87 KKAQLVLEWRLDKML--KGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSA 144
             K+ ++   + L K++  +G E  L  Y+ LI    K   +     +F+    +G+K D  
Sbjct:   298 KRGEMDRAFDLFKVMEQRGIEPDLIAYSTLIDGYFKAGMLGMGHKLFSQALHKGVKLDVV 357

Query:   145 VFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAA 204
             VF+S I   + SGD+ TA  +++ M+  +   PN  TY   I G    G +      Y  
Sbjct:   358 VFSSTIDVYVKSGDLATASVVYKRMLC-QGISPNVVTYTILIKGLCQDGRIYEAFGMYGQ 416

Query:   205 NIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRK 264
              +  G   ++ TY SLI G  K  +  S    YE+M+ +G  P + I   +++GL  +  
Sbjct:   417 ILKRGMEPSIVTYSSLIDGFCKCGNLRSGFALYEDMIKMGYPPDVVIYGVLVDGLSKQGL 476

Query:   265 LDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFF 324
             +     F   +LG   ++N  +   L+  +C L R DE  +    +      P+V    F
Sbjct:   477 MLHAMRFSVKMLGQSIRLNVVVFNSLIDGWCRLNRFDEALKVFRLMGIYGIKPDVAT--F 534

Query:   325 SGIIRLYALSDRLDDVEYSVGRMGKQGL 352
             + ++R+  +  RL++  +   RM K GL
Sbjct:   535 TTVMRVSIMEGRLEEALFLFFRMFKMGL 562

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2099458 AT3G48810 "AT3G48810" [Arabidopsis thaliana (taxid:3702)]

 Score = 218 (81.8 bits), Expect = 4.2e-15, P = 4.2e-15
 Identities = 64/285 (22%), Positives = 126/285 (44%)

Query:    74 WDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTS 133
             ++ALI  L      K     E   + + KG    +  Y+ LI +      +  A    T 
Sbjct:   249 YNALINGLCKEHDYKG--AFELMREMVEKGISPNVISYSTLINVLCNSGQIELAFSFLTQ 306

Query:   134 MEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLG 193
             M  +G  P+    +SL+  C   G    AL L+  M+     +PN   Y+  + GF S G
Sbjct:   307 MLKRGCHPNIYTLSSLVKGCFLRGTTFDALDLWNQMIRGFGLQPNVVAYNTLVQGFCSHG 366

Query:   194 NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILE 253
             N+      ++     G S N++TY SLI+G  K    D     + +M++ G  P++ +  
Sbjct:   367 NIVKAVSVFSHMEEIGCSPNIRTYGSLINGFAKRGSLDGAVYIWNKMLTSGCCPNVVVYT 426

Query:   254 KVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKC 313
              ++E LC   K    +S ++ +       +       +K  C+ GR+D  E+    + + 
Sbjct:   427 NMVEALCRHSKFKEAESLIEIMSKENCAPSVPTFNAFIKGLCDAGRLDWAEKVFRQMEQQ 486

Query:   314 NQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGR-MGKQGLSFKSA 357
             ++ P  ++ + + ++   A ++R+++  Y + R +  +G+ + S+
Sbjct:   487 HRCPPNIVTY-NELLDGLAKANRIEEA-YGLTREIFMRGVEWSSS 529

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0048445 "carpel morphogenesis" evidence=RCA

TAIR|locus:2031301 AT1G63400 [Arabidopsis thaliana (taxid:3702)]

 Score = 211 (79.3 bits), Expect = 2.1e-14, P = 2.1e-14
 Identities = 56/206 (27%), Positives = 102/206 (49%)

Query:   127 AMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVT-ALSLFEIMVSSEEYKPNSKTYDAF 185
             A  ++  M  + I PD   ++SLI    C  D +  A  +FE+M+S + + PN  TY+  
Sbjct:   349 AEKLYDEMIKRSIDPDIFTYSSLING-FCMHDRLDEAKHMFELMISKDCF-PNVVTYNTL 406

Query:   186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGI 245
             I+GF     +D   + +      G   N  TY +LIHG  +ARD D+    +++M+S G+
Sbjct:   407 INGFCKAKRIDEGVELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGV 466

Query:   246 IPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEE 305
              P+I     +L+GLC   KL++     ++L     +        +++  C+ G+V++  +
Sbjct:   467 HPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWD 526

Query:   306 QLETLTKCNQSPEVLLH--FFSGIIR 329
                +L+     P+V+++    SG  R
Sbjct:   527 LFCSLSLKGVKPDVIIYNTMISGFCR 552

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2130549 SVR7 "suppressor of variegation 7" [Arabidopsis thaliana (taxid:3702)]

 Score = 212 (79.7 bits), Expect = 2.3e-14, P = 2.3e-14
 Identities = 64/236 (27%), Positives = 112/236 (47%)

Query:    60 DSVDIFA-FNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALS 118
             D  D+   F    F  DA++T    ++P+ A LVL   L+ M    E  L  Y   + + 
Sbjct:   128 DVCDVITGFGGKLFEQDAVVTLNNMTNPETAPLVLNNLLETMKPSREVIL--YNVTMKVF 185

Query:   119 GKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN 178
              K +++  +  +F  M  +GIKPD+A F ++I     +G    A+  FE M SS   +P+
Sbjct:   186 RKSKDLEKSEKLFDEMLERGIKPDNATFTTIISCARQNGVPKRAVEWFEKM-SSFGCEPD 244

Query:   179 SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYE 238
             + T  A I  +   GNVD     Y       + ++  T+ +LI     + ++D     YE
Sbjct:   245 NVTMAAMIDAYGRAGNVDMALSLYDRARTEKWRIDAVTFSTLIRIYGVSGNYDGCLNIYE 304

Query:   239 EMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCY 294
             EM +LG+ P++ I  ++++ +   ++  + K   K L+  G+  N +    LV+ Y
Sbjct:   305 EMKALGVKPNLVIYNRLIDSMGRAKRPWQAKIIYKDLITNGFTPNWSTYAALVRAY 360

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009658 "chloroplast organization" evidence=IMP

GO:0045036 "protein targeting to chloroplast" evidence=RCA

GO:0031425 "chloroplast RNA processing" evidence=IMP

GO:0045727 "positive regulation of translation" evidence=IMP

TAIR|locus:2015218 AT1G63070 [Arabidopsis thaliana (taxid:3702)]

 Score = 207 (77.9 bits), Expect = 6.4e-14, P = 6.4e-14
 Identities = 54/205 (26%), Positives = 97/205 (47%)

Query:   127 AMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI 186
             A  + + M  + I PD   FN+LI A +  G +V A  L++ MV S+   P+   Y+  I
Sbjct:   304 ASRLLSDMLEKNINPDLVFFNALIDAFVKEGKLVEAEKLYDEMVKSKHCFPDVVAYNTLI 363

Query:   187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGII 246
              GF     V+   + +      G   N  TY +LIHG  +ARD D+    +++M+S G+ 
Sbjct:   364 KGFCKYKRVEEGMEVFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVH 423

Query:   247 PSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQ 306
             P I     +L+GLC    ++      +++     K++      +++  C+ G+V++  + 
Sbjct:   424 PDIMTYNILLDGLCNNGNVETALVVFEYMQKRDMKLDIVTYTTMIEALCKAGKVEDGWDL 483

Query:   307 LETLTKCNQSPEVLLH--FFSGIIR 329
               +L+     P V+ +    SG  R
Sbjct:   484 FCSLSLKGVKPNVVTYTTMMSGFCR 508

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 200 (75.5 bits), Expect = 2.6e-13, P = 2.6e-13
 Identities = 57/214 (26%), Positives = 97/214 (45%)

Query:   111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICA-CLCSGDVVTALSLFEIM 169
             Y  ++A+  +   +  A   + +M   G+ P  A  N LI A C   G V   L +F + 
Sbjct:   124 YVTVLAILVEENQLNLAFKFYKNMREIGLPPTVASLNVLIKALCRNDGTVDAGLKIF-LE 182

Query:   170 VSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARD 229
             +      P+S TY   ISG    G +D   K +   +    +  V TY SLI+G   +++
Sbjct:   183 MPKRGCDPDSYTYGTLISGLCRFGRIDEAKKLFTEMVEKDCAPTVVTYTSLINGLCGSKN 242

Query:   230 FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCAR-RKLDRVKSFLKFLLGGGWKINENMAQ 288
              D   R+ EEM S GI P++     +++GLC   R L  ++ F + ++  G + N     
Sbjct:   243 VDEAMRYLEEMKSKGIEPNVFTYSSLMDGLCKDGRSLQAMELF-EMMMARGCRPNMVTYT 301

Query:   289 KLVKCYCELGRVDELEEQLETLTKCNQSPEVLLH 322
              L+   C+  ++ E  E L+ +      P+  L+
Sbjct:   302 TLITGLCKEQKIQEAVELLDRMNLQGLKPDAGLY 335

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2173403 AT5G64320 "AT5G64320" [Arabidopsis thaliana (taxid:3702)]

 Score = 202 (76.2 bits), Expect = 3.5e-13, P = 3.5e-13
 Identities = 57/193 (29%), Positives = 88/193 (45%)

Query:   111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVT-ALSLFEIM 169
             + CLI+   K   +P A+ +F  M  +G KPD   FNSLI   LC  D +  AL L   M
Sbjct:   462 FNCLISAFCKEHRIPEAVEIFREMPRKGCKPDVYTFNSLISG-LCEVDEIKHALWLLRDM 520

Query:   170 VSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARD 229
             +S E    N+ TY+  I+ F   G +    K     +  G  ++  TY SLI G  +A +
Sbjct:   521 IS-EGVVANTVTYNTLINAFLRRGEIKEARKLVNEMVFQGSPLDEITYNSLIKGLCRAGE 579

Query:   230 FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQK 289
              D     +E+M+  G  PS      ++ GLC    ++    F K ++  G   +      
Sbjct:   580 VDKARSLFEKMLRDGHAPSNISCNILINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNS 639

Query:   290 LVKCYCELGRVDE 302
             L+   C  GR+++
Sbjct:   640 LINGLCRAGRIED 652

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2155730 AT5G65560 "AT5G65560" [Arabidopsis thaliana (taxid:3702)]

 Score = 202 (76.2 bits), Expect = 4.9e-13, P = 4.9e-13
 Identities = 74/284 (26%), Positives = 122/284 (42%)

Query:    73 SWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLI-ALSGKVQNVPFAMHVF 131
             ++  LI SL  S  K   L L   +++   G +  +  Y  LI +L  + +    A  + 
Sbjct:   325 TYTVLIKSLCGSERKSEALNLVKEMEET--GIKPNIHTYTVLIDSLCSQCK-FEKARELL 381

Query:   132 TSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSS 191
               M  +G+ P+   +N+LI      G +  A+ + E+M  S +  PN++TY+  I G+  
Sbjct:   382 GQMLEKGLMPNVITYNALINGYCKRGMIEDAVDVVELM-ESRKLSPNTRTYNELIKGYCK 440

Query:   192 LGNVDAM---NKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPS 248
                  AM   NK     +      +V TY SLI G  ++ +FDS  R    M   G++P 
Sbjct:   441 SNVHKAMGVLNKMLERKVLP----DVVTYNSLIDGQCRSGNFDSAYRLLSLMNDRGLVPD 496

Query:   249 IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLE 308
                   +++ LC  ++++        L   G   N  M   L+  YC+ G+VDE    LE
Sbjct:   497 QWTYTSMIDSLCKSKRVEEACDLFDSLEQKGVNPNVVMYTALIDGYCKAGKVDEAHLMLE 556

Query:   309 TLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGL 352
              +   N  P  L   F+ +I       +L +      +M K GL
Sbjct:   557 KMLSKNCLPNSLT--FNALIHGLCADGKLKEATLLEEKMVKIGL 598

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015494 RPF3 "RNA processing factor 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 198 (74.8 bits), Expect = 7.7e-13, P = 7.7e-13
 Identities = 62/250 (24%), Positives = 108/250 (43%)

Query:    97 LDKMLKGN-ESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLC 155
             L KM KG  E+ +  Y  +I      +NV  A+++FT M+ +GI+P+   +NSLI  CLC
Sbjct:   243 LKKMEKGKIEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLI-RCLC 301

Query:   156 S-GDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNV 214
             + G    A  L   M+   +  PN  T+ A I  F   G +    K Y   I      ++
Sbjct:   302 NYGRWSDASRLLSDMIE-RKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDI 360

Query:   215 QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKF 274
              TY SLI+G       D     +E M+S    P++     +++G C  ++++      + 
Sbjct:   361 FTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMELFRE 420

Query:   275 LLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLH--FFSGIIRLYA 332
             +   G   N      L++   + G  D  ++  + +      P+++ +     G+ +   
Sbjct:   421 MSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKYGK 480

Query:   333 LSDRLDDVEY 342
             L   L   EY
Sbjct:   481 LEKALVVFEY 490

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

TAIR|locus:2015208 AT1G63130 [Arabidopsis thaliana (taxid:3702)]

 Score = 196 (74.1 bits), Expect = 1.3e-12, P = 1.3e-12
 Identities = 58/222 (26%), Positives = 105/222 (47%)

Query:   111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVT-ALSLFEIM 169
             ++ LI    K   +  A  ++  M  + I PD   ++SLI    C  D +  A  +FE+M
Sbjct:   329 FSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLING-FCMHDRLDEAKHMFELM 387

Query:   170 VSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARD 229
             +S + + PN  TY+  I GF     VD   + +      G   N  TY +LIHG  +AR+
Sbjct:   388 ISKDCF-PNVVTYNTLIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARE 446

Query:   230 FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQK 289
              D+    +++M+S G++P I     +L+GLC   K++      ++L     + +      
Sbjct:   447 CDNAQIVFKQMVSDGVLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPDIYTYNI 506

Query:   290 LVKCYCELGRVDELEEQLETLTKCNQSPEVLLH--FFSGIIR 329
             +++  C+ G+V++  +   +L+     P V+ +    SG  R
Sbjct:   507 MIEGMCKAGKVEDGWDLFCSLSLKGVKPNVVTYTTMMSGFCR 548

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00032475001 SubName- Full=Chromosome chr4 scaffold_6, whole genome shotgun sequence; (420 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	375
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	6e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.003

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

 Score = 53.0 bits (127), Expect = 1e-07
 Identities = 38/157 (24%), Positives = 69/157 (43%), Gaps = 4/157 (2%)

Query: 109 DE--YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLF 166
           DE  ++ L+ ++G   ++  A  +      QGIK  +  ++SL+ AC  + +   AL L+
Sbjct: 648 DEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELY 707

Query: 167 EIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLK 226
           E + S  + +P   T +A I+       +    +  +     G   N  TY  L+  S +
Sbjct: 708 EDIKSI-KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASER 766

Query: 227 ARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARR 263
             D D       +    GI P+  ++ + + GLC RR
Sbjct: 767 KDDADVGLDLLSQAKEDGIKPN-LVMCRCITGLCLRR 802

Length = 1060

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

 Score = 46.6 bits (112), Expect = 3e-07
 Identities = 19/49 (38%), Positives = 21/49 (42%), Gaps = 1/49 (2%)

Query: 141 PDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGF 189
           PD   +N+LI      G V  AL LF  M      KPN  TY   I G 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKR-GIKPNVYTYSILIDGL 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 = 50.6 bits (121), Expect = 1e-06
 Identities = 44/174 (25%), Positives = 73/174 (41%), Gaps = 3/174 (1%)

Query: 77  LITSLQSSSPK--KAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSM 134
           L T+L S+  K  K   + E   + +  G E+ +  +  LI    +   V  A   +  M
Sbjct: 474 LYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIM 533

Query: 135 EAQGIKPDSAVFNSLICACLCSGDVVTALS-LFEIMVSSEEYKPNSKTYDAFISGFSSLG 193
            ++ +KPD  VFN+LI AC  SG V  A   L E+   +    P+  T  A +   ++ G
Sbjct: 534 RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAG 593

Query: 194 NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIP 247
            VD   + Y            + Y   ++   +  D+D     Y++M   G+ P
Sbjct: 594 QVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKP 647

Length = 1060

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

 Score = 46.0 bits (109), Expect = 3e-05
 Identities = 26/70 (37%), Positives = 31/70 (44%), Gaps = 2/70 (2%)

Query: 115 IALSGKVQ--NVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSS 172
           I L+G V       A+ +F  M   G+ PD   F SL+CAC  SG V   L  F  M   
Sbjct: 559 ILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEK 618

Query: 173 EEYKPNSKTY 182
               PN K Y
Sbjct: 619 YSITPNLKHY 628

Length = 857

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

 Score = 44.5 bits (105), Expect = 7e-05
 Identities = 29/87 (33%), Positives = 42/87 (48%), Gaps = 1/87 (1%)

Query: 141 PDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNK 200
           P  + FN L+  C  S D+  AL +   +V     K + K Y   IS  +  G VDAM +
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLR-LVQEAGLKADCKLYTTLISTCAKSGKVDAMFE 493

Query: 201 WYAANIAAGFSVNVQTYESLIHGSLKA 227
            +   + AG   NV T+ +LI G  +A
Sbjct: 494 VFHEMVNAGVEANVHTFGALIDGCARA 520

Length = 1060

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

 Score = 43.7 bits (103), Expect = 1e-04
 Identities = 24/92 (26%), Positives = 43/92 (46%), Gaps = 1/92 (1%)

Query: 104 NESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTAL 163
               L  +  L+++    Q++  A+ V   ++  G+K D  ++ +LI  C  SG V    
Sbjct: 433 RNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMF 492

Query: 164 SLFEIMVSSEEYKPNSKTYDAFISGFSSLGNV 195
            +F  MV++   + N  T+ A I G +  G V
Sbjct: 493 EVFHEMVNA-GVEANVHTFGALIDGCARAGQV 523

Length = 1060

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

 Score = 42.2 bits (99), Expect = 4e-04
 Identities = 32/162 (19%), Positives = 65/162 (40%), Gaps = 1/162 (0%)

Query: 111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMV 170
              L+        V  A  V+  +    IK    V+   + +C   GD   ALS+++ M 
Sbjct: 582 VGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDM- 640

Query: 171 SSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDF 230
             +  KP+   + A +      G++D   +        G  +   +Y SL+     A+++
Sbjct: 641 KKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNW 700

Query: 231 DSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFL 272
                 YE++ S+ + P++  +  ++  LC   +L +    L
Sbjct: 701 KKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVL 742

Length = 1060

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

 Score = 41.4 bits (97), Expect = 6e-04
 Identities = 26/127 (20%), Positives = 52/127 (40%), Gaps = 1/127 (0%)

Query: 123 NVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTY 182
           +  FA+ ++  M+ +G+KPD   F++L+     +GD+  A  + +     +  K  + +Y
Sbjct: 629 DWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA-RKQGIKLGTVSY 687

Query: 183 DAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMS 242
            + +   S+  N     + Y    +      V T  +LI    +            EM  
Sbjct: 688 SSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR 747

Query: 243 LGIIPSI 249
           LG+ P+ 
Sbjct: 748 LGLCPNT 754

Length = 1060

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

 Score = 36.8 bits (86), Expect = 6e-04
 Identities = 12/34 (35%), Positives = 18/34 (52%)

Query: 214 VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIP 247
           ++TY +L+    KA D D      EEM + G+ P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 36.3 bits (85), Expect = 7e-04
 Identities = 12/34 (35%), Positives = 17/34 (50%)

Query: 216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSI 249
           TY +LI G  KA   +     ++EM   GI P +
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 36.6 bits (86), Expect = 8e-04
 Identities = 16/47 (34%), Positives = 21/47 (44%)

Query: 177 PNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHG 223
           P+  TY+  I G+   G V+   K +      G   NV TY  LI G
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

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

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

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 6/51 (11%)

Query: 213 NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIP---ILEKVLEGLC 260
           +V TY +LI G  K    +   + + EM   GI P++    IL   ++GLC
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSIL---IDGLC 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	375
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.9
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.87
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.86
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.77
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.72
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.69
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.67
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.66
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.65
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.63
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.62
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.62
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.61
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.59
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.59
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.56
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.56
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.56
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.55
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.53
PRK14574	822	hmsH outer membrane protein; Provisional	99.51
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.49
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.47
KOG1126	638	consensus DNA-binding cell division cycle control	99.46
PF13041	50	PPR_2: PPR repeat family	99.46
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.45
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.44
PRK14574	822	hmsH outer membrane protein; Provisional	99.43
PRK12370	553	invasion protein regulator; Provisional	99.43
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.43
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.43
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.43
PF13041	50	PPR_2: PPR repeat family	99.41
PRK12370	553	invasion protein regulator; Provisional	99.37
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.36
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.35
KOG1126	638	consensus DNA-binding cell division cycle control	99.34
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.33
KOG1129	478	consensus TPR repeat-containing protein [General f	99.31
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.3
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.3
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.3
KOG2076	895	consensus RNA polymerase III transcription factor	99.22
KOG1129	478	consensus TPR repeat-containing protein [General f	99.21
KOG2003	840	consensus TPR repeat-containing protein [General f	99.19
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.17
KOG2076	895	consensus RNA polymerase III transcription factor	99.15
PRK11189	296	lipoprotein NlpI; Provisional	99.11
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.1
PRK11189	296	lipoprotein NlpI; Provisional	99.09
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.09
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.08
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.06
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.05
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.02
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.02
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.98
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.97
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.97
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.94
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.94
KOG2003	840	consensus TPR repeat-containing protein [General f	98.94
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.9
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.89
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.88
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.88
PF12854	34	PPR_1: PPR repeat	98.87
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.86
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.86
PF12854	34	PPR_1: PPR repeat	98.83
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.76
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.72
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.71
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.68
PLN02789	320	farnesyltranstransferase	98.68
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.65
PLN02789	320	farnesyltranstransferase	98.65
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.65
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.62
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.61
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.59
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.57
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.55
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.54
KOG1125	579	consensus TPR repeat-containing protein [General f	98.52
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.5
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.49
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.47
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.45
PRK04841	903	transcriptional regulator MalT; Provisional	98.44
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.44
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.43
PRK15359	144	type III secretion system chaperone protein SscB;	98.41
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.41
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.4
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.38
PRK15359	144	type III secretion system chaperone protein SscB;	98.36
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.36
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.36
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.35
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.34
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.32
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.32
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.31
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.31
PRK04841	903	transcriptional regulator MalT; Provisional	98.3
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.3
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.29
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.29
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.28
KOG1125	579	consensus TPR repeat-containing protein [General f	98.28
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.27
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.26
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.25
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.25
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.24
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.24
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.23
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.23
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.23
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.21
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.2
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.15
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.15
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.14
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.12
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.11
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.11
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.1
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.07
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.07
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.07
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.04
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.04
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	98.0
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.98
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.97
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.95
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.9
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.9
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.89
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.88
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.88
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.85
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.84
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.83
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.8
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.79
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.7
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.7
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.68
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.66
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.64
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.63
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.63
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.63
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.62
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.61
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.59
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.59
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.59
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.58
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.56
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.5
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.5
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.45
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.44
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.38
KOG0553	304	consensus TPR repeat-containing protein [General f	97.34
PF12688	120	TPR_5: Tetratrico peptide repeat	97.3
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.26
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.26
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.23
PF12688	120	TPR_5: Tetratrico peptide repeat	97.2
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.17
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.17
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.13
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.06
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.06
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.96
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.96
KOG0553	304	consensus TPR repeat-containing protein [General f	96.95
PRK10803	263	tol-pal system protein YbgF; Provisional	96.94
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.94
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.91
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.9
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.89
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.88
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.83
PRK10803	263	tol-pal system protein YbgF; Provisional	96.82
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.82
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.81
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.8
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.79
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.73
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.62
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.6
PF13371	73	TPR_9: Tetratricopeptide repeat	96.59
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.55
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.49
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.48
PF13371	73	TPR_9: Tetratricopeptide repeat	96.47
PRK15331	165	chaperone protein SicA; Provisional	96.29
KOG3941	406	consensus Intermediate in Toll signal transduction	96.24
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.21
KOG3941	406	consensus Intermediate in Toll signal transduction	96.17
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.14
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.0
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.98
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.97
PRK15331	165	chaperone protein SicA; Provisional	95.95
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.95
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.95
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.92
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.92
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.89
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.86
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.85
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.84
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.77
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.68
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.64
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.6
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.58
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.45
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.42
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.36
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.28
PF13512	142	TPR_18: Tetratricopeptide repeat	95.23
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.05
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.98
COG3898	531	Uncharacterized membrane-bound protein [Function u	94.95
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.86
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.85
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.72
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.72
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.48
PF13512	142	TPR_18: Tetratricopeptide repeat	94.44
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.34
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	94.32
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.26
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.17
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.16
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.14
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	94.08
KOG2041	1189	consensus WD40 repeat protein [General function pr	93.99
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.88
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.87
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.84
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.82
PF13428	44	TPR_14: Tetratricopeptide repeat	93.79
PF13929	292	mRNA_stabil: mRNA stabilisation	93.74
KOG4555	175	consensus TPR repeat-containing protein [Function	93.62
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	93.61
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.55
KOG4555	175	consensus TPR repeat-containing protein [Function	93.28
PRK11906	458	transcriptional regulator; Provisional	93.26
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.25
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.24
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.17
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.12
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.08
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.98
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.92
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.76
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.66
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	92.53
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.52
PF13428	44	TPR_14: Tetratricopeptide repeat	92.24
KOG1941	518	consensus Acetylcholine receptor-associated protei	91.81
COG0457	291	NrfG FOG: TPR repeat [General function prediction	91.67
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.52
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.47
KOG1585	308	consensus Protein required for fusion of vesicles	91.35
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.34
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	91.16
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	91.0
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	90.51
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.47
PF13929	292	mRNA_stabil: mRNA stabilisation	90.24
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	90.23
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.73
KOG1941	518	consensus Acetylcholine receptor-associated protei	89.47
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.2
KOG1585	308	consensus Protein required for fusion of vesicles	89.19
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	89.16
PF13431	34	TPR_17: Tetratricopeptide repeat	89.11
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	88.45
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	88.28
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.0
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	87.93
PRK11906	458	transcriptional regulator; Provisional	87.69
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	87.54
COG4455	273	ImpE Protein of avirulence locus involved in tempe	87.49
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	87.33
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	87.17
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	87.08
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	87.04
KOG2297	412	consensus Predicted translation factor, contains W	87.0
PF13431	34	TPR_17: Tetratricopeptide repeat	86.78
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	86.66
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	86.56
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	86.2
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.17
PF13762	145	MNE1: Mitochondrial splicing apparatus component	85.59
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	85.58
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.37
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	85.31
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	84.96
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	84.83
KOG0687	393	consensus 26S proteasome regulatory complex, subun	84.56
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	84.03
COG4455	273	ImpE Protein of avirulence locus involved in tempe	83.81
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	83.57
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	83.54
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	83.51
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	83.44
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	83.3
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	82.54
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	81.9
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	81.58
PHA02875	413	ankyrin repeat protein; Provisional	81.56
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	81.48
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	81.09
KOG1586	288	consensus Protein required for fusion of vesicles	80.94
COG1747	711	Uncharacterized N-terminal domain of the transcrip	80.87
KOG2582	422	consensus COP9 signalosome, subunit CSN3 [Posttran	80.76
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	80.47

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.4e-54  Score=423.17  Aligned_cols=327  Identities=18%  Similarity=0.220  Sum_probs=265.1

Q ss_pred             ccccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC-CCHHHH
Q 017234           35 TSVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE-SCLDEY  111 (375)
Q Consensus        35 ~~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~~~  111 (375)
                      |+..+||.||.+|++.++. .+.++++.|.+.|+.||..+|+++|.+ ++.|+.++|.++    +++|...+. ||..+|
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~v----f~eM~~~Gv~PdvvTy  510 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV----FHEMVNAGVEANVHTF  510 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHH----HHHHHHcCCCCCHHHH
Confidence            7788888888888888766 668888888888888888888888888 688888888888    667776665 788888


Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhC-CCCCCChhcHHHHHHHHH
Q 017234          112 ACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSS-EEYKPNSKTYDAFISGFS  190 (375)
Q Consensus       112 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~~ll~~~~  190 (375)
                      +.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|... .|+.||..+|++++.+|+
T Consensus       511 naLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~  590 (1060)
T PLN03218        511 GALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACA  590 (1060)
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHH
Confidence            8888888888888888888888888888888888888888888888888888888888642 467788888888888888


Q ss_pred             cCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 017234          191 SLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKS  270 (375)
Q Consensus       191 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  270 (375)
                      +.|++++|.++|++|.+.|+.|+..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+
T Consensus       591 k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~  670 (1060)
T PLN03218        591 NAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFE  670 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHH
Confidence            88888888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          271 FLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ++++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.|+..+  |+.+|.+|++.|++++|.++|++|.+.
T Consensus       671 l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~Pdvvt--yN~LI~gy~k~G~~eeAlelf~eM~~~  748 (1060)
T PLN03218        671 ILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVST--MNALITALCEGNQLPKALEVLSEMKRL  748 (1060)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHH--HHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            888888888888888888888888888888888888888888788887777  888888888888888888888888888


Q ss_pred             CCCccCchhHHHHHHHH
Q 017234          351 GLSFKSAEDVEMESWFI  367 (375)
Q Consensus       351 ~~~~~~~~~~~~~~~~~  367 (375)
                      |+.||..++..+++.+.
T Consensus       749 Gi~Pd~~Ty~sLL~a~~  765 (1060)
T PLN03218        749 GLCPNTITYSILLVASE  765 (1060)
T ss_pred             CCCCCHHHHHHHHHHHH
Confidence            88777666655555443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.1e-53  Score=418.59  Aligned_cols=327  Identities=15%  Similarity=0.164  Sum_probs=315.0

Q ss_pred             CCCCcccccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC-C
Q 017234           30 TNTNSTSVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE-S  106 (375)
Q Consensus        30 ~~~~~~~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~-~  106 (375)
                      ..+..|+..+||.||.+|++.+.. ++.++|++|.+.|+.||..+|+++|.+ ++.|++++|.++    +++|...+. |
T Consensus       465 ~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~l----f~~M~~~Gv~P  540 (1060)
T PLN03218        465 EAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGA----YGIMRSKNVKP  540 (1060)
T ss_pred             HcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHH----HHHHHHcCCCC
Confidence            457889999999999999999977 889999999999999999999999999 899999999999    788887776 9


Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHH--CCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEA--QGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDA  184 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~  184 (375)
                      |..+|+.+|.+|++.|++++|.++|++|.+  .|+.||..+|+.+|.+|++.|++++|.++|++|.+ .|+.|+..+|+.
T Consensus       541 D~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e-~gi~p~~~tyns  619 (1060)
T PLN03218        541 DRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHE-YNIKGTPEVYTI  619 (1060)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-cCCCCChHHHHH
Confidence            999999999999999999999999999986  68899999999999999999999999999999999 899999999999


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 017234          185 FISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRK  264 (375)
Q Consensus       185 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  264 (375)
                      +|.+|++.|++++|.++|++|.+.|+.||..+|++++.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|+
T Consensus       620 LI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~  699 (1060)
T PLN03218        620 AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN  699 (1060)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHH
Q 017234          265 LDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSV  344 (375)
Q Consensus       265 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  344 (375)
                      +++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.|+..+  |+.++.+|++.|++++|.++|
T Consensus       700 ~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~T--y~sLL~a~~k~G~le~A~~l~  777 (1060)
T PLN03218        700 WKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTIT--YSILLVASERKDDADVGLDLL  777 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHH--HHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999  999999999999999999999


Q ss_pred             HHHHhCCCCccCchhHHHH
Q 017234          345 GRMGKQGLSFKSAEDVEME  363 (375)
Q Consensus       345 ~~m~~~~~~~~~~~~~~~~  363 (375)
                      ++|.+.|+.|+...+..++
T Consensus       778 ~~M~k~Gi~pd~~tynsLI  796 (1060)
T PLN03218        778 SQAKEDGIKPNLVMCRCIT  796 (1060)
T ss_pred             HHHHHcCCCCCHHHHHHHH
Confidence            9999999988766555554

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

Probab=100.00  E-value=5.2e-48  Score=374.84  Aligned_cols=316  Identities=15%  Similarity=0.179  Sum_probs=233.5

Q ss_pred             CCcccccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHH
Q 017234           32 TNSTSVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLD  109 (375)
Q Consensus        32 ~~~~~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~  109 (375)
                      +..|+..+|+.++.+|++.+.. .+.+++..|.+.|+.||..+||.++.. ++.|++++|.++    |++|.   .||..
T Consensus       118 ~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~l----f~~m~---~~~~~  190 (697)
T PLN03081        118 PFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRL----FDEMP---ERNLA  190 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHH----HhcCC---CCCee
Confidence            3567888888888888888766 568888888888888888888888888 788888888888    56664   37888


Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHH
Q 017234          110 EYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGF  189 (375)
Q Consensus       110 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~  189 (375)
                      +|+++|.+|++.|++++|.++|++|.+.|+.|+..+|+.++.++++.|..+.+.+++..+.+ .|+.||..+|+.|+.+|
T Consensus       191 t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~-~g~~~d~~~~n~Li~~y  269 (697)
T PLN03081        191 SWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLK-TGVVGDTFVSCALIDMY  269 (697)
T ss_pred             eHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHH-hCCCccceeHHHHHHHH
Confidence            88888888888888888888888888888877777777777766666666666666666666 56667777777777777


Q ss_pred             HcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 017234          190 SSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVK  269 (375)
Q Consensus       190 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  269 (375)
                      ++.|++++|.++|++|.+    +|..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.
T Consensus       270 ~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~  345 (697)
T PLN03081        270 SKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAK  345 (697)
T ss_pred             HHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHH
Confidence            777777777777777643    4677777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          270 SFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      +++..|.+.|+.||..+|+.|+.+|++.|++++|.++|++|.+    |+..+  ||++|.+|++.|+.++|.++|++|.+
T Consensus       346 ~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t--~n~lI~~y~~~G~~~~A~~lf~~M~~  419 (697)
T PLN03081        346 QAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLIS--WNALIAGYGNHGRGTKAVEMFERMIA  419 (697)
T ss_pred             HHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeee--HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7777777777777777777777777777777777777776654    34444  77777777777777777777777777


Q ss_pred             CCCCccCchhHHHHHH
Q 017234          350 QGLSFKSAEDVEMESW  365 (375)
Q Consensus       350 ~~~~~~~~~~~~~~~~  365 (375)
                      .|+.||..+...+++.
T Consensus       420 ~g~~Pd~~T~~~ll~a  435 (697)
T PLN03081        420 EGVAPNHVTFLAVLSA  435 (697)
T ss_pred             hCCCCCHHHHHHHHHH
Confidence            7776655554444443

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

Probab=100.00  E-value=2.8e-47  Score=369.68  Aligned_cols=298  Identities=15%  Similarity=0.202  Sum_probs=202.9

Q ss_pred             CCCcccccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC-CC
Q 017234           31 NTNSTSVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE-SC  107 (375)
Q Consensus        31 ~~~~~~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~-~~  107 (375)
                      .+..|+..+||.|++.+++.+.. +|.++|++|.    .||..+||++|.+ ++.|++++|.++    +++|...+. ||
T Consensus       152 ~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~l----f~~M~~~g~~p~  223 (697)
T PLN03081        152 SGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFAL----FREMWEDGSDAE  223 (697)
T ss_pred             hCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHH----HHHHHHhCCCCC
Confidence            46778888889999888888866 7788888884    5888889888888 788888888888    556654443 44


Q ss_pred             -----------------------------------HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHH
Q 017234          108 -----------------------------------LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICA  152 (375)
Q Consensus       108 -----------------------------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  152 (375)
                                                         ..+|+++|.+|++.|++++|.++|++|.    ++|..+||.+|.+
T Consensus       224 ~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~  299 (697)
T PLN03081        224 PRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAG  299 (697)
T ss_pred             hhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHH
Confidence                                               4455556666666666666666666664    3466666666666


Q ss_pred             HHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHH
Q 017234          153 CLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDS  232 (375)
Q Consensus       153 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~  232 (375)
                      |++.|++++|.++|++|.+ .|+.||..||+.++.+|++.|++++|.+++++|.+.|+.||..+|++|+++|++.|++++
T Consensus       300 y~~~g~~~eA~~lf~~M~~-~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~  378 (697)
T PLN03081        300 YALHGYSEEALCLYYEMRD-SGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMED  378 (697)
T ss_pred             HHhCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHH
Confidence            6666666666666666665 566666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          233 VDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       233 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      |.++|++|.    .||..+||.||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+
T Consensus       379 A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~  454 (697)
T PLN03081        379 ARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSE  454 (697)
T ss_pred             HHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Confidence            666666664    3566666666666666666666666666666666666666666666666666666666666666654


Q ss_pred             -CCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHH
Q 017234          313 -CNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRM  347 (375)
Q Consensus       313 -~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  347 (375)
                       .|+.|+..+  |+.++++|++.|++++|.+++++|
T Consensus       455 ~~g~~p~~~~--y~~li~~l~r~G~~~eA~~~~~~~  488 (697)
T PLN03081        455 NHRIKPRAMH--YACMIELLGREGLLDEAYAMIRRA  488 (697)
T ss_pred             hcCCCCCccc--hHhHHHHHHhcCCHHHHHHHHHHC
Confidence             466666655  666666666666666666666554

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.1e-46  Score=370.52  Aligned_cols=316  Identities=16%  Similarity=0.150  Sum_probs=188.2

Q ss_pred             cccccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC-CCHHH
Q 017234           34 STSVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE-SCLDE  110 (375)
Q Consensus        34 ~~~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~~  110 (375)
                      .|+..+||.+|.+|++.+.. ++.++|.+|...|+.||..||+.+|.+ ++.|+.+.+.++    +..|...|. ||..+
T Consensus       250 ~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l----~~~~~~~g~~~d~~~  325 (857)
T PLN03077        250 RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREM----HGYVVKTGFAVDVSV  325 (857)
T ss_pred             CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHH----HHHHHHhCCccchHH
Confidence            45666666666666666654 666666667666667776666666666 566666666666    455555554 66666


Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHH
Q 017234          111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFS  190 (375)
Q Consensus       111 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~  190 (375)
                      |++++.+|++.|++++|.++|++|.    .||..+||.+|.+|++.|++++|.++|++|.+ .|+.||..||+.++.+|+
T Consensus       326 ~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~-~g~~Pd~~t~~~ll~a~~  400 (857)
T PLN03077        326 CNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQ-DNVSPDEITIASVLSACA  400 (857)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHH-hCCCCCceeHHHHHHHHh
Confidence            6666666666666666666666664    35666666666666666666666666666666 566666666666666666


Q ss_pred             cCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC---------------------------
Q 017234          191 SLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL---------------------------  243 (375)
Q Consensus       191 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~---------------------------  243 (375)
                      +.|++++|.++++.|.+.|+.|+..+|++|+.+|++.|++++|.++|++|.+.                           
T Consensus       401 ~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~  480 (857)
T PLN03077        401 CLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQ  480 (857)
T ss_pred             ccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHH
Confidence            66666666666666666666666666666666666666666666665555421                           


Q ss_pred             ---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchH
Q 017234          244 ---GIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVL  320 (375)
Q Consensus       244 ---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  320 (375)
                         ++.||..||+.++.+|++.|+++.+.+++..+.+.|+.+|..++++||++|++.|++++|.++|+.+     .++..
T Consensus       481 m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~  555 (857)
T PLN03077        481 MLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVV  555 (857)
T ss_pred             HHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChh
Confidence               2345555555555555555555555555544444444444333344444444444444444444443     23334


Q ss_pred             HHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHHHHH
Q 017234          321 LHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESW  365 (375)
Q Consensus       321 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~  365 (375)
                      +  ||++|.+|++.|+.++|.++|++|.+.|+.||..++..+++.
T Consensus       556 s--~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a  598 (857)
T PLN03077        556 S--WNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCA  598 (857)
T ss_pred             h--HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHH
Confidence            4  555555555555555555566555555555555554444443

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.1e-45  Score=366.68  Aligned_cols=315  Identities=17%  Similarity=0.174  Sum_probs=266.0

Q ss_pred             cccccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccH-----------------------------------HHH
Q 017234           34 STSVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSW-----------------------------------DAL   77 (375)
Q Consensus        34 ~~~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~-----------------------------------~~l   77 (375)
                      .|+..+||.+|.+|++.+.. ++.++|++|...|+.||..||                                   |+|
T Consensus       149 ~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~L  228 (857)
T PLN03077        149 ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNAL  228 (857)
T ss_pred             CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHH
Confidence            46777888888888887765 677777777777777766665                                   555


Q ss_pred             HHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcC
Q 017234           78 ITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCS  156 (375)
Q Consensus        78 i~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  156 (375)
                      |.+ ++.|++++|.++    |++|.   .||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.
T Consensus       229 i~~y~k~g~~~~A~~l----f~~m~---~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~  301 (857)
T PLN03077        229 ITMYVKCGDVVSARLV----FDRMP---RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELL  301 (857)
T ss_pred             HHHHhcCCCHHHHHHH----HhcCC---CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc
Confidence            555 566777777777    56664   3678888888888888888888888888888888888888888888888888


Q ss_pred             CChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHH
Q 017234          157 GDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRF  236 (375)
Q Consensus       157 g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~  236 (375)
                      |+.+.|.+++..|.+ .|+.||..+|+.++.+|++.|++++|.++|++|..    ||..+|+++|.+|++.|++++|.++
T Consensus       302 g~~~~a~~l~~~~~~-~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~l  376 (857)
T PLN03077        302 GDERLGREMHGYVVK-TGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALET  376 (857)
T ss_pred             CChHHHHHHHHHHHH-hCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHH
Confidence            888888888888888 78889999999999999999999999999988863    6888999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC
Q 017234          237 YEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQS  316 (375)
Q Consensus       237 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  316 (375)
                      |++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+|+.|+++|++.|++++|.++|++|.+.   
T Consensus       377 f~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~---  453 (857)
T PLN03077        377 YALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK---  453 (857)
T ss_pred             HHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCC---
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999998763   


Q ss_pred             CchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHHHHHHH
Q 017234          317 PEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESWFI  367 (375)
Q Consensus       317 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~  367 (375)
                       +..+  |+.+|.+|++.|+.++|..+|++|.. ++.||..+..++++.+.
T Consensus       454 -d~vs--~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~  500 (857)
T PLN03077        454 -DVIS--WTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACA  500 (857)
T ss_pred             -Ceee--HHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHh
Confidence             4445  99999999999999999999999975 58777777766666543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.90  E-value=3.7e-20  Score=168.91  Aligned_cols=290  Identities=14%  Similarity=0.035  Sum_probs=235.7

Q ss_pred             cchHHHHHHHhhhccCCC-CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC-C---CHHHHHHHHHHHhccCChh
Q 017234           52 VSQIKTTLDSVDIFAFNS-SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE-S---CLDEYACLIALSGKVQNVP  125 (375)
Q Consensus        52 ~~~~~~~~~~m~~~~~~p-~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~-~---~~~~~~~li~~~~~~~~~~  125 (375)
                      ..++...|.++...  .| +..+|..+... ...|++++|...+    +.+..... +   ...++..+...|.+.|+++
T Consensus        51 ~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~----~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~  124 (389)
T PRK11788         51 PDKAIDLFIEMLKV--DPETVELHLALGNLFRRRGEVDRAIRIH----QNLLSRPDLTREQRLLALQELGQDYLKAGLLD  124 (389)
T ss_pred             hHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCcHHHHHHHH----HHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            34788999999764  34 34567777777 7999999999994    55544332 2   2357889999999999999


Q ss_pred             HHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC----hhcHHHHHHHHHcCCCHHHHHHH
Q 017234          126 FAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN----SKTYDAFISGFSSLGNVDAMNKW  201 (375)
Q Consensus       126 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~  201 (375)
                      .|..+|+++.+.. +++..+++.++..+.+.|++++|.+.++.+.+ .+-.+.    ...+..+...+.+.|++++|...
T Consensus       125 ~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  202 (389)
T PRK11788        125 RAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEK-LGGDSLRVEIAHFYCELAQQALARGDLDAARAL  202 (389)
T ss_pred             HHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHH-hcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            9999999998763 45678999999999999999999999999987 322221    12355677788899999999999


Q ss_pred             HHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 017234          202 YAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWK  281 (375)
Q Consensus       202 ~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  281 (375)
                      |+++.+.... +...+..+...+.+.|++++|.++|+++.+.+......+++.++.+|...|++++|...++.+.+.  .
T Consensus       203 ~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~  279 (389)
T PRK11788        203 LKKALAADPQ-CVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--Y  279 (389)
T ss_pred             HHHHHhHCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--C
Confidence            9999886533 567888899999999999999999999997643333567889999999999999999999999876  4


Q ss_pred             cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHh---hCCHHHHHHHHHHHHhCCCCccC
Q 017234          282 INENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYAL---SDRLDDVEYSVGRMGKQGLSFKS  356 (375)
Q Consensus       282 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~~~~~~~  356 (375)
                      |+...+..++..+.+.|++++|..+++++.+.  .|+...  ++.++..+..   .|+.+++..++++|.++++.|+.
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~--~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRG--FHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHH--HHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence            67777788999999999999999999998875  577766  7777877764   56899999999999998887654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=2.4e-19  Score=163.55  Aligned_cols=268  Identities=14%  Similarity=0.068  Sum_probs=222.3

Q ss_pred             HHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcC---HhHHHHHHHHHH
Q 017234           78 ITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPD---SAVFNSLICACL  154 (375)
Q Consensus        78 i~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~  154 (375)
                      +.....|++++|...    +.++...++.+..++..+...+...|++++|..+++.+.+.+..++   ...+..+...|.
T Consensus        43 ~~~~~~~~~~~A~~~----~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~  118 (389)
T PRK11788         43 LNFLLNEQPDKAIDL----FIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYL  118 (389)
T ss_pred             HHHHhcCChHHHHHH----HHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            333688999999999    6677777777888999999999999999999999999987642222   356889999999


Q ss_pred             cCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCH----HhHHHHHHHHHccCCh
Q 017234          155 CSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNV----QTYESLIHGSLKARDF  230 (375)
Q Consensus       155 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~g~~  230 (375)
                      +.|++++|..+|+++.+.  -+++..++..++..+.+.|++++|.+.++.+.+.+..++.    ..+..+...+...|++
T Consensus       119 ~~g~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  196 (389)
T PRK11788        119 KAGLLDRAEELFLQLVDE--GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDL  196 (389)
T ss_pred             HCCCHHHHHHHHHHHHcC--CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCH
Confidence            999999999999999872  3456778999999999999999999999999987654322    2456777888999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 017234          231 DSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETL  310 (375)
Q Consensus       231 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  310 (375)
                      ++|...|+++.+.. +.+...+..+...+.+.|++++|.++++++.+.+-.....+++.++.+|...|++++|...++++
T Consensus       197 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  275 (389)
T PRK11788        197 DAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRA  275 (389)
T ss_pred             HHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999998764 33466788888999999999999999999987642222467889999999999999999999999


Q ss_pred             HhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCch
Q 017234          311 TKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAE  358 (375)
Q Consensus       311 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  358 (375)
                      .+..  |+...  +..++..+.+.|++++|..+++++.+.  .|+.+.
T Consensus       276 ~~~~--p~~~~--~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~  317 (389)
T PRK11788        276 LEEY--PGADL--LLALAQLLEEQEGPEAAQALLREQLRR--HPSLRG  317 (389)
T ss_pred             HHhC--CCchH--HHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHH
Confidence            8854  55555  688999999999999999999999876  344443

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

Probab=99.87  E-value=1.3e-18  Score=175.19  Aligned_cols=318  Identities=13%  Similarity=0.031  Sum_probs=257.4

Q ss_pred             cccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHH
Q 017234           36 SVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYAC  113 (375)
Q Consensus        36 ~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~  113 (375)
                      +...+..+...+...++. ++.++++.+.... ..+...|..+... ...|++++|...    ++++....+.+...+..
T Consensus       566 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~----~~~~~~~~~~~~~~~~~  640 (899)
T TIGR02917       566 EIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSS----FKKLLALQPDSALALLL  640 (899)
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHH----HHHHHHhCCCChHHHHH
Confidence            445666777888888866 7788888886433 3456778888888 799999999999    55665556667888999


Q ss_pred             HHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCC
Q 017234          114 LIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLG  193 (375)
Q Consensus       114 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~  193 (375)
                      +...+.+.|++++|...++++.+.. +.+..++..+...+...|++++|.++++.+.+ . .+++...+..+...+...|
T Consensus       641 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~g  717 (899)
T TIGR02917       641 LADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQK-Q-HPKAALGFELEGDLYLRQK  717 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh-h-CcCChHHHHHHHHHHHHCC
Confidence            9999999999999999999998764 44678999999999999999999999999987 3 3566778888889999999


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 017234          194 NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLK  273 (375)
Q Consensus       194 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  273 (375)
                      ++++|.+.|+++.+.+  |+..++..+..++.+.|++++|.+.++++.+.. +.+...+..+...|...|++++|...|+
T Consensus       718 ~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~  794 (899)
T TIGR02917       718 DYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYR  794 (899)
T ss_pred             CHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            9999999999998875  444777888999999999999999999998875 5567888889999999999999999999


Q ss_pred             HHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCC
Q 017234          274 FLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLS  353 (375)
Q Consensus       274 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  353 (375)
                      ++.+.. +.+..+++.+...+...|+ ++|...+++..+..  |+.... +..+...+...|++++|..+|+++.+.+  
T Consensus       795 ~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~--~~~~~~-~~~~~~~~~~~g~~~~A~~~~~~a~~~~--  867 (899)
T TIGR02917       795 TVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA--PNIPAI-LDTLGWLLVEKGEADRALPLLRKAVNIA--  867 (899)
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC--CCCcHH-HHHHHHHHHHcCCHHHHHHHHHHHHhhC--
Confidence            998875 5678889999999999999 88999999988754  333322 6778888999999999999999999865  


Q ss_pred             ccCchhHHHHHHHHHHhh
Q 017234          354 FKSAEDVEMESWFIWKVG  371 (375)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~  371 (375)
                      |..+.....+....+..|
T Consensus       868 ~~~~~~~~~l~~~~~~~g  885 (899)
T TIGR02917       868 PEAAAIRYHLALALLATG  885 (899)
T ss_pred             CCChHHHHHHHHHHHHcC
Confidence            446665555555544443

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=99.86  E-value=1e-17  Score=168.79  Aligned_cols=231  Identities=13%  Similarity=0.083  Sum_probs=115.6

Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHH
Q 017234          110 EYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGF  189 (375)
Q Consensus       110 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~  189 (375)
                      .+..++..+.+.|++++|..+++.+.+.. +.+...|..+..++.+.|++++|...|+++.+.  .+.+...+..+...+
T Consensus       569 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~  645 (899)
T TIGR02917       569 PALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLAL--QPDSALALLLLADAY  645 (899)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHH
Confidence            33333344444444444444444443321 223444444444444444444444444444431  122333344444444


Q ss_pred             HcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 017234          190 SSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVK  269 (375)
Q Consensus       190 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  269 (375)
                      .+.|++++|..+|+++.+.... +..++..+...+...|++++|.++++.+.+.+ +++...+..+...+...|++++|.
T Consensus       646 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~  723 (899)
T TIGR02917       646 AVMKNYAKAITSLKRALELKPD-NTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAI  723 (899)
T ss_pred             HHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHH
Confidence            4445555555555444443321 34445555555555555555555555554443 234445555555555666666666


Q ss_pred             HHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          270 SFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      ..++.+.+.+  |+..++..+..++.+.|++++|.+.++.+.+.... +...  +..+...|...|++++|...|+++.+
T Consensus       724 ~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~-~~~~--~~~la~~~~~~g~~~~A~~~~~~~~~  798 (899)
T TIGR02917       724 QAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPN-DAVL--RTALAELYLAQKDYDKAIKHYRTVVK  798 (899)
T ss_pred             HHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHH--HHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            6666655542  33355555666666666666666666666553321 1222  56666666667777777777777765


Q ss_pred             C
Q 017234          350 Q  350 (375)
Q Consensus       350 ~  350 (375)
                      .
T Consensus       799 ~  799 (899)
T TIGR02917       799 K  799 (899)
T ss_pred             h
Confidence            4

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

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=5.8e-16  Score=148.91  Aligned_cols=297  Identities=10%  Similarity=0.030  Sum_probs=185.5

Q ss_pred             HHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHh
Q 017234           41 NPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSG  119 (375)
Q Consensus        41 ~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~  119 (375)
                      -.++-.+.+.|+. ++..++.......+.+....|...+.....|++++|...    +++.....+.+...+..+...+.
T Consensus        46 ~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~----l~~~l~~~P~~~~a~~~la~~l~  121 (656)
T PRK15174         46 ILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQV----VNKLLAVNVCQPEDVLLVASVLL  121 (656)
T ss_pred             HHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHH----HHHHHHhCCCChHHHHHHHHHHH
Confidence            3444555666655 667777777666666655555555444677888888877    55666666666777777777777


Q ss_pred             ccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHH
Q 017234          120 KVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMN  199 (375)
Q Consensus       120 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  199 (375)
                      +.|++++|...+++..+.. +.+...+..+...+...|++++|...++.+....  +.+...+..+ ..+...|++++|.
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~--P~~~~a~~~~-~~l~~~g~~~eA~  197 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEV--PPRGDMIATC-LSFLNKSRLPEDH  197 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--CCCHHHHHHH-HHHHHcCCHHHHH
Confidence            7788888888777777652 2345667777777777777777777777665421  1222222222 3356667777777


Q ss_pred             HHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHHH
Q 017234          200 KWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDR----VKSFLKFL  275 (375)
Q Consensus       200 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~----a~~~~~~~  275 (375)
                      ..++.+.+....++...+..+..++...|++++|...+++..+.+ +.+...+..+...+...|++++    |...+++.
T Consensus       198 ~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~A  276 (656)
T PRK15174        198 DLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHA  276 (656)
T ss_pred             HHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHH
Confidence            777776665433344444455566667777777777777766654 2345556666666666776664    56666666


Q ss_pred             HhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          276 LGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       276 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .+.. +.+..++..+...+...|++++|...+++..+..  |+.... +..+..++.+.|++++|...|+++.+.
T Consensus       277 l~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~--P~~~~a-~~~La~~l~~~G~~~eA~~~l~~al~~  347 (656)
T PRK15174        277 LQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH--PDLPYV-RAMYARALRQVGQYTAASDEFVQLARE  347 (656)
T ss_pred             HhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            6543 3345566666666777777777777776666543  333222 455666666677777777777666654

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.77  E-value=9.6e-15  Score=140.53  Aligned_cols=296  Identities=7%  Similarity=0.004  Sum_probs=231.3

Q ss_pred             hHHHHHHhhcCCcc-hHHHHHHHhhhccCCCC-cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 017234           40 SNPLISRLLQVPVS-QIKTTLDSVDIFAFNSS-QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIA  116 (375)
Q Consensus        40 ~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~-~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~  116 (375)
                      ...+.......++. .+...++.+..  ..|+ ...|..+... ...|++++|...    +++.....+.+...+..+..
T Consensus        79 l~~l~~~~l~~g~~~~A~~~l~~~l~--~~P~~~~a~~~la~~l~~~g~~~~Ai~~----l~~Al~l~P~~~~a~~~la~  152 (656)
T PRK15174         79 LRRWVISPLASSQPDAVLQVVNKLLA--VNVCQPEDVLLVASVLLKSKQYATVADL----AEQAWLAFSGNSQIFALHLR  152 (656)
T ss_pred             HHHHhhhHhhcCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcCCHHHHHHH----HHHHHHhCCCcHHHHHHHHH
Confidence            33333444445554 77888888865  4454 3345555555 699999999999    56666666678889999999


Q ss_pred             HHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHH
Q 017234          117 LSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVD  196 (375)
Q Consensus       117 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~  196 (375)
                      .+...|++++|...++.+...... +...+..+ ..+...|++++|...++.+.+ ..-.++...+..+..++.+.|+++
T Consensus       153 ~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~-~~~~~~~~~~~~l~~~l~~~g~~~  229 (656)
T PRK15174        153 TLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLP-FFALERQESAGLAVDTLCAVGKYQ  229 (656)
T ss_pred             HHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHh-cCCCcchhHHHHHHHHHHHCCCHH
Confidence            999999999999999988766422 33344333 347889999999999999877 322233444555677889999999


Q ss_pred             HHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHH----HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 017234          197 AMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDS----VDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFL  272 (375)
Q Consensus       197 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~----a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  272 (375)
                      +|...+++..+.... +...+..+...+...|++++    |...|++..+.. +.+...+..+...+...|++++|...+
T Consensus       230 eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l  307 (656)
T PRK15174        230 EAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLL  307 (656)
T ss_pred             HHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999987654 78888899999999999986    899999998864 345778999999999999999999999


Q ss_pred             HHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          273 KFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       273 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ++..+.. +.+...+..+..++.+.|++++|...++.+...+  |+.... +..+..++...|++++|...|++..+.
T Consensus       308 ~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~~~-~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        308 QQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREK--GVTSKW-NRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--ccchHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9998864 4456678888999999999999999999998854  443321 444567889999999999999998876

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.72  E-value=4.6e-14  Score=121.04  Aligned_cols=307  Identities=16%  Similarity=0.151  Sum_probs=236.9

Q ss_pred             cccchHHHHHHhhcCCcchHHHHHHHhhhccCCCCcccHHHHHHH-H--hcCChHHHHHHHHHHHHHhhcCC--------
Q 017234           36 SVSSSNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITS-L--QSSSPKKAQLVLEWRLDKMLKGN--------  104 (375)
Q Consensus        36 ~~~~~~~ll~~l~~~~~~~~~~~~~~m~~~~~~p~~~~~~~li~~-~--~~~~~~~a~~~~~~~~~~m~~~~--------  104 (375)
                      ++.+-|.|+.-..+..-.++.-+++.|.+.|+.-+...--.|+.. +  .+.++.-+..-  | |-.|...+        
T Consensus       115 ~V~~E~nL~kmIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~--~-Fv~~~~~~E~S~~sWK  191 (625)
T KOG4422|consen  115 QVETENNLLKMISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWE--E-FVGMRNFGEDSTSSWK  191 (625)
T ss_pred             hhcchhHHHHHHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHH--H-Hhhccccccccccccc
Confidence            344667777666665566788899999999888887777777766 3  33333322221  1 33444333        


Q ss_pred             ------------CCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhC
Q 017234          105 ------------ESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSS  172 (375)
Q Consensus       105 ------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  172 (375)
                                  +....+|.++|.++|+-.+.+.|.+++.+-.+...+.+..+||.+|.+-.-...    .++..+|.. 
T Consensus       192 ~G~vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMis-  266 (625)
T KOG4422|consen  192 SGAVADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMIS-  266 (625)
T ss_pred             cccHHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHH-
Confidence                        235788999999999999999999999999988889999999999986554332    789999998 


Q ss_pred             CCCCCChhcHHHHHHHHHcCCCHHH----HHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHH-HHHHHHHHH----HC
Q 017234          173 EEYKPNSKTYDAFISGFSSLGNVDA----MNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDS-VDRFYEEMM----SL  243 (375)
Q Consensus       173 ~~~~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~-a~~~~~~m~----~~  243 (375)
                      ..+.||..|||+++.+..+-|+++.    |.+++.+|++.|+.|+..+|..+|..+++.++..+ |..++.++.    .+
T Consensus       267 qkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK  346 (625)
T KOG4422|consen  267 QKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGK  346 (625)
T ss_pred             hhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccC
Confidence            7899999999999999999998764    66788999999999999999999999999998754 444444443    23


Q ss_pred             CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCcCH---HHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          244 GIIP----SIPILEKVLEGLCARRKLDRVKSFLKFLLGGG----WKINE---NMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       244 ~~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      ...|    |...|...+..|.+..+.+.|.++..-+....    +.|+.   .-|..+....|.....+.....++.|.-
T Consensus       347 ~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP  426 (625)
T KOG4422|consen  347 TFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVP  426 (625)
T ss_pred             cccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            2333    34567788889999999999999987765431    23332   3466778888999999999999999988


Q ss_pred             CCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCC
Q 017234          313 CNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGL  352 (375)
Q Consensus       313 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  352 (375)
                      .-..|+..+  ...++++....|.++-.-+++..++..|.
T Consensus       427 ~~y~p~~~~--m~~~lrA~~v~~~~e~ipRiw~D~~~~gh  464 (625)
T KOG4422|consen  427 SAYFPHSQT--MIHLLRALDVANRLEVIPRIWKDSKEYGH  464 (625)
T ss_pred             ceecCCchh--HHHHHHHHhhcCcchhHHHHHHHHHHhhh
Confidence            777787777  78888999999999999899888888774

>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=99.69  E-value=5.2e-13  Score=128.71  Aligned_cols=294  Identities=9%  Similarity=-0.069  Sum_probs=223.5

Q ss_pred             HHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccC
Q 017234           45 SRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQ  122 (375)
Q Consensus        45 ~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~  122 (375)
                      ..+.+.++. +|.+.+.....  ..|+...|..+..+ .+.|++++|++.    +++.....+.+..+|..+..++...|
T Consensus       135 ~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~----~~~al~l~p~~~~a~~~~a~a~~~lg  208 (615)
T TIGR00990       135 NKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVED----TTAALELDPDYSKALNRRANAYDGLG  208 (615)
T ss_pred             HHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHH----HHHHHHcCCCCHHHHHHHHHHHHHcC
Confidence            344455555 67777877654  45666778777777 799999999999    55565666678889999999999999


Q ss_pred             ChhHHHHHHHHHHHCC----------------------------CCc-CHhHHHHH------------------------
Q 017234          123 NVPFAMHVFTSMEAQG----------------------------IKP-DSAVFNSL------------------------  149 (375)
Q Consensus       123 ~~~~a~~~~~~m~~~g----------------------------~~p-~~~~~~~l------------------------  149 (375)
                      ++++|..-|......+                            ..| +...+..+                        
T Consensus       209 ~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  288 (615)
T TIGR00990       209 KYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDE  288 (615)
T ss_pred             CHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccccc
Confidence            9999987654432211                            000 00000000                        


Q ss_pred             ------HHHH------HcCCChHHHHHHHHHHHhCCCCCC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHh
Q 017234          150 ------ICAC------LCSGDVVTALSLFEIMVSSEEYKP-NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQT  216 (375)
Q Consensus       150 ------i~~~------~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~  216 (375)
                            +...      ...+++++|.+.|+...+.....| ....+..+...+...|++++|...|++..+..+. +...
T Consensus       289 ~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~~~~  367 (615)
T TIGR00990       289 ETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-VTQS  367 (615)
T ss_pred             ccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHH
Confidence                  0000      112578899999999987322334 3456788888899999999999999999886533 5678


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCE  296 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  296 (375)
                      |..+...+...|++++|...|++..+.. +.+...|..+...+...|++++|...+++.++.. +.+...+..+...+.+
T Consensus       368 ~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~  445 (615)
T TIGR00990       368 YIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYK  445 (615)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHH
Confidence            8899999999999999999999998864 4457889999999999999999999999998864 4457778888999999


Q ss_pred             cCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          297 LGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       297 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .|++++|...|++..+..  |+.... |+.+...+...|++++|+..|++..+.
T Consensus       446 ~g~~~eA~~~~~~al~~~--P~~~~~-~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       446 EGSIASSMATFRRCKKNF--PEAPDV-YNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             CCCHHHHHHHHHHHHHhC--CCChHH-HHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            999999999999988743  443222 888999999999999999999998865

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.67  E-value=4e-13  Score=115.33  Aligned_cols=237  Identities=14%  Similarity=0.198  Sum_probs=159.0

Q ss_pred             cccccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH--HhcCChHHHHHHHHHHHHHhhcCCC-CCHH
Q 017234           34 STSVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS--LQSSSPKKAQLVLEWRLDKMLKGNE-SCLD  109 (375)
Q Consensus        34 ~~~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~--~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~  109 (375)
                      ..+..++..+|.++|+.... +|.+++.+-.....+-+..+||.+|.+  +..|     .++    +.+|.+... ||..
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~-----K~L----v~EMisqkm~Pnl~  274 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG-----KKL----VAEMISQKMTPNLF  274 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc-----HHH----HHHHHHhhcCCchH
Confidence            44556899999999998754 889999998888888999999999988  4444     344    667766665 9999


Q ss_pred             HHHHHHHHHhccCChhH----HHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHH-HHHHHHHHHhC---CCCCC----
Q 017234          110 EYACLIALSGKVQNVPF----AMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVT-ALSLFEIMVSS---EEYKP----  177 (375)
Q Consensus       110 ~~~~li~~~~~~~~~~~----a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~---~~~~~----  177 (375)
                      |+|+++.+.++.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++..+ |..++.++...   ..++|    
T Consensus       275 TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~  354 (625)
T KOG4422|consen  275 TFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPT  354 (625)
T ss_pred             hHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCc
Confidence            99999999999998766    56777889999999999999999999998887644 44455544431   12233    


Q ss_pred             ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCC----CCcC---HHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHH
Q 017234          178 NSKTYDAFISGFSSLGNVDAMNKWYAANIAAG----FSVN---VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIP  250 (375)
Q Consensus       178 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~----~~~~---~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  250 (375)
                      |..-|...+..|.+..+.+.|.++..-+....    +.|+   ..-|..+....|.....+.....|+.|.-.-.-|+..
T Consensus       355 d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~  434 (625)
T KOG4422|consen  355 DNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQ  434 (625)
T ss_pred             hhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCch
Confidence            33446677778888888777777655443221    1111   1223444455555555555555566555544445555


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 017234          251 ILEKVLEGLCARRKLDRVKSFLKFLLGGG  279 (375)
Q Consensus       251 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~  279 (375)
                      +...++++....|.++-.-++|..+...|
T Consensus       435 ~m~~~lrA~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  435 TMIHLLRALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             hHHHHHHHHhhcCcchhHHHHHHHHHHhh
Confidence            55555555555555555555555554444

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

Probab=99.66  E-value=1.1e-13  Score=123.95  Aligned_cols=275  Identities=14%  Similarity=0.170  Sum_probs=230.3

Q ss_pred             CCCC-cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcC-H
Q 017234           67 FNSS-QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPD-S  143 (375)
Q Consensus        67 ~~p~-~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~  143 (375)
                      .+|. ...|+.|--. -.+|+...|++-    +++.....+.-...|-.|-..|...+.+++|...+.+....  .|+ .
T Consensus       213 ~qp~fAiawsnLg~~f~~~Gei~~aiq~----y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn~A  286 (966)
T KOG4626|consen  213 TQPCFAIAWSNLGCVFNAQGEIWLAIQH----YEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RPNHA  286 (966)
T ss_pred             hCCceeeeehhcchHHhhcchHHHHHHH----HHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCcch
Confidence            4454 4567777666 488899999988    55666666656778999999999999999999999888765  454 5


Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC-hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHH
Q 017234          144 AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN-SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIH  222 (375)
Q Consensus       144 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  222 (375)
                      ..+..+...|...|.+|-|+..|++..+   +.|+ ...|+.|.+++-..|++.+|++.+.+....... ...+.+.|..
T Consensus       287 ~a~gNla~iYyeqG~ldlAI~~Ykral~---~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-hadam~NLgn  362 (966)
T KOG4626|consen  287 VAHGNLACIYYEQGLLDLAIDTYKRALE---LQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HADAMNNLGN  362 (966)
T ss_pred             hhccceEEEEeccccHHHHHHHHHHHHh---cCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHHHHHHHHH
Confidence            6888899999999999999999999987   3455 468999999999999999999999998887543 6788999999


Q ss_pred             HHHccCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC-HHHHHHHHHHHHHcCCh
Q 017234          223 GSLKARDFDSVDRFYEEMMSLGIIPS-IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN-ENMAQKLVKCYCELGRV  300 (375)
Q Consensus       223 ~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~  300 (375)
                      .|...|.+++|..+|+...+-  .|. ...++.|...|-..|++++|...|++.+.  +.|+ ...|+.+...|...|+.
T Consensus       363 i~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  363 IYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhH
Confidence            999999999999999988874  454 46789999999999999999999999987  5666 46799999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhH
Q 017234          301 DELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDV  360 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  360 (375)
                      +.|.+.+.+.+.  +.|..... ++.|...|-..|++.+|++-+++..  .+.||.|+..
T Consensus       439 ~~A~q~y~rAI~--~nPt~AeA-hsNLasi~kDsGni~~AI~sY~~aL--klkPDfpdA~  493 (966)
T KOG4626|consen  439 SAAIQCYTRAIQ--INPTFAEA-HSNLASIYKDSGNIPEAIQSYRTAL--KLKPDFPDAY  493 (966)
T ss_pred             HHHHHHHHHHHh--cCcHHHHH-HhhHHHHhhccCCcHHHHHHHHHHH--ccCCCCchhh
Confidence            999999999887  44643333 8999999999999999999999987  5688888754

>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=99.65  E-value=7.6e-13  Score=127.53  Aligned_cols=255  Identities=13%  Similarity=-0.018  Sum_probs=204.1

Q ss_pred             CChHHHHHHHHHHHHHhhcCC---CCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChH
Q 017234           84 SSPKKAQLVLEWRLDKMLKGN---ESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVV  160 (375)
Q Consensus        84 ~~~~~a~~~~~~~~~~m~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  160 (375)
                      +++++|.+.|    ++....+   +.+...|+.+...+...|++++|...+++..+.. +-+...|..+...+...|+++
T Consensus       308 ~~y~~A~~~~----~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~  382 (615)
T TIGR00990       308 ESYEEAARAF----EKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPD  382 (615)
T ss_pred             hhHHHHHHHH----HHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHH
Confidence            5788888885    4444332   3456778888899999999999999999998763 224668889999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 017234          161 TALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       161 ~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      +|...|++..+.  -+.+..+|..+...+...|++++|...|++..+..+. +...+..+...+.+.|++++|+..|++.
T Consensus       383 eA~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~a  459 (615)
T TIGR00990       383 KAEEDFDKALKL--NSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKEGSIASSMATFRRC  459 (615)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999999999873  2445678889999999999999999999999987643 6788888999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH------HHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          241 MSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINE------NMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       241 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      .+.. +.+...++.+...+...|++++|...|++..+..-..+.      ..++.....+...|++++|.+++++..+.+
T Consensus       460 l~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~  538 (615)
T TIGR00990       460 KKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID  538 (615)
T ss_pred             HHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            8763 345678889999999999999999999998775311111      112222333445799999999999988754


Q ss_pred             CCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          315 QSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       315 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                        |+.... +..+...+.+.|++++|+..|++..+.
T Consensus       539 --p~~~~a-~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       539 --PECDIA-VATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             --CCcHHH-HHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence              444332 888999999999999999999998765

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.63  E-value=4.3e-12  Score=130.40  Aligned_cols=305  Identities=10%  Similarity=0.014  Sum_probs=202.2

Q ss_pred             hhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHH-----------
Q 017234           47 LLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYAC-----------  113 (375)
Q Consensus        47 l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~-----------  113 (375)
                      +.+.++. ++.+.+++...... .+...+..+... ...|++++|.+.|+    +.....+.+...+..           
T Consensus       361 ~~~~g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~----~aL~~~p~~~~a~~~L~~l~~~~~~~  435 (1157)
T PRK11447        361 ALKANNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQ----QALRMDPGNTNAVRGLANLYRQQSPE  435 (1157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHH----HHHHhCCCCHHHHHHHHHHHHhcCHH
Confidence            3444544 67777777755422 123344445555 68888999988854    443333333333332           


Q ss_pred             -------------------------------HHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHH
Q 017234          114 -------------------------------LIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTA  162 (375)
Q Consensus       114 -------------------------------li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  162 (375)
                                                     +...+...|++++|.+.|++..+.. +-+...+..+...|.+.|++++|
T Consensus       436 ~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A  514 (1157)
T PRK11447        436 KALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQA  514 (1157)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence                                           2334456788888888888887764 22566777888888888999999


Q ss_pred             HHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC----------------------------------
Q 017234          163 LSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAA----------------------------------  208 (375)
Q Consensus       163 ~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----------------------------------  208 (375)
                      ...++++.+..  +.+...+..+...+...++.++|...++.+...                                  
T Consensus       515 ~~~l~~al~~~--P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA  592 (1157)
T PRK11447        515 DALMRRLAQQK--PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEA  592 (1157)
T ss_pred             HHHHHHHHHcC--CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHH
Confidence            98888887622  223333333333334444444444444332110                                  


Q ss_pred             -----CCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC
Q 017234          209 -----GFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN  283 (375)
Q Consensus       209 -----~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  283 (375)
                           ..+.+...+..+...+.+.|++++|...|++..+.. +.+...+..+...+...|++++|...++.+.+.. +.+
T Consensus       593 ~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~  670 (1157)
T PRK11447        593 EALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDS  670 (1157)
T ss_pred             HHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCC
Confidence                 012355567778888889999999999999998874 4457788889999999999999999999887643 334


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCch---HHHHHHHHHHHHHhhCCHHHHHHHHHHHHh-CCCCccCchh
Q 017234          284 ENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEV---LLHFFSGIIRLYALSDRLDDVEYSVGRMGK-QGLSFKSAED  359 (375)
Q Consensus       284 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~~~~~~~  359 (375)
                      ..++..+..++...|++++|.++++.+.........   ....+..+...+...|++++|...|++... .|+.|..|..
T Consensus       671 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~~p~~  750 (1157)
T PRK11447        671 LNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPTRPQD  750 (1157)
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCCCCCC
Confidence            566777888888999999999999998775432211   112256667888899999999999988754 5677766665


Q ss_pred             HH
Q 017234          360 VE  361 (375)
Q Consensus       360 ~~  361 (375)
                      ..
T Consensus       751 ~~  752 (1157)
T PRK11447        751 ND  752 (1157)
T ss_pred             ch
Confidence            33

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

Probab=99.62  E-value=3.4e-15  Score=129.60  Aligned_cols=258  Identities=19%  Similarity=0.138  Sum_probs=112.3

Q ss_pred             HHH-HhcCChHHHHHHHHHHHHH-hhcC-CCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHH
Q 017234           78 ITS-LQSSSPKKAQLVLEWRLDK-MLKG-NESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACL  154 (375)
Q Consensus        78 i~~-~~~~~~~~a~~~~~~~~~~-m~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  154 (375)
                      ... +..|++++|.++    +++ .... .+.|...|..+...+...++++.|.+.++++.+.+.. ++..+..++.. .
T Consensus        15 A~~~~~~~~~~~Al~~----L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~   88 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEV----LKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-L   88 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccc----cccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-c
Confidence            444 699999999999    533 3333 2456677777777888899999999999999987633 67778888887 7


Q ss_pred             cCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCC-CCcCHHhHHHHHHHHHccCChHHH
Q 017234          155 CSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAG-FSVNVQTYESLIHGSLKARDFDSV  233 (375)
Q Consensus       155 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~g~~~~a  233 (375)
                      ..+++++|.+++....+.   .++...+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|+.++|
T Consensus        89 ~~~~~~~A~~~~~~~~~~---~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A  165 (280)
T PF13429_consen   89 QDGDPEEALKLAEKAYER---DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKA  165 (280)
T ss_dssp             --------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHH
T ss_pred             cccccccccccccccccc---ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999887662   3667778888999999999999999999987543 345788899999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          234 DRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       234 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      .+.|++..+.. +.|......++..+...|+.+++..+++...+.. +.|+..+..+..+|...|+.++|...+++..+.
T Consensus       166 ~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~  243 (280)
T PF13429_consen  166 LRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL  243 (280)
T ss_dssp             HHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc
Confidence            99999999874 2357788889999999999999999998887764 566778889999999999999999999998874


Q ss_pred             CCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          314 NQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       314 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      .  |+.... ...+.+++...|+.++|.++.++..+
T Consensus       244 ~--p~d~~~-~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  244 N--PDDPLW-LLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             S--TT-HHH-HHHHHHHHT-----------------
T ss_pred             c--cccccc-cccccccccccccccccccccccccc
Confidence            4  433322 67889999999999999999987654

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

Probab=99.62  E-value=4.6e-13  Score=119.98  Aligned_cols=298  Identities=10%  Similarity=0.044  Sum_probs=165.4

Q ss_pred             cccccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCC-CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCC---
Q 017234           34 STSVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNS-SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESC---  107 (375)
Q Consensus        34 ~~~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p-~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~---  107 (375)
                      ..-..+|.-+-+.+-..|.. ++..+++.+..  .+| .+..|..+..+ ..+|+.+.|.+.|.    +-.+.++..   
T Consensus       113 ~q~ae~ysn~aN~~kerg~~~~al~~y~~aie--l~p~fida~inla~al~~~~~~~~a~~~~~----~alqlnP~l~ca  186 (966)
T KOG4626|consen  113 PQGAEAYSNLANILKERGQLQDALALYRAAIE--LKPKFIDAYINLAAALVTQGDLELAVQCFF----EALQLNPDLYCA  186 (966)
T ss_pred             chHHHHHHHHHHHHHHhchHHHHHHHHHHHHh--cCchhhHHHhhHHHHHHhcCCCcccHHHHH----HHHhcCcchhhh
Confidence            33455788888888888866 77888887754  455 35567667777 58888888888852    222222222   


Q ss_pred             -------------------------------HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcC-HhHHHHHHHHHHc
Q 017234          108 -------------------------------LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPD-SAVFNSLICACLC  155 (375)
Q Consensus       108 -------------------------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~  155 (375)
                                                     ..+|+.|...+-..|++..|+.-|++..+.  .|+ ...|-.|...|-.
T Consensus       187 ~s~lgnLlka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke  264 (966)
T KOG4626|consen  187 RSDLGNLLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKE  264 (966)
T ss_pred             hcchhHHHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHH
Confidence                                           222333333444444444444444444433  222 3344555555555


Q ss_pred             CCChHHHHHHHHHHHhCCCCCCC-hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHH
Q 017234          156 SGDVVTALSLFEIMVSSEEYKPN-SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVD  234 (375)
Q Consensus       156 ~g~~~~a~~~~~~m~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~  234 (375)
                      .+.+++|+.-|.+...   ..|+ ...+..+...|...|+.+.|...+++..+..+. =+..|+.|..++-..|++.+|.
T Consensus       265 ~~~~d~Avs~Y~rAl~---lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~  340 (966)
T KOG4626|consen  265 ARIFDRAVSCYLRALN---LRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAV  340 (966)
T ss_pred             HhcchHHHHHHHHHHh---cCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHH
Confidence            5555555555554443   1232 233444444455555555555555555554221 2455666666666666666666


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          235 RFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN-ENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       235 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      +.|.+..... .-.....+.|...+...|.++.|..+|....+-  .|. ...++.|...|-+.|++++|...+++... 
T Consensus       341 ~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr-  416 (966)
T KOG4626|consen  341 DCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR-  416 (966)
T ss_pred             HHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh-
Confidence            6666665542 222445556666666666666666666665542  232 33456666666666666666666666655 


Q ss_pred             CCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          314 NQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       314 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                       +.|..... |+.+...|-..|+.+.|.+.+.+.+.
T Consensus       417 -I~P~fAda-~~NmGnt~ke~g~v~~A~q~y~rAI~  450 (966)
T KOG4626|consen  417 -IKPTFADA-LSNMGNTYKEMGDVSAAIQCYTRAIQ  450 (966)
T ss_pred             -cCchHHHH-HHhcchHHHHhhhHHHHHHHHHHHHh
Confidence             44543332 66666666666666666666666554

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.61  E-value=7.5e-12  Score=128.62  Aligned_cols=257  Identities=10%  Similarity=-0.002  Sum_probs=156.1

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHH-----------
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSL-----------  149 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l-----------  149 (375)
                      .+.|++++|...    +++.....+.+...+..+...+...|++++|++.|++..+.. +.+...+..+           
T Consensus       362 ~~~g~~~eA~~~----~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~  436 (1157)
T PRK11447        362 LKANNLAQAERL----YQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEK  436 (1157)
T ss_pred             HHCCCHHHHHHH----HHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHH
Confidence            366677777777    344444445556666677777777777777777777776542 1122222222           


Q ss_pred             -------------------------------HHHHHcCCChHHHHHHHHHHHhCCCCCC-ChhcHHHHHHHHHcCCCHHH
Q 017234          150 -------------------------------ICACLCSGDVVTALSLFEIMVSSEEYKP-NSKTYDAFISGFSSLGNVDA  197 (375)
Q Consensus       150 -------------------------------i~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~~ll~~~~~~~~~~~  197 (375)
                                                     ...+...|++++|++.|++..+.   .| +...+..+...|.+.|++++
T Consensus       437 A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~---~P~~~~~~~~LA~~~~~~G~~~~  513 (1157)
T PRK11447        437 ALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL---DPGSVWLTYRLAQDLRQAGQRSQ  513 (1157)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHH
Confidence                                           22333456666666666666652   23 34455566666777777777


Q ss_pred             HHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC----------------------------------
Q 017234          198 MNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL----------------------------------  243 (375)
Q Consensus       198 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----------------------------------  243 (375)
                      |...+++..+.... +...+..+...+...|+.++|...++.+...                                  
T Consensus       514 A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA  592 (1157)
T PRK11447        514 ADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEA  592 (1157)
T ss_pred             HHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHH
Confidence            77777766654322 3332222222233333333333333221100                                  


Q ss_pred             -----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCc
Q 017234          244 -----GIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPE  318 (375)
Q Consensus       244 -----~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  318 (375)
                           ..+++...+..+...+.+.|++++|...++++.+.. +.+...+..+...|...|++++|.+.++.+.+..  |+
T Consensus       593 ~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~--p~  669 (1157)
T PRK11447        593 EALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA--ND  669 (1157)
T ss_pred             HHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC--CC
Confidence                 012334455566777778888888888888887764 4467778888888888899999998888877643  33


Q ss_pred             hHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          319 VLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       319 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .... +..+..++...|++++|.++++++...
T Consensus       670 ~~~~-~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        670 SLNT-QRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             ChHH-HHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            2222 556777788889999999999888764

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.59  E-value=1.6e-11  Score=111.60  Aligned_cols=293  Identities=9%  Similarity=0.027  Sum_probs=211.7

Q ss_pred             hHHHHHHhhcC--Ccc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHH--HHHH
Q 017234           40 SNPLISRLLQV--PVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLD--EYAC  113 (375)
Q Consensus        40 ~~~ll~~l~~~--~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~--~~~~  113 (375)
                      ...+..++...  |+. ++.+.+..-......|... |-....+ ...|+++.+.+.    +.++.+.. |+..  ..-.
T Consensus        85 ~~~~~~gl~a~~eGd~~~A~k~l~~~~~~~~~p~l~-~llaA~aA~~~g~~~~A~~~----l~~A~~~~-~~~~~~~~l~  158 (398)
T PRK10747         85 RKQTEQALLKLAEGDYQQVEKLMTRNADHAEQPVVN-YLLAAEAAQQRGDEARANQH----LERAAELA-DNDQLPVEIT  158 (398)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHhcccchHHH-HHHHHHHHHHCCCHHHHHHH----HHHHHhcC-CcchHHHHHH
Confidence            34445444333  443 5555555443332223222 2222333 699999999999    55655433 3332  2224


Q ss_pred             HHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh------hcHHHHHH
Q 017234          114 LIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS------KTYDAFIS  187 (375)
Q Consensus       114 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------~~~~~ll~  187 (375)
                      ....+...|+++.|.+.++++.+.. +-++.....+...|.+.|++++|.+++..+.+.....+..      .+|..++.
T Consensus       159 ~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~  237 (398)
T PRK10747        159 RVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMD  237 (398)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            4678889999999999999998876 4468889999999999999999999999999833222221      13344444


Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 017234          188 GFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDR  267 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  267 (375)
                      ......+.+...++++.+.+.- +.++.....+...+...|+.++|.+++++..+.  .||...  .++.+....++.++
T Consensus       238 ~~~~~~~~~~l~~~w~~lp~~~-~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~  312 (398)
T PRK10747        238 QAMADQGSEGLKRWWKNQSRKT-RHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQ  312 (398)
T ss_pred             HHHHhcCHHHHHHHHHhCCHHH-hCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHH
Confidence            4445556677777777765543 347888999999999999999999999999884  455422  23444456699999


Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHH
Q 017234          268 VKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRM  347 (375)
Q Consensus       268 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  347 (375)
                      +.+..+...+.. +-|...+..+.+.+.+.|++++|.+.|+...+.  .|+...  |..+...+.+.|+.++|.+++++-
T Consensus       313 al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~--~~~La~~~~~~g~~~~A~~~~~~~  387 (398)
T PRK10747        313 LEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYD--YAWLADALDRLHKPEEAAAMRRDG  387 (398)
T ss_pred             HHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999998764 556777889999999999999999999999884  577777  788999999999999999999887


Q ss_pred             Hh
Q 017234          348 GK  349 (375)
Q Consensus       348 ~~  349 (375)
                      ..
T Consensus       388 l~  389 (398)
T PRK10747        388 LM  389 (398)
T ss_pred             Hh
Confidence            54

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

Probab=99.59  E-value=1.1e-14  Score=126.56  Aligned_cols=258  Identities=13%  Similarity=0.073  Sum_probs=116.1

Q ss_pred             HHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHH-HHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc
Q 017234           44 ISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDA-LITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGK  120 (375)
Q Consensus        44 l~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~-li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~  120 (375)
                      -..+.+.++. +|.+++..-......|+...|-. +... ...++.+.|.+.    ++++...+..++..+..++.. ..
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~a----y~~l~~~~~~~~~~~~~l~~l-~~   89 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEA----YEKLLASDKANPQDYERLIQL-LQ   89 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccc----ccccccccccccccccccccc-cc
Confidence            4555566654 77888865544433344444444 4434 588899999999    566666666677778888888 79


Q ss_pred             cCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHH
Q 017234          121 VQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNK  200 (375)
Q Consensus       121 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  200 (375)
                      .+++++|.+++....+.  .+++..+..++..+.+.++++++.++++.+......+.+...|..+...+.+.|+.++|.+
T Consensus        90 ~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~  167 (280)
T PF13429_consen   90 DGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALR  167 (280)
T ss_dssp             ------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHH
T ss_pred             ccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999887665  3677788889999999999999999999988644456778888899999999999999999


Q ss_pred             HHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 017234          201 WYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGW  280 (375)
Q Consensus       201 ~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  280 (375)
                      .+++..+..+. |....+.++..+...|+.+++.++++...+.. +.|...+..+..++...|+.++|...+++..+.. 
T Consensus       168 ~~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-  244 (280)
T PF13429_consen  168 DYRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-  244 (280)
T ss_dssp             HHHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-
Confidence            99999997644 68889999999999999999999998887764 4555678889999999999999999999998754 


Q ss_pred             CcCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          281 KINENMAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       281 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                      +.|+.+...+..++...|+.++|.++.++..
T Consensus       245 p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  245 PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             TT-HHHHHHHHHHHT----------------
T ss_pred             ccccccccccccccccccccccccccccccc
Confidence            5588889999999999999999999987754

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.56  E-value=9.9e-11  Score=115.28  Aligned_cols=306  Identities=9%  Similarity=-0.012  Sum_probs=173.5

Q ss_pred             chHHHHHHhhcCCcc-hHHHHHHHhhhccCCCC-cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHH
Q 017234           39 SSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSS-QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLI  115 (375)
Q Consensus        39 ~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~-~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li  115 (375)
                      .+..+-..+...++. ++.+.++.....  .|+ ...+..+... ...|++++|...    +++.....+.+.. +..+.
T Consensus        51 ~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~~g~~~eA~~~----l~~~l~~~P~~~~-~~~la  123 (765)
T PRK10049         51 GYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLADAGQYDEALVK----AKQLVSGAPDKAN-LLALA  123 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHH----HHHHHHhCCCCHH-HHHHH
Confidence            345555555555544 556666665432  333 2233344444 577777777777    4555555555555 77777


Q ss_pred             HHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHH--------------------------------
Q 017234          116 ALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTAL--------------------------------  163 (375)
Q Consensus       116 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~--------------------------------  163 (375)
                      .++...|+.++|+..+++..+.. +-+...+..+..++...|..++|+                                
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~  202 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPT  202 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccc
Confidence            77777777777777777777653 223444445555555444444333                                


Q ss_pred             --------------HHHHHHHhCCCCCCChh-cHH----HHHHHHHcCCCHHHHHHHHHHHHHCCCC-cCHHhHHHHHHH
Q 017234          164 --------------SLFEIMVSSEEYKPNSK-TYD----AFISGFSSLGNVDAMNKWYAANIAAGFS-VNVQTYESLIHG  223 (375)
Q Consensus       164 --------------~~~~~m~~~~~~~~~~~-~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~  223 (375)
                                    +.++.+.+...-.|+.. .+.    ..+.++...|++++|...|+++.+.+.+ |+. .-..+...
T Consensus       203 ~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~  281 (765)
T PRK10049        203 RSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASA  281 (765)
T ss_pred             cChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHH
Confidence                          33333332111112211 111    1123345567777788778777766532 221 12224567


Q ss_pred             HHccCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-----------CCcC---HHH
Q 017234          224 SLKARDFDSVDRFYEEMMSLGIIP---SIPILEKVLEGLCARRKLDRVKSFLKFLLGGG-----------WKIN---ENM  286 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----------~~~~---~~~  286 (375)
                      |...|++++|+..|+++.......   .......+..++...|++++|..+++.+.+..           -.|+   ...
T Consensus       282 yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a  361 (765)
T PRK10049        282 YLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQG  361 (765)
T ss_pred             HHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHH
Confidence            777777888877777776542111   12345556666777777777777777776542           0123   123


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCch
Q 017234          287 AQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAE  358 (375)
Q Consensus       287 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  358 (375)
                      +..+...+...|+.++|+++++++....  |+... .+..+...+...|++++|++.+++..+.  .|+.+.
T Consensus       362 ~~~~a~~l~~~g~~~eA~~~l~~al~~~--P~n~~-l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~  428 (765)
T PRK10049        362 QSLLSQVAKYSNDLPQAEMRARELAYNA--PGNQG-LRIDYASVLQARGWPRAAENELKKAEVL--EPRNIN  428 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChH
Confidence            4556667777777777777777776643  43322 2667777777777777777777777654  344444

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.56  E-value=4.1e-11  Score=117.92  Aligned_cols=308  Identities=9%  Similarity=-0.006  Sum_probs=218.5

Q ss_pred             chHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 017234           39 SSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIA  116 (375)
Q Consensus        39 ~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~  116 (375)
                      ....+...+...++. ++...+++....  .|+...|..+... ...|++++|+..    +++.....+.+...+..+..
T Consensus        85 a~~~la~~l~~~g~~~eA~~~l~~~l~~--~P~~~~~~~la~~l~~~g~~~~Al~~----l~~al~~~P~~~~~~~~la~  158 (765)
T PRK10049         85 YQRGLILTLADAGQYDEALVKAKQLVSG--APDKANLLALAYVYKRAGRHWDELRA----MTQALPRAPQTQQYPTEYVQ  158 (765)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHCCCHHHHHHH----HHHHHHhCCCCHHHHHHHHH
Confidence            445555666777755 778888888654  4433226666666 689999999999    56666666667777777777


Q ss_pred             HHhccCChhHHHHHHH----------------------------------------------HHHHC-CCCcCHh-HH--
Q 017234          117 LSGKVQNVPFAMHVFT----------------------------------------------SMEAQ-GIKPDSA-VF--  146 (375)
Q Consensus       117 ~~~~~~~~~~a~~~~~----------------------------------------------~m~~~-g~~p~~~-~~--  146 (375)
                      .+...++.+.|+..++                                              .+.+. ...|+.. .+  
T Consensus       159 ~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~  238 (765)
T PRK10049        159 ALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQR  238 (765)
T ss_pred             HHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHH
Confidence            7766666665554443                                              33322 1112211 11  


Q ss_pred             --HHHHHHHHcCCChHHHHHHHHHHHhCCCC-CCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCc---CHHhHHHH
Q 017234          147 --NSLICACLCSGDVVTALSLFEIMVSSEEY-KPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSV---NVQTYESL  220 (375)
Q Consensus       147 --~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~l  220 (375)
                        ...+..+...|++++|+..|+.+.+ .+- .|+. .-..+..+|...|++++|...|+++.+.....   .......+
T Consensus       239 a~~d~l~~Ll~~g~~~eA~~~~~~ll~-~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L  316 (765)
T PRK10049        239 ARIDRLGALLARDRYKDVISEYQRLKA-EGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADL  316 (765)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHhhc-cCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHH
Confidence              1113345677999999999999988 331 1322 22235778999999999999999987754221   13456677


Q ss_pred             HHHHHccCChHHHHHHHHHHHHCCC-----------CCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHH
Q 017234          221 IHGSLKARDFDSVDRFYEEMMSLGI-----------IPS---IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENM  286 (375)
Q Consensus       221 l~~~~~~g~~~~a~~~~~~m~~~~~-----------~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  286 (375)
                      ..++...|++++|.++++.+.....           .|+   ...+..+...+...|+.++|..+++++.... +.+...
T Consensus       317 ~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l  395 (765)
T PRK10049        317 FYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGL  395 (765)
T ss_pred             HHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHH
Confidence            7788999999999999999987531           123   2345667778889999999999999998764 556788


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhH
Q 017234          287 AQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDV  360 (375)
Q Consensus       287 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  360 (375)
                      +..+...+...|++++|++.+++..+..  |+.... +-.....+.+.|++++|..+++++++.  .|+.+...
T Consensus       396 ~~~lA~l~~~~g~~~~A~~~l~~al~l~--Pd~~~l-~~~~a~~al~~~~~~~A~~~~~~ll~~--~Pd~~~~~  464 (765)
T PRK10049        396 RIDYASVLQARGWPRAAENELKKAEVLE--PRNINL-EVEQAWTALDLQEWRQMDVLTDDVVAR--EPQDPGVQ  464 (765)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhhC--CCChHH-HHHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCHHHH
Confidence            9999999999999999999999998854  654433 556666899999999999999999975  45555443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.56  E-value=4.9e-11  Score=118.26  Aligned_cols=237  Identities=14%  Similarity=0.064  Sum_probs=176.7

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      +...|..+..++.. +++++|...+.+....  .|+......+...+...|++++|...|+++..   .+|+...+..+.
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~---~~p~~~a~~~la  549 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISL---HDMSNEDLLAAA  549 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhc---cCCCcHHHHHHH
Confidence            66777777777776 7888888878777765  46654444445555688999999999988765   245555566677


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLD  266 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  266 (375)
                      .++.+.|+.++|...+++..+..+. +...+..+.......|++++|...+++..+.  .|+...+..+...+.+.|+.+
T Consensus       550 ~all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~d  626 (987)
T PRK09782        550 NTAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVP  626 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHH
Confidence            7788889999999999888876532 3333434444455668999999999888876  456778888888888999999


Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHH
Q 017234          267 RVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGR  346 (375)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  346 (375)
                      +|...+++..+.. +.+...++.+..++...|++++|...+++..+..  |+.... +..+..++...|++++|...|++
T Consensus       627 eA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~--P~~~~a-~~nLA~al~~lGd~~eA~~~l~~  702 (987)
T PRK09782        627 AAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGL--PDDPAL-IRQLAYVNQRLDDMAATQHYARL  702 (987)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHH-HHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999888764 4456677888888888999999999998888743  444333 77888888999999999999988


Q ss_pred             HHhCCCCccCch
Q 017234          347 MGKQGLSFKSAE  358 (375)
Q Consensus       347 m~~~~~~~~~~~  358 (375)
                      ..+.  .|+...
T Consensus       703 Al~l--~P~~a~  712 (987)
T PRK09782        703 VIDD--IDNQAL  712 (987)
T ss_pred             HHhc--CCCCch
Confidence            8854  344433

>TIGR00540 hemY_coli hemY protein

Probab=99.55  E-value=2.8e-11  Score=110.66  Aligned_cols=296  Identities=7%  Similarity=-0.045  Sum_probs=205.0

Q ss_pred             chHHHHHHhhcC--Ccc-hHHHHHHHhhhccCCCCcccHHHHHHH---HhcCChHHHHHHHHHHHHHhhcCCC-CCHHHH
Q 017234           39 SSNPLISRLLQV--PVS-QIKTTLDSVDIFAFNSSQFSWDALITS---LQSSSPKKAQLVLEWRLDKMLKGNE-SCLDEY  111 (375)
Q Consensus        39 ~~~~ll~~l~~~--~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~---~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~~~  111 (375)
                      ....+..++...  |+. .+.+.+....+.  .|+...+ .++.+   ...|+++.+.+.+    .+..+..+ +.....
T Consensus        84 ~~~~~~~glla~~~g~~~~A~~~l~~~~~~--~~~~~~~-~llaA~aa~~~g~~~~A~~~l----~~a~~~~p~~~l~~~  156 (409)
T TIGR00540        84 AQKQTEEALLKLAEGDYAKAEKLIAKNADH--AAEPVLN-LIKAAEAAQQRGDEARANQHL----EEAAELAGNDNILVE  156 (409)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHhhc--CCCCHHH-HHHHHHHHHHCCCHHHHHHHH----HHHHHhCCcCchHHH
Confidence            445566666443  333 566666655443  4443333 33433   4789999999995    44433222 223344


Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHH-HHHHHH-
Q 017234          112 ACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYD-AFISGF-  189 (375)
Q Consensus       112 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-~ll~~~-  189 (375)
                      -.....+...|+++.|...++.+.+.. +-+..++..+...+.+.|++++|.+++..+.+ .+.. +...+. .-..++ 
T Consensus       157 ~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k-~~~~-~~~~~~~l~~~a~~  233 (409)
T TIGR00540       157 IARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAK-AGLF-DDEEFADLEQKAEI  233 (409)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHH-cCCC-CHHHHHHHHHHHHH
Confidence            456888889999999999999999885 33677899999999999999999999999998 4433 333332 111221 


Q ss_pred             --HcCCCHHHHHHHHHHHHHCCCC---cCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHh
Q 017234          190 --SSLGNVDAMNKWYAANIAAGFS---VNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPI---LEKVLEGLCA  261 (375)
Q Consensus       190 --~~~~~~~~a~~~~~~m~~~~~~---~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~---~~~li~~~~~  261 (375)
                        ...+..++..+.+..+.+..+.   .+...+..+...+...|+.++|.+++++..+..  ||...   ..........
T Consensus       234 ~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~  311 (409)
T TIGR00540       234 GLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLK  311 (409)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcC
Confidence              2223333334455555544321   388899999999999999999999999999874  44332   1112222345


Q ss_pred             cCCHHHHHHHHHHHHhCCCCcCH--HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHH
Q 017234          262 RRKLDRVKSFLKFLLGGGWKINE--NMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDD  339 (375)
Q Consensus       262 ~g~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  339 (375)
                      .++.+.+.+.++...+.. +-|+  ....++...+.+.|++++|.+.|+........|+...  +..+...+.+.|+.++
T Consensus       312 ~~~~~~~~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~--~~~La~ll~~~g~~~~  388 (409)
T TIGR00540       312 PEDNEKLEKLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDAND--LAMAADAFDQAGDKAE  388 (409)
T ss_pred             CCChHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHH--HHHHHHHHHHcCCHHH
Confidence            678888999888887653 3344  6677899999999999999999996555445677777  7799999999999999


Q ss_pred             HHHHHHHHHh
Q 017234          340 VEYSVGRMGK  349 (375)
Q Consensus       340 A~~~~~~m~~  349 (375)
                      |.+++++...
T Consensus       389 A~~~~~~~l~  398 (409)
T TIGR00540       389 AAAMRQDSLG  398 (409)
T ss_pred             HHHHHHHHHH
Confidence            9999998654

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

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.53  E-value=4.9e-11  Score=118.27  Aligned_cols=265  Identities=8%  Similarity=-0.013  Sum_probs=201.7

Q ss_pred             CcccHHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHH
Q 017234           70 SQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSL  149 (375)
Q Consensus        70 ~~~~~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  149 (375)
                      +...|..+-.++..+++++|+..+.    +..... |+......+...+.+.|++++|...|+++...  +|+...+..+
T Consensus       476 ~~~a~~~LG~~l~~~~~~eAi~a~~----~Al~~~-Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~l  548 (987)
T PRK09782        476 DAAAWNRLAKCYRDTLPGVALYAWL----QAEQRQ-PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAA  548 (987)
T ss_pred             CHHHHHHHHHHHHhCCcHHHHHHHH----HHHHhC-CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHH
Confidence            3455666666655689999999853    322222 45444444555667899999999999998655  5556667777


Q ss_pred             HHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCC
Q 017234          150 ICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARD  229 (375)
Q Consensus       150 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~  229 (375)
                      ..++.+.|++++|...+++..+ .. +.+...+..+.......|++++|...+++..+..  |+...+..+..++.+.|+
T Consensus       549 a~all~~Gd~~eA~~~l~qAL~-l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~  624 (987)
T PRK09782        549 ANTAQAAGNGAARDRWLQQAEQ-RG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHN  624 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHh-cC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCC
Confidence            8889999999999999999987 32 2233333344445556699999999999998864  578889999999999999


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 017234          230 FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLET  309 (375)
Q Consensus       230 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  309 (375)
                      +++|...|++..... +.+...++.+..++...|+.++|...++...+.. +-+...+..+..++...|++++|+..+++
T Consensus       625 ~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~  702 (987)
T PRK09782        625 VPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARL  702 (987)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999999875 4456788888889999999999999999998864 45678899999999999999999999999


Q ss_pred             HHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          310 LTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       310 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ..+..  |+.... .........+..+++.|.+-+++....
T Consensus       703 Al~l~--P~~a~i-~~~~g~~~~~~~~~~~a~~~~~r~~~~  740 (987)
T PRK09782        703 VIDDI--DNQALI-TPLTPEQNQQRFNFRRLHEEVGRRWTF  740 (987)
T ss_pred             HHhcC--CCCchh-hhhhhHHHHHHHHHHHHHHHHHHHhhc
Confidence            98854  443221 334455566666777777777665543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.51  E-value=6.8e-10  Score=108.13  Aligned_cols=147  Identities=7%  Similarity=-0.047  Sum_probs=85.2

Q ss_pred             hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHH
Q 017234           54 QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFT  132 (375)
Q Consensus        54 ~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  132 (375)
                      .|.+.|.+..+..+.-....+ .++.. ...|+.++|...    +++..............+...+...|+++.|.++++
T Consensus        52 ~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~----~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~  126 (822)
T PRK14574         52 PVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDV----YERYQSSMNISSRGLASAARAYRNEKRWDQALALWQ  126 (822)
T ss_pred             HHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHH----HHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            666666666442222111233 44444 566777777777    344432222233334444557777777777777777


Q ss_pred             HHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCC
Q 017234          133 SMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAG  209 (375)
Q Consensus       133 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  209 (375)
                      ++.+.. +-++..+..++..+...++.++|++.++++...   .|+...+..++..+...++..+|++.++++.+..
T Consensus       127 kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~---dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~  199 (822)
T PRK14574        127 SSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER---DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA  199 (822)
T ss_pred             HHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc---CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC
Confidence            777664 224566666677777777777777777777652   4555555444444444555555777777776654

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

Probab=99.49  E-value=2.9e-10  Score=94.65  Aligned_cols=238  Identities=16%  Similarity=0.159  Sum_probs=157.5

Q ss_pred             ccHHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCH------hH
Q 017234           72 FSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDS------AV  145 (375)
Q Consensus        72 ~~~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~------~~  145 (375)
                      ..|-.-++.+-++++++|.++    |-+|.+....+..+--+|-+.|.+.|..+.|+++...+.++   ||.      ..
T Consensus        37 r~Yv~GlNfLLs~Q~dKAvdl----F~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lA  109 (389)
T COG2956          37 RDYVKGLNFLLSNQPDKAVDL----FLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLA  109 (389)
T ss_pred             HHHHhHHHHHhhcCcchHHHH----HHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHH
Confidence            345555666677778888888    55666666566666777778888888888888888777664   332      23


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcC----HHhHHHHH
Q 017234          146 FNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVN----VQTYESLI  221 (375)
Q Consensus       146 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll  221 (375)
                      .-.|..-|...|-+|.|+++|..+.+ .+ .--......|+..|-...+|++|.++-+++.+.+.++.    ..-|.-+.
T Consensus       110 l~qL~~Dym~aGl~DRAE~~f~~L~d-e~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELA  187 (389)
T COG2956         110 LQQLGRDYMAAGLLDRAEDIFNQLVD-EG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELA  187 (389)
T ss_pred             HHHHHHHHHHhhhhhHHHHHHHHHhc-ch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHH
Confidence            44556667777888888888887776 21 22234566777778888888888888877777665443    23345555


Q ss_pred             HHHHccCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCh
Q 017234          222 HGSLKARDFDSVDRFYEEMMSLGIIPS-IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRV  300 (375)
Q Consensus       222 ~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  300 (375)
                      ..+....+++.|..++.+....+  |+ +..=-.+.......|+++.|.+.|+...+.+...-+.+...|..+|...|+.
T Consensus       188 q~~~~~~~~d~A~~~l~kAlqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~  265 (389)
T COG2956         188 QQALASSDVDRARELLKKALQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKP  265 (389)
T ss_pred             HHHhhhhhHHHHHHHHHHHHhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCH
Confidence            55566677777777777776653  22 2222234456667778888888887777766555556677777788888888


Q ss_pred             HHHHHHHHHHHhCCCCCchH
Q 017234          301 DELEEQLETLTKCNQSPEVL  320 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~  320 (375)
                      ++....+.++.+....++..
T Consensus       266 ~~~~~fL~~~~~~~~g~~~~  285 (389)
T COG2956         266 AEGLNFLRRAMETNTGADAE  285 (389)
T ss_pred             HHHHHHHHHHHHccCCccHH
Confidence            77777777776654444443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.47  E-value=1.7e-10  Score=104.98  Aligned_cols=250  Identities=8%  Similarity=0.011  Sum_probs=196.9

Q ss_pred             hcCCcc-hHHHHHHHhhhccCCCCcccHHHHHH--H-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCC
Q 017234           48 LQVPVS-QIKTTLDSVDIFAFNSSQFSWDALIT--S-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQN  123 (375)
Q Consensus        48 ~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~--~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~  123 (375)
                      .+.++. ++...+.++.+  ..|+...+..+..  . ...|++++|...    +++..+..+.++.++..+...|.+.|+
T Consensus       129 ~~~g~~~~A~~~l~~A~~--~~~~~~~~~~l~~a~l~l~~g~~~~Al~~----l~~~~~~~P~~~~al~ll~~~~~~~gd  202 (398)
T PRK10747        129 QQRGDEARANQHLERAAE--LADNDQLPVEITRVRIQLARNENHAARHG----VDKLLEVAPRHPEVLRLAEQAYIRTGA  202 (398)
T ss_pred             HHCCCHHHHHHHHHHHHh--cCCcchHHHHHHHHHHHHHCCCHHHHHHH----HHHHHhcCCCCHHHHHHHHHHHHHHHh
Confidence            444444 67888888864  5555544443332  3 689999999999    677777788889999999999999999


Q ss_pred             hhHHHHHHHHHHHCCCCcCH-------hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHH
Q 017234          124 VPFAMHVFTSMEAQGIKPDS-------AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVD  196 (375)
Q Consensus       124 ~~~a~~~~~~m~~~g~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~  196 (375)
                      ++.|.+++..+.+.+..++.       .+|..++.......+.+...++++.+.+  ..+.+......+...+...|+.+
T Consensus       203 w~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~--~~~~~~~~~~~~A~~l~~~g~~~  280 (398)
T PRK10747        203 WSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSR--KTRHQVALQVAMAEHLIECDDHD  280 (398)
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCH--HHhCCHHHHHHHHHHHHHCCCHH
Confidence            99999999999988755322       2344445555555667777888888765  23567778889999999999999


Q ss_pred             HHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 017234          197 AMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLL  276 (375)
Q Consensus       197 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  276 (375)
                      +|.+++++..+.  +|+...  .++.+....++.+++.+..+...+.. +-|...+..+...|.+.+++++|.+.|+...
T Consensus       281 ~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al  355 (398)
T PRK10747        281 TAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAAL  355 (398)
T ss_pred             HHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999998884  345522  23444556699999999999998874 3456678888999999999999999999999


Q ss_pred             hCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          277 GGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       277 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      +.  .|+...+..+...+.+.|+.++|.+++++-..
T Consensus       356 ~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        356 KQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             hc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            75  69999999999999999999999999987654

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

Probab=99.46  E-value=5.7e-11  Score=107.69  Aligned_cols=259  Identities=12%  Similarity=0.072  Sum_probs=195.1

Q ss_pred             HHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHH-HHHHCCCCcCHhHHHHHHHHHH
Q 017234           77 LITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFT-SMEAQGIKPDSAVFNSLICACL  154 (375)
Q Consensus        77 li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~-~m~~~g~~p~~~~~~~li~~~~  154 (375)
                      +-.+ +..+++++|...|+. +.+.....+.+..+|++.+..+-+.    -++..+. .+.+.. +-.+.+|-++..+|.
T Consensus       359 ~GrayFEl~~Y~~a~~~F~~-~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~Laq~Li~~~-~~sPesWca~GNcfS  432 (638)
T KOG1126|consen  359 LGRAYFELIEYDQAERIFSL-VRRIEPYRVKGMEIYSTTLWHLQDE----VALSYLAQDLIDTD-PNSPESWCALGNCFS  432 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHH-HHhhccccccchhHHHHHHHHHHhh----HHHHHHHHHHHhhC-CCCcHHHHHhcchhh
Confidence            3344 688888898888543 1222222236788888888776432    2333332 222221 446889999999999


Q ss_pred             cCCChHHHHHHHHHHHhCCCCCC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHH
Q 017234          155 CSGDVVTALSLFEIMVSSEEYKP-NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSV  233 (375)
Q Consensus       155 ~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a  233 (375)
                      -.++.+.|++.|++..+   +.| ...+|+.+..-+.....+|.|...|......... +-.+|.-+...|.+.++++.|
T Consensus       433 LQkdh~~Aik~f~RAiQ---ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-hYnAwYGlG~vy~Kqek~e~A  508 (638)
T KOG1126|consen  433 LQKDHDTAIKCFKRAIQ---LDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-HYNAWYGLGTVYLKQEKLEFA  508 (638)
T ss_pred             hhhHHHHHHHHHHHhhc---cCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-hhHHHHhhhhheeccchhhHH
Confidence            99999999999999987   456 6788999998899999999999999887763221 333444566789999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          234 DRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       234 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      +-.|++..+-+ +-+.+....+...+-+.|+.++|+++++++....- -|+-.--.-+..+...+++++|...++++++ 
T Consensus       509 e~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~~~~~~il~~~~~~~eal~~LEeLk~-  585 (638)
T KOG1126|consen  509 EFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCKYHRASILFSLGRYVEALQELEELKE-  585 (638)
T ss_pred             HHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhHHHHHHHHHhhcchHHHHHHHHHHHH-
Confidence            99999988765 34566677777788899999999999999987652 3444444456677788999999999999998 


Q ss_pred             CCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          314 NQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       314 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                       +.|+.... |..+...|.+.|+.+.|..-|.-+.+.
T Consensus       586 -~vP~es~v-~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  586 -LVPQESSV-FALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             -hCcchHHH-HHHHHHHHHHHccchHHHHhhHHHhcC
Confidence             66776665 889999999999999999988887754

>PF13041 PPR_2: PPR repeat family

Probab=99.46  E-value=2e-13  Score=84.61  Aligned_cols=50  Identities=34%  Similarity=0.598  Sum_probs=32.3

Q ss_pred             cCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 017234          212 VNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA  261 (375)
Q Consensus       212 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  261 (375)
                      ||..+||++|.+|++.|++++|.++|++|++.|+.||..||+.+|++|++
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            56666666666666666666666666666666666666666666666653

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.45  E-value=1.8e-10  Score=96.84  Aligned_cols=201  Identities=12%  Similarity=0.099  Sum_probs=137.9

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHH
Q 017234          142 DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLI  221 (375)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll  221 (375)
                      ....+..+...+...|++++|.+.+++..+.  .+.+...+..+...+...|++++|.+.+++..+.... +...+..+.
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~  106 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEH--DPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYG  106 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHH
Confidence            3456666777777777777777777777652  1334556666777777777777777777777766533 556667777


Q ss_pred             HHHHccCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCh
Q 017234          222 HGSLKARDFDSVDRFYEEMMSLGIIP-SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRV  300 (375)
Q Consensus       222 ~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  300 (375)
                      ..+...|++++|.+.+++.......+ ....+..+...+...|++++|...+.+..+.. +.+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            77777788888888887776642222 23456666677778888888888888877653 33456677777888888888


Q ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          301 DELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      ++|...+++..+.. ..+...  +..+...+...|+.++|..+.+.+..
T Consensus       186 ~~A~~~~~~~~~~~-~~~~~~--~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       186 KDARAYLERYQQTY-NQTAES--LWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHhC-CCCHHH--HHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            88888888877652 122222  55667777788888888887777654

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.

>TIGR00540 hemY_coli hemY protein

Probab=99.44  E-value=6.1e-10  Score=101.86  Aligned_cols=271  Identities=9%  Similarity=-0.029  Sum_probs=190.2

Q ss_pred             HHHHHHH---HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCH--hHHHH
Q 017234           74 WDALITS---LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDS--AVFNS  148 (375)
Q Consensus        74 ~~~li~~---~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~  148 (375)
                      +..+..+   +..|+++.|.+.+    .+..+..+.....+-....+..+.|+++.|.+.+.+..+..  |+.  ...-.
T Consensus        85 ~~~~~~glla~~~g~~~~A~~~l----~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~  158 (409)
T TIGR00540        85 QKQTEEALLKLAEGDYAKAEKLI----AKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIA  158 (409)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHH----HHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHH
Confidence            3445555   5899999999994    44444333234445566778889999999999999987653  444  34444


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHH-HHHHHH---
Q 017234          149 LICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYE-SLIHGS---  224 (375)
Q Consensus       149 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-~ll~~~---  224 (375)
                      ....+...|+++.|...++.+.+..  +-+..+...+...+...|++++|.+.+..+.+.++. +...+. .-..++   
T Consensus       159 ~a~l~l~~~~~~~Al~~l~~l~~~~--P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~  235 (409)
T TIGR00540       159 RTRILLAQNELHAARHGVDKLLEMA--PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGL  235 (409)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHH
Confidence            5788889999999999999999832  446678889999999999999999999999998764 333332 111222   


Q ss_pred             HccCChHHHHHHHHHHHHCCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHH-HHHHHHH--HHHcC
Q 017234          225 LKARDFDSVDRFYEEMMSLGI---IPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENM-AQKLVKC--YCELG  298 (375)
Q Consensus       225 ~~~g~~~~a~~~~~~m~~~~~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~--~~~~g  298 (375)
                      ...+..+++.+.+..+.....   +.+...+..+...+...|+.++|.+++++..+..  ||... ...++..  ....+
T Consensus       236 l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~  313 (409)
T TIGR00540       236 LDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPE  313 (409)
T ss_pred             HHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCC
Confidence            233333333445555554421   2377888899999999999999999999998864  34331 1112222  23457


Q ss_pred             ChHHHHHHHHHHHhCCCCCchH--HHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCch
Q 017234          299 RVDELEEQLETLTKCNQSPEVL--LHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAE  358 (375)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  358 (375)
                      +.+.+.+.++...+..  |+..  .. ..++...+.+.|++++|.+.|++.......|+..+
T Consensus       314 ~~~~~~~~~e~~lk~~--p~~~~~~l-l~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~  372 (409)
T TIGR00540       314 DNEKLEKLIEKQAKNV--DDKPKCCI-NRALGQLLMKHGEFIEAADAFKNVAACKEQLDAND  372 (409)
T ss_pred             ChHHHHHHHHHHHHhC--CCChhHHH-HHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHH
Confidence            7888999998887743  4444  32 56888999999999999999996545445555544

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=99.43  E-value=4.4e-09  Score=102.55  Aligned_cols=120  Identities=12%  Similarity=0.046  Sum_probs=83.0

Q ss_pred             HHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHH-H--H-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 017234           42 PLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALI-T--S-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIA  116 (375)
Q Consensus        42 ~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li-~--~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~  116 (375)
                      .++..+...+.. +|...++...    .|+...+..++ .  . ...|++++|+++    ++++....+.++..+..++.
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gdyd~Aiel----y~kaL~~dP~n~~~l~gLa~  144 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKRWDQALAL----WQSSLKKDPTNPDLISGMIM  144 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCCHHHHHHH----HHHHHhhCCCCHHHHHHHHH
Confidence            455555555544 6666666664    66555555544 2  2 366999999999    67777777777788888888


Q ss_pred             HHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHh
Q 017234          117 LSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus       117 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      .+.+.++.++|++.++++...  .|+...+..++..+...++..+|++.++++.+
T Consensus       145 ~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~  197 (822)
T PRK14574        145 TQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVR  197 (822)
T ss_pred             HHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            889999999999999888776  45555554444444445566568888888877

>PRK12370 invasion protein regulator; Provisional

Probab=99.43  E-value=2.3e-10  Score=108.64  Aligned_cols=265  Identities=10%  Similarity=0.003  Sum_probs=188.2

Q ss_pred             CcccHHHHHHH-H-----hcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHh---------ccCChhHHHHHHHHH
Q 017234           70 SQFSWDALITS-L-----QSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSG---------KVQNVPFAMHVFTSM  134 (375)
Q Consensus        70 ~~~~~~~li~~-~-----~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~---------~~~~~~~a~~~~~~m  134 (375)
                      +...|...+.+ .     ..+..++|.+.    +++.....+.+...|..+..++.         ..+++++|...+++.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~----~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~A  330 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKL----LTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKA  330 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHH----HHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHH
Confidence            44556666666 2     12345688888    55666666666777766665543         334588999999999


Q ss_pred             HHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCH
Q 017234          135 EAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNV  214 (375)
Q Consensus       135 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~  214 (375)
                      .+.+ +-+...+..+...+...|++++|...|++..+..  +.+...+..+...+...|++++|...+++..+..+. +.
T Consensus       331 l~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~--P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~  406 (553)
T PRK12370        331 TELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS--PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RA  406 (553)
T ss_pred             HhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-Ch
Confidence            9875 3367888888889999999999999999998721  334567888889999999999999999999987654 33


Q ss_pred             HhHHHHHHHHHccCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC-HHHHHHHHH
Q 017234          215 QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIP-SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN-ENMAQKLVK  292 (375)
Q Consensus       215 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~  292 (375)
                      ..+..++..+...|++++|...+++..+.. .| +...+..+..++...|+.++|...+.++...  .|+ ....+.+..
T Consensus       407 ~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~  483 (553)
T PRK12370        407 AAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYA  483 (553)
T ss_pred             hhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHH
Confidence            334445555677899999999999987664 34 3455677778888999999999999987654  344 344555666


Q ss_pred             HHHHcCChHHHHHHHHHHHhCCC-CCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCC
Q 017234          293 CYCELGRVDELEEQLETLTKCNQ-SPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGL  352 (375)
Q Consensus       293 ~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  352 (375)
                      .|...|  ++|...++.+.+..- .+....  +  +-..|.-.|+-+.+..+ +++.+.|.
T Consensus       484 ~~~~~g--~~a~~~l~~ll~~~~~~~~~~~--~--~~~~~~~~g~~~~~~~~-~~~~~~~~  537 (553)
T PRK12370        484 EYCQNS--ERALPTIREFLESEQRIDNNPG--L--LPLVLVAHGEAIAEKMW-NKFKNEDN  537 (553)
T ss_pred             HHhccH--HHHHHHHHHHHHHhhHhhcCch--H--HHHHHHHHhhhHHHHHH-HHhhccch
Confidence            777777  477777777655321 222221  3  33346677787777766 88887753

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.43  E-value=1.8e-10  Score=96.82  Aligned_cols=201  Identities=13%  Similarity=0.104  Sum_probs=138.7

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      ....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.  .+.+...+..+.
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~~  106 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTL--NPNNGDVLNNYG  106 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHH
Confidence            35566667777777777777777777776553 334566677777777777777777777777752  233445666677


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCC-CcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGF-SVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      ..+...|++++|.+.+++..+... ......+..+...+...|++++|...+++..... +.+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            777777788888877777766422 1234556667777778888888888887777653 23455677777777788888


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          266 DRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      ++|...+++..+. .+.+...+..+...+...|+.++|..+.+.+..
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            8888888877665 244556666777777788888888877776654

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.

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

Probab=99.43  E-value=2.1e-10  Score=95.55  Aligned_cols=225  Identities=16%  Similarity=0.158  Sum_probs=183.4

Q ss_pred             ccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChh------cHHHHHHHHHcCC
Q 017234          120 KVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSK------TYDAFISGFSSLG  193 (375)
Q Consensus       120 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~------~~~~ll~~~~~~~  193 (375)
                      -+.+.++|.++|-+|.+.. +-+..+.-+|.+.|-+.|..|.|+.+.+.+.+    .||..      ....|..-|...|
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~----spdlT~~qr~lAl~qL~~Dym~aG  121 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLE----SPDLTFEQRLLALQQLGRDYMAAG  121 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhc----CCCCchHHHHHHHHHHHHHHHHhh
Confidence            4578999999999999863 33556677888999999999999999999998    36542      3346677789999


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHH
Q 017234          194 NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSI----PILEKVLEGLCARRKLDRVK  269 (375)
Q Consensus       194 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~  269 (375)
                      -+|.|+++|..+.+.+. --.....-|+..|...++|++|.++-+++.+.+-.+..    ..|..+...+....+.+.|.
T Consensus       122 l~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~  200 (389)
T COG2956         122 LLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRAR  200 (389)
T ss_pred             hhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHH
Confidence            99999999999988653 35677889999999999999999999999887644432    45777777777889999999


Q ss_pred             HHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          270 SFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      .++....+.+ +-.+..--.+.+.+...|+++.|.+.++.+.+.+  |+....+-..|..+|.+.|+.++....+.++.+
T Consensus       201 ~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn--~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         201 ELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQN--PEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             HHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhC--hHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            9999998875 3344445556688999999999999999999866  444444489999999999999999999999988


Q ss_pred             CCCC
Q 017234          350 QGLS  353 (375)
Q Consensus       350 ~~~~  353 (375)
                      ..-.
T Consensus       278 ~~~g  281 (389)
T COG2956         278 TNTG  281 (389)
T ss_pred             ccCC
Confidence            6543

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

Probab=99.43  E-value=1.9e-09  Score=92.49  Aligned_cols=300  Identities=10%  Similarity=0.041  Sum_probs=215.4

Q ss_pred             hHHHHHHhhcC--Ccc-hHHHHHHHhhhccCCCCcccHHHHHHH---HhcCChHHHHHHHHHHHHHhhcC-CCCCHHHHH
Q 017234           40 SNPLISRLLQV--PVS-QIKTTLDSVDIFAFNSSQFSWDALITS---LQSSSPKKAQLVLEWRLDKMLKG-NESCLDEYA  112 (375)
Q Consensus        40 ~~~ll~~l~~~--~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~---~~~~~~~~a~~~~~~~~~~m~~~-~~~~~~~~~  112 (375)
                      -..+..++.+-  |+. +|.+++..-...+..|-.   +.++.+   -..|+.+.+=..    +.+..+. +.++...+-
T Consensus        85 ~~~~~egl~~l~eG~~~qAEkl~~rnae~~e~p~l---~~l~aA~AA~qrgd~~~an~y----L~eaae~~~~~~l~v~l  157 (400)
T COG3071          85 RKALNEGLLKLFEGDFQQAEKLLRRNAEHGEQPVL---AYLLAAEAAQQRGDEDRANRY----LAEAAELAGDDTLAVEL  157 (400)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHhhhcCcchHH---HHHHHHHHHHhcccHHHHHHH----HHHHhccCCCchHHHHH
Confidence            34455555443  233 555666555555555533   333333   367777777776    4444433 446777777


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh-------hcHHHH
Q 017234          113 CLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS-------KTYDAF  185 (375)
Q Consensus       113 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------~~~~~l  185 (375)
                      +........|+++.|..-.+++.+.+ +.++........+|.+.|++.+...+...+.+ .+.--+.       .+|+.+
T Consensus       158 trarlll~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~k-a~~l~~~e~~~le~~a~~gl  235 (400)
T COG3071         158 TRARLLLNRRDYPAARENVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRK-AGLLSDEEAARLEQQAWEGL  235 (400)
T ss_pred             HHHHHHHhCCCchhHHHHHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHH-ccCCChHHHHHHHHHHHHHH
Confidence            88888888888888888888887775 34677788888888888888888888888887 5554443       356777


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      +.-....+..+.-...+++.... ...++..-.+++.-+.+.|+.++|.++.++..+++..|.    -.....+.+.++.
T Consensus       236 L~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~  310 (400)
T COG3071         236 LQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDP  310 (400)
T ss_pred             HHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCc
Confidence            77766666666666677666544 233566677788888899999999999999888876665    2222355677888


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHH
Q 017234          266 DRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVG  345 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  345 (375)
                      +.-.+..+.-.+.. +-++-.+.+|...|.+.+.|.+|...|+...+  ..|+..+  |+.+.+++.+.|+..+|.++++
T Consensus       311 ~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~--~~~la~~~~~~g~~~~A~~~r~  385 (400)
T COG3071         311 EPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASD--YAELADALDQLGEPEEAEQVRR  385 (400)
T ss_pred             hHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhh--HHHHHHHHHHcCChHHHHHHHH
Confidence            77777777765542 44568889999999999999999999997776  5577777  9999999999999999999999


Q ss_pred             HHHhCCCCccCch
Q 017234          346 RMGKQGLSFKSAE  358 (375)
Q Consensus       346 ~m~~~~~~~~~~~  358 (375)
                      +....-.+|+.|.
T Consensus       386 e~L~~~~~~~~~s  398 (400)
T COG3071         386 EALLLTRQPNLPS  398 (400)
T ss_pred             HHHHHhcCCCCcc
Confidence            9887666666553

>PF13041 PPR_2: PPR repeat family

Probab=99.41  E-value=8e-13  Score=81.85  Aligned_cols=49  Identities=29%  Similarity=0.508  Sum_probs=28.0

Q ss_pred             CChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHH
Q 017234          177 PNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSL  225 (375)
Q Consensus       177 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  225 (375)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+++|++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555555555555555555555555555555555555555555555554

>PRK12370 invasion protein regulator; Provisional

Probab=99.37  E-value=1.6e-09  Score=102.94  Aligned_cols=235  Identities=9%  Similarity=-0.039  Sum_probs=173.4

Q ss_pred             CCCHHHHHHHHHHHhc-----cCChhHHHHHHHHHHHCCCCc-CHhHHHHHHHHHH---------cCCChHHHHHHHHHH
Q 017234          105 ESCLDEYACLIALSGK-----VQNVPFAMHVFTSMEAQGIKP-DSAVFNSLICACL---------CSGDVVTALSLFEIM  169 (375)
Q Consensus       105 ~~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~---------~~g~~~~a~~~~~~m  169 (375)
                      ..+...|...+.+-..     .+++++|...|++..+.  .| +...|..+..++.         ..+++++|...+++.
T Consensus       253 ~~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~A  330 (553)
T PRK12370        253 LNSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKA  330 (553)
T ss_pred             CCChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHH
Confidence            3566666666666422     23467899999999877  44 4556666655544         234589999999999


Q ss_pred             HhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCH
Q 017234          170 VSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSI  249 (375)
Q Consensus       170 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~  249 (375)
                      .+..  +-+...+..+...+...|++++|...|++..+.++. +...+..+...+...|++++|...+++..+.+.. +.
T Consensus       331 l~ld--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~  406 (553)
T PRK12370        331 TELD--HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RA  406 (553)
T ss_pred             HhcC--CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-Ch
Confidence            8722  345677778888889999999999999999998644 6778888999999999999999999999987522 22


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIR  329 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~  329 (375)
                      ..+..+...+...|++++|...++++.+..-+-++..+..+..++...|+.++|...++++...  .|+.... .+.+..
T Consensus       407 ~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~-~~~l~~  483 (553)
T PRK12370        407 AAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIA-VNLLYA  483 (553)
T ss_pred             hhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHH-HHHHHH
Confidence            3334445556778999999999999876542224556777888899999999999999988664  3433332 566666


Q ss_pred             HHHhhCCHHHHHHHHHHHHhC
Q 017234          330 LYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       330 ~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .|...|  +.|...++++.+.
T Consensus       484 ~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        484 EYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHhccH--HHHHHHHHHHHHH
Confidence            777777  5788877777653

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

Probab=99.36  E-value=3e-09  Score=92.81  Aligned_cols=255  Identities=11%  Similarity=0.107  Sum_probs=147.3

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCC---CCHHHHHHHHHHHhccCChhH-HHHHHHHHHHCCCCcCHhHHHHHHHHHHcC
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNE---SCLDEYACLIALSGKVQNVPF-AMHVFTSMEAQGIKPDSAVFNSLICACLCS  156 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~---~~~~~~~~li~~~~~~~~~~~-a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  156 (375)
                      +.+.+++.|..+    |+++.+..+   .|.++|+.++-.-.....+.- |..++. ..    +--+.|+-.+.+-|.-.
T Consensus       273 y~~rDfD~a~s~----Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~-id----KyR~ETCCiIaNYYSlr  343 (559)
T KOG1155|consen  273 YNQRDFDQAESV----FEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSN-ID----KYRPETCCIIANYYSLR  343 (559)
T ss_pred             hhhhhHHHHHHH----HHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHH-hc----cCCccceeeehhHHHHH
Confidence            466666666666    344444433   456666665544333222211 111111 11    22344555555556666


Q ss_pred             CChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHH
Q 017234          157 GDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRF  236 (375)
Q Consensus       157 g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~  236 (375)
                      ++.++|...|+...+. + +.....|+.+..-|....+...|.+-+...++..+. |-..|-.|..+|.-.+.+.-|+-.
T Consensus       344 ~eHEKAv~YFkRALkL-N-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyY  420 (559)
T KOG1155|consen  344 SEHEKAVMYFKRALKL-N-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPR-DYRAWYGLGQAYEIMKMHFYALYY  420 (559)
T ss_pred             HhHHHHHHHHHHHHhc-C-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCch-hHHHHhhhhHHHHHhcchHHHHHH
Confidence            6777777777777651 1 223455666667777777777777777777666543 667777777777777777777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh----
Q 017234          237 YEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK----  312 (375)
Q Consensus       237 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----  312 (375)
                      |++..... +-|...|.+|..+|.+.++.++|...|......| ..+...+..|.+.|-+.++.++|.+.|+.-.+    
T Consensus       421 fqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~  498 (559)
T KOG1155|consen  421 FQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSEL  498 (559)
T ss_pred             HHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Confidence            77666543 3355677777777777777777777777776655 33556677777777777777777766665443    


Q ss_pred             CCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          313 CNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       313 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      .|...+.....---|..-+.+.+++++|.........
T Consensus       499 eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~  535 (559)
T KOG1155|consen  499 EGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLK  535 (559)
T ss_pred             hcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc
Confidence            1222221111111244555666667666665555443

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

Probab=99.35  E-value=1e-09  Score=95.66  Aligned_cols=165  Identities=9%  Similarity=0.074  Sum_probs=144.4

Q ss_pred             hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 017234          179 SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEG  258 (375)
Q Consensus       179 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  258 (375)
                      +.|+..+.+.|+-.++.++|...|++..+.+.. ....|+.+..-|...++...|.+-|+...+-+ +-|-..|-.|.++
T Consensus       330 ~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQa  407 (559)
T KOG1155|consen  330 PETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQA  407 (559)
T ss_pred             ccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHH
Confidence            346667778888888999999999999998754 67889999999999999999999999999875 5677899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHH
Q 017234          259 LCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLD  338 (375)
Q Consensus       259 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  338 (375)
                      |.-.+...-|+-.|++..+.. +-|...|.+|..+|.+.++.++|++.|......+-. +...  +..|.+.|-+.++.+
T Consensus       408 Yeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~--l~~LakLye~l~d~~  483 (559)
T KOG1155|consen  408 YEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSA--LVRLAKLYEELKDLN  483 (559)
T ss_pred             HHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHH--HHHHHHHHHHHHhHH
Confidence            999999999999999998864 568899999999999999999999999999886543 2233  889999999999999


Q ss_pred             HHHHHHHHHHh
Q 017234          339 DVEYSVGRMGK  349 (375)
Q Consensus       339 ~A~~~~~~m~~  349 (375)
                      +|...|++-.+
T Consensus       484 eAa~~yek~v~  494 (559)
T KOG1155|consen  484 EAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHH
Confidence            99999987766

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

Probab=99.34  E-value=3.9e-10  Score=102.37  Aligned_cols=247  Identities=11%  Similarity=0.053  Sum_probs=189.1

Q ss_pred             ChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCC--CcCHhHHHHHHHHHHcCCChHHH
Q 017234           85 SPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGI--KPDSAVFNSLICACLCSGDVVTA  162 (375)
Q Consensus        85 ~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a  162 (375)
                      +..+|...|    ............+...+..+|-..+++++|.++|+...+...  .-+..+|...+-.+-+.=    +
T Consensus       334 ~~~~A~~~~----~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v----~  405 (638)
T KOG1126|consen  334 NCREALNLF----EKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEV----A  405 (638)
T ss_pred             HHHHHHHHH----HhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhH----H
Confidence            456777774    344343444557888899999999999999999999987531  126778888776553321    2


Q ss_pred             HHH-HHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 017234          163 LSL-FEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMM  241 (375)
Q Consensus       163 ~~~-~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  241 (375)
                      +.. -+++.+.  -+-.+.+|.++.++|+-.++.+.|++.|++..+.... ...+|+.+-.-+....++|.|...|+...
T Consensus       406 Ls~Laq~Li~~--~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al  482 (638)
T KOG1126|consen  406 LSYLAQDLIDT--DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKAL  482 (638)
T ss_pred             HHHHHHHHHhh--CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhh
Confidence            222 2333331  2445689999999999999999999999999986532 78999999999999999999999999887


Q ss_pred             HCCCCCCHHHHHH---HHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCc
Q 017234          242 SLGIIPSIPILEK---VLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPE  318 (375)
Q Consensus       242 ~~~~~p~~~~~~~---li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  318 (375)
                      .    .|...|++   +...|.+.++++.|+-.|+.+.+-+ +-+.+....+...+-+.|+.|+|.+++++....+.+..
T Consensus       483 ~----~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~  557 (638)
T KOG1126|consen  483 G----VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNP  557 (638)
T ss_pred             c----CCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCc
Confidence            4    45555554   5567889999999999999998865 44667778888999999999999999999988665443


Q ss_pred             hHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          319 VLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       319 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ...  |. -+..+...+++++|+..++++++-
T Consensus       558 l~~--~~-~~~il~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  558 LCK--YH-RASILFSLGRYVEALQELEELKEL  586 (638)
T ss_pred             hhH--HH-HHHHHHhhcchHHHHHHHHHHHHh
Confidence            333  44 356678889999999999999864

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

Probab=99.33  E-value=1.1e-10  Score=108.75  Aligned_cols=254  Identities=14%  Similarity=0.107  Sum_probs=135.0

Q ss_pred             HHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC-CCHHHHHHHHHHHhccCChhHHHHHHHH
Q 017234           56 KTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE-SCLDEYACLIALSGKVQNVPFAMHVFTS  133 (375)
Q Consensus        56 ~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~  133 (375)
                      ...+-.+...|+.|+.+||..+|.. |..|+.+.|- +    +.-|.-... .+...|+.++.+..+.++.+.+.     
T Consensus        10 tnfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-i----f~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----   79 (1088)
T KOG4318|consen   10 TNFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-I----FPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----   79 (1088)
T ss_pred             chHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-c----hhhhhcccccccchhHHHHHhcccccccccCCC-----
Confidence            3677788888888888888888888 7788887777 6    444444443 46677888888888888877665     


Q ss_pred             HHHCCCCcCHhHHHHHHHHHHcCCChHH---HHHHHHHHHhC---CCCCCChhcH--------------HHHHHHHHcCC
Q 017234          134 MEAQGIKPDSAVFNSLICACLCSGDVVT---ALSLFEIMVSS---EEYKPNSKTY--------------DAFISGFSSLG  193 (375)
Q Consensus       134 m~~~g~~p~~~~~~~li~~~~~~g~~~~---a~~~~~~m~~~---~~~~~~~~~~--------------~~ll~~~~~~~  193 (375)
                            .|...||..|..+|...||+..   +.+.+......   .|+..-..-+              ...+......|
T Consensus        80 ------ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eg  153 (1088)
T KOG4318|consen   80 ------EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEG  153 (1088)
T ss_pred             ------CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHH
Confidence                  6788888888888888888644   22222222210   1110000000              01111112222


Q ss_pred             CHHHHHHHHHHHHHCC-CCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 017234          194 NVDAMNKWYAANIAAG-FSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFL  272 (375)
Q Consensus       194 ~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  272 (375)
                      .|+.+.+++..+.... ..|..+    .++-+...  +....++....+...-.|+..+|..++.+-...|+.+.|..++
T Consensus       154 lwaqllkll~~~Pvsa~~~p~~v----fLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll  227 (1088)
T KOG4318|consen  154 LWAQLLKLLAKVPVSAWNAPFQV----FLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLL  227 (1088)
T ss_pred             HHHHHHHHHhhCCcccccchHHH----HHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHH
Confidence            2333333332222110 001111    12222211  1122222222221111366666666666666666666666666


Q ss_pred             HHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCC
Q 017234          273 KFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDR  336 (375)
Q Consensus       273 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  336 (375)
                      .+|.+.|++.+..-|..|+-+   .++...++.++..|.+.|+.|+..|  +.-.+..+.+.|+
T Consensus       228 ~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT--~adyvip~l~N~~  286 (1088)
T KOG4318|consen  228 YEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSET--QADYVIPQLSNGQ  286 (1088)
T ss_pred             HHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcch--hHHHHHhhhcchh
Confidence            666666666666555555544   5556666666666666666666666  5555555555443

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

Probab=99.31  E-value=3.5e-10  Score=94.38  Aligned_cols=231  Identities=10%  Similarity=0.012  Sum_probs=195.2

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHH
Q 017234          111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFS  190 (375)
Q Consensus       111 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~  190 (375)
                      -+.+.+.|.+.|.+.+|.+-|+.-.+.  .|-+.||..|-++|.+..+++.|+.++.+-.+  .++-|+....-+...+-
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHHHH
Confidence            367888999999999999999988877  67888999999999999999999999999887  23444444456778888


Q ss_pred             cCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 017234          191 SLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKS  270 (375)
Q Consensus       191 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  270 (375)
                      ..++.++|.++++...+.... ++.....+..+|...++++-|++.|+++...|+ -+...|+.+.-+|.-.++++-++.
T Consensus       302 am~~~~~a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~  379 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLP  379 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHH
Confidence            999999999999999887643 788888888999999999999999999999995 567889999989999999999999


Q ss_pred             HHHHHHhCCCCcC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          271 FLKFLLGGGWKIN--ENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       271 ~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      -|.+.+..--.|+  ..+|..+-......||+..|.+.|+-....+.....   .+|.|.-.-.+.|++++|..+++...
T Consensus       380 sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~e---alnNLavL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  380 SFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGE---ALNNLAVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             HHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHH---HHHhHHHHHhhcCchHHHHHHHHHhh
Confidence            9999877644454  346778888888999999999999988876543322   28888888899999999999999877


Q ss_pred             hC
Q 017234          349 KQ  350 (375)
Q Consensus       349 ~~  350 (375)
                      ..
T Consensus       457 s~  458 (478)
T KOG1129|consen  457 SV  458 (478)
T ss_pred             hh
Confidence            54

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.30  E-value=1.4e-09  Score=99.36  Aligned_cols=241  Identities=14%  Similarity=0.141  Sum_probs=179.7

Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHC-----CC-CcCHh-HHHHHHHHHHcCCChHHHHHHHHHHHhC-----CCC
Q 017234          108 LDEYACLIALSGKVQNVPFAMHVFTSMEAQ-----GI-KPDSA-VFNSLICACLCSGDVVTALSLFEIMVSS-----EEY  175 (375)
Q Consensus       108 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~-~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~~~  175 (375)
                      ..+...+...|...|+++.|+.++.+..+.     |. .|... ..+.+...|...+++++|..+|+++...     ...
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            455666899999999999999999887653     21 23333 3344777888999999999999998762     111


Q ss_pred             CC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC-----CCC-cC-HHhHHHHHHHHHccCChHHHHHHHHHHHHC---C
Q 017234          176 KP-NSKTYDAFISGFSSLGNVDAMNKWYAANIAA-----GFS-VN-VQTYESLIHGSLKARDFDSVDRFYEEMMSL---G  244 (375)
Q Consensus       176 ~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~~-~~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~---~  244 (375)
                      .| -..+++.|..+|.+.|++++|...+++..+.     |.. |. ...++.+...++..+++++|..++....+.   -
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            12 2356778888899999999988887765431     211 22 234667778889999999999998776542   1


Q ss_pred             CCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC--Cc-CHHHHHHHHHHHHHcCChHHHHHHHHH----
Q 017234          245 IIP----SIPILEKVLEGLCARRKLDRVKSFLKFLLGG----GW--KI-NENMAQKLVKCYCELGRVDELEEQLET----  309 (375)
Q Consensus       245 ~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~----  309 (375)
                      ..+    -..+++.|...|...|++++|.++++.++..    +.  .+ ....++.+...|.+.+.+.+|.++|.+    
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            112    2367999999999999999999999988542    12  22 245688899999999999999999987    


Q ss_pred             HHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          310 LTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       310 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      ++..|......+.+|..|...|.+.|+++.|+++.+...
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            445565554555569999999999999999999998776

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

Probab=99.30  E-value=3.3e-10  Score=105.78  Aligned_cols=247  Identities=14%  Similarity=0.112  Sum_probs=175.0

Q ss_pred             CCCCcccccchHHHHHHhhcCCcchHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCH
Q 017234           30 TNTNSTSVSSSNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCL  108 (375)
Q Consensus        30 ~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~  108 (375)
                      ..++.|+..||..+|..||..|+.++..+|.-|.-....-+...|+.++.+ -..++.+.              ...|.+
T Consensus        18 ~~gi~PnRvtyqsLiarYc~~gdieaatif~fm~~ksLpv~e~vf~~lv~sh~~And~En--------------pkep~a   83 (1088)
T KOG4318|consen   18 ISGILPNRVTYQSLIARYCTKGDIEAATIFPFMEIKSLPVREGVFRGLVASHKEANDAEN--------------PKEPLA   83 (1088)
T ss_pred             HhcCCCchhhHHHHHHHHcccCCCccccchhhhhcccccccchhHHHHHhcccccccccC--------------CCCCch
Confidence            468899999999999999999999887799999777777778888888877 55555333              236788


Q ss_pred             HHHHHHHHHHhccCChhH---HHHHHHHH----HHCCCCcCHhH--------------HHHHHHHHHcCCChHHHHHHHH
Q 017234          109 DEYACLIALSGKVQNVPF---AMHVFTSM----EAQGIKPDSAV--------------FNSLICACLCSGDVVTALSLFE  167 (375)
Q Consensus       109 ~~~~~li~~~~~~~~~~~---a~~~~~~m----~~~g~~p~~~~--------------~~~li~~~~~~g~~~~a~~~~~  167 (375)
                      .+|..|..+|..+||+..   +++.+..+    ...|+..-..-              -.+.+....-.|-++.+++++.
T Consensus        84 Dtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~  163 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLA  163 (1088)
T ss_pred             hHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999765   22212211    12232211111              1223333444566667777666


Q ss_pred             HHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCC
Q 017234          168 IMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIP  247 (375)
Q Consensus       168 ~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p  247 (375)
                      .+....-..|    +..+++-+....  ....++........-.|++.+|.+++.+-..+|+.+.|..++.+|++.|.+.
T Consensus       164 ~~Pvsa~~~p----~~vfLrqnv~~n--tpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpi  237 (1088)
T KOG4318|consen  164 KVPVSAWNAP----FQVFLRQNVVDN--TPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPI  237 (1088)
T ss_pred             hCCcccccch----HHHHHHHhccCC--chHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCc
Confidence            6554211112    222344433332  2333444433332225899999999999999999999999999999999988


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCC
Q 017234          248 SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGR  299 (375)
Q Consensus       248 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  299 (375)
                      +.+-|-.|+-+   .++...+..+++-|.+.|+.|+..|+...+-.+...|.
T Consensus       238 r~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  238 RAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             ccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            88777777655   89999999999999999999999999998888877665

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

Probab=99.30  E-value=2e-08  Score=86.23  Aligned_cols=268  Identities=10%  Similarity=0.048  Sum_probs=208.3

Q ss_pred             ccchHHHH--HHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHH
Q 017234           37 VSSSNPLI--SRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYA  112 (375)
Q Consensus        37 ~~~~~~ll--~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~  112 (375)
                      .++.+.++  .+.-+.++. ++-..+.+..+.-..++...+-+.... +.+|+.+.|..-    +++.....+.++.+..
T Consensus       116 ~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~----v~~ll~~~pr~~~vlr  191 (400)
T COG3071         116 QPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN----VDQLLEMTPRHPEVLR  191 (400)
T ss_pred             chHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH----HHHHHHhCcCChHHHH
Confidence            33444454  344444544 566777777665455666556555555 699999999999    6788778888899999


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHCCCCcCH-------hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          113 CLIALSGKVQNVPFAMHVFTSMEAQGIKPDS-------AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       113 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      ....+|.+.|++....+++..+.+.|+-.+.       .+|+.+++-....+..+.-...|++..+  ..+.++..-.++
T Consensus       192 La~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr--~lr~~p~l~~~~  269 (400)
T COG3071         192 LALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPR--KLRNDPELVVAY  269 (400)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccH--HhhcChhHHHHH
Confidence            9999999999999999999999999876554       4688888877777777777788888876  345566667788


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      +.-+.+.|+.++|.++.++-.+.+.+|+    -...-.+.+-++.+.-++..++-.+.. +-+...+.+|-..|.+.+.|
T Consensus       270 a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w  344 (400)
T COG3071         270 AERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLW  344 (400)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHH
Confidence            8899999999999999999999887766    222334567788887777776665542 33447788999999999999


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC
Q 017234          266 DRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSP  317 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  317 (375)
                      .+|...++...+.  .|+..+|+.+..++.+.|+..+|.++.++....-..|
T Consensus       345 ~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~  394 (400)
T COG3071         345 GKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQP  394 (400)
T ss_pred             HHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCC
Confidence            9999999987764  6999999999999999999999999998876433333

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

Probab=99.22  E-value=4.3e-08  Score=92.28  Aligned_cols=285  Identities=12%  Similarity=0.081  Sum_probs=167.9

Q ss_pred             hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHH
Q 017234           54 QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFT  132 (375)
Q Consensus        54 ~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  132 (375)
                      +|.+++.+..+.... ....|-+|-.. -.+|+.+++...    +-.....++.|...|..+.....+.|++.+|.-.|.
T Consensus       157 eA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~----~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~  231 (895)
T KOG2076|consen  157 EAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNF----WLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYS  231 (895)
T ss_pred             HHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHH----HHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHH
Confidence            667777777442222 33446666666 367777777776    333333444566777777777777777777777777


Q ss_pred             HHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh-----hcHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 017234          133 SMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS-----KTYDAFISGFSSLGNVDAMNKWYAANIA  207 (375)
Q Consensus       133 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----~~~~~ll~~~~~~~~~~~a~~~~~~m~~  207 (375)
                      +..+.. +++...+-.-+..|-+.|+...|..-|.++.+..  +|..     ..-...+..+...++.+.|.+.++....
T Consensus       232 rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~--p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s  308 (895)
T KOG2076|consen  232 RAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLD--PPVDIERIEDLIRRVAHYFITHNERERAAKALEGALS  308 (895)
T ss_pred             HHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            777664 4455555556667777788888877777777621  1211     1222345556666666777777766555


Q ss_pred             C-CCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCC---------------------------CCCCHHHHHHHHHHH
Q 017234          208 A-GFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLG---------------------------IIPSIPILEKVLEGL  259 (375)
Q Consensus       208 ~-~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~---------------------------~~p~~~~~~~li~~~  259 (375)
                      . +-..+...+++++..+.+...++.|......+....                           ..++... ..++-++
T Consensus       309 ~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL  387 (895)
T KOG2076|consen  309 KEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICL  387 (895)
T ss_pred             hccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhh
Confidence            2 122355567777778888888888777776665511                           1112111 1122233


Q ss_pred             HhcCCHHHHHHHHHHHHhCCC--CcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCH
Q 017234          260 CARRKLDRVKSFLKFLLGGGW--KINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRL  337 (375)
Q Consensus       260 ~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  337 (375)
                      .+....+....+...+.+..+  .-+...|.-+..+|...|++++|..+|..+......-+...  |-.+..+|...|.+
T Consensus       388 ~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~v--w~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  388 VHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFV--WYKLARCYMELGEY  465 (895)
T ss_pred             hcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhh--hHHHHHHHHHHhhH
Confidence            344444444444444444442  23445566667777777777777777777665443333222  66677777777777


Q ss_pred             HHHHHHHHHHHh
Q 017234          338 DDVEYSVGRMGK  349 (375)
Q Consensus       338 ~~A~~~~~~m~~  349 (375)
                      ++|.+.|+....
T Consensus       466 e~A~e~y~kvl~  477 (895)
T KOG2076|consen  466 EEAIEFYEKVLI  477 (895)
T ss_pred             HHHHHHHHHHHh
Confidence            777777776664

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

Probab=99.21  E-value=2.8e-09  Score=89.11  Aligned_cols=226  Identities=13%  Similarity=0.109  Sum_probs=186.9

Q ss_pred             HHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhH-HHHHHHHHH
Q 017234           77 LITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAV-FNSLICACL  154 (375)
Q Consensus        77 li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~-~~~li~~~~  154 (375)
                      +-++ ++.|-+.+|.+.++..+.     ..|-+.||..|-+.|.+-.++..|+.++.+-.+.  -|-..| ..-+.+.+-
T Consensus       229 ~gkCylrLgm~r~AekqlqssL~-----q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  229 MGKCYLRLGMPRRAEKQLQSSLT-----QFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHhcChhhhHHHHHHHhh-----cCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHH
Confidence            4455 699999999999632222     2356678888999999999999999999988776  454444 456777888


Q ss_pred             cCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHH
Q 017234          155 CSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVD  234 (375)
Q Consensus       155 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~  234 (375)
                      ..++.++|.++|+...+..  +.++....++...|.-.++++.|+..+.++.+.|+. ++..|+.+.-+|...++++-++
T Consensus       302 am~~~~~a~~lYk~vlk~~--~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLH--PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcC--CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhH
Confidence            8899999999999998732  456677778888899999999999999999999997 9999999999999999999999


Q ss_pred             HHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          235 RFYEEMMSLGIIPSI--PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       235 ~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      .-|.+....--.|+.  ..|-.+-......|++..|.+.|+..+..+ ..+...++.|.-.-.+.|+++.|..+++....
T Consensus       379 ~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  379 PSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            999888765433443  467778888889999999999999998775 45678899999888999999999999998876


Q ss_pred             C
Q 017234          313 C  313 (375)
Q Consensus       313 ~  313 (375)
                      .
T Consensus       458 ~  458 (478)
T KOG1129|consen  458 V  458 (478)
T ss_pred             h
Confidence            3

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

Probab=99.19  E-value=3.2e-08  Score=86.33  Aligned_cols=204  Identities=13%  Similarity=0.070  Sum_probs=150.4

Q ss_pred             HcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHH
Q 017234          154 LCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSV  233 (375)
Q Consensus       154 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a  233 (375)
                      ..+|++++|.+.|++... ..-.-....|| +.-.+-..|++++|++.|-++...-. .+..+...+.+.|-...+...|
T Consensus       501 f~ngd~dka~~~ykeal~-ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~-nn~evl~qianiye~led~aqa  577 (840)
T KOG2003|consen  501 FANGDLDKAAEFYKEALN-NDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILL-NNAEVLVQIANIYELLEDPAQA  577 (840)
T ss_pred             eecCcHHHHHHHHHHHHc-CchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHH-hhHHHHHHHHHHHHHhhCHHHH
Confidence            456888899988888876 21111112222 22345677888999988877654422 3677777788888888888888


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          234 DRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       234 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      .+++-..... ++.|+...+.|...|-+.|+-.+|.+.+-+--. -++.+..+...|...|....-++++...|++..- 
T Consensus       578 ie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaal-  654 (840)
T KOG2003|consen  578 IELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL-  654 (840)
T ss_pred             HHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh-
Confidence            8887555432 345678889999999999999999888765543 2667888999999999999999999999998765 


Q ss_pred             CCCCchHHHHHHHHHHHH-HhhCCHHHHHHHHHHHHhCCCCccCchhHHHHHHHHHHhh
Q 017234          314 NQSPEVLLHFFSGIIRLY-ALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESWFIWKVG  371 (375)
Q Consensus       314 ~~~~~~~~~~~~~li~~~-~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~  371 (375)
                       +.|+...  |..+|..| .+.|+++.|++++++...+     .|.++.-+.++..++|
T Consensus       655 -iqp~~~k--wqlmiasc~rrsgnyqka~d~yk~~hrk-----fpedldclkflvri~~  705 (840)
T KOG2003|consen  655 -IQPNQSK--WQLMIASCFRRSGNYQKAFDLYKDIHRK-----FPEDLDCLKFLVRIAG  705 (840)
T ss_pred             -cCccHHH--HHHHHHHHHHhcccHHHHHHHHHHHHHh-----CccchHHHHHHHHHhc
Confidence             6687777  88777655 5679999999999998765     5666666777666655

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

Probab=99.17  E-value=7.3e-08  Score=91.44  Aligned_cols=274  Identities=12%  Similarity=0.080  Sum_probs=157.1

Q ss_pred             CcccHHHHHHHHhcCChHHHHHHHHHHHHHhhcCCC-CCHHHHHHHHHHHhccCChhHHHHHHHHHHHC---CCCcCH--
Q 017234           70 SQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNE-SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQ---GIKPDS--  143 (375)
Q Consensus        70 ~~~~~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~~--  143 (375)
                      |...|-.+-..+..+++..++..+..+.+.+...+. +.+...|.+.......|+++.|...|...+..   ...++.  
T Consensus       413 d~~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~  492 (1018)
T KOG2002|consen  413 DSEAWLELAQLLEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGK  492 (1018)
T ss_pred             cHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccc
Confidence            444555555557888888889998887776665554 67888999999999999999999999888755   122333  


Q ss_pred             ----hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh-hcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHH
Q 017234          144 ----AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS-KTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYE  218 (375)
Q Consensus       144 ----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  218 (375)
                          .+--.+..++-..++.+.|.+.|..+...   -|+- ..|-.++......+...+|...+++..+..- .++..++
T Consensus       493 ~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke---hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~-~np~ars  568 (1018)
T KOG2002|consen  493 STNLTLKYNLARLLEELHDTEVAEEMYKSILKE---HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDS-SNPNARS  568 (1018)
T ss_pred             cchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH---CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhccc-CCcHHHH
Confidence                23334555556667788888888887762   2433 2333333333344556666666666655432 2444555


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHh------------cCCHHHHHHHHHHHHhCCCCcCHH
Q 017234          219 SLIHGSLKARDFDSVDRFYEEMMSL-GIIPSIPILEKVLEGLCA------------RRKLDRVKSFLKFLLGGGWKINEN  285 (375)
Q Consensus       219 ~ll~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~------------~g~~~~a~~~~~~~~~~~~~~~~~  285 (375)
                      .+...+....++..|.+-|+..... ...+|..+.-.|.+.|..            .+..++|+++|.+.++.. +-|..
T Consensus       569 l~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~y  647 (1018)
T KOG2002|consen  569 LLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMY  647 (1018)
T ss_pred             HHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhh
Confidence            5555555555555555544444332 112444444444443321            123445555555555443 33444


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCC-CCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCC
Q 017234          286 MAQKLVKCYCELGRVDELEEQLETLTKCNQ-SPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGL  352 (375)
Q Consensus       286 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  352 (375)
                      .-|-+.-.++..|++..|..+|...++... .++  +  |-.+.++|...|+|..|+++|+...++-.
T Consensus       648 AANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~d--v--~lNlah~~~e~~qy~~AIqmYe~~lkkf~  711 (1018)
T KOG2002|consen  648 AANGIGIVLAEKGRFSEARDIFSQVREATSDFED--V--WLNLAHCYVEQGQYRLAIQMYENCLKKFY  711 (1018)
T ss_pred             hccchhhhhhhccCchHHHHHHHHHHHHHhhCCc--e--eeeHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            555555555556666666666665555433 111  1  44555566666666666666655544433

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

Probab=99.15  E-value=2.2e-07  Score=87.64  Aligned_cols=271  Identities=14%  Similarity=0.109  Sum_probs=208.2

Q ss_pred             CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHH
Q 017234           70 SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNS  148 (375)
Q Consensus        70 ~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  148 (375)
                      |...|..+-.. .+.|.+++|.-.    +.+..+..+++...+---+..|-+.|+...|..-|.++.....+.|..-+..
T Consensus       206 d~e~W~~ladls~~~~~i~qA~~c----y~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d  281 (895)
T KOG2076|consen  206 DYELWKRLADLSEQLGNINQARYC----YSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIED  281 (895)
T ss_pred             ChHHHHHHHHHHHhcccHHHHHHH----HHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHH
Confidence            56778877777 688999999998    6777778888888888888999999999999999999998753333333333


Q ss_pred             ----HHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCc------------
Q 017234          149 ----LICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSV------------  212 (375)
Q Consensus       149 ----li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~------------  212 (375)
                          ++..+...++-+.|.+.++......+-..+...++.++..+.+...++.|.....++.....++            
T Consensus       282 ~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~  361 (895)
T KOG2076|consen  282 LIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRR  361 (895)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhcc
Confidence                4555667788899999998887744455677788999999999999999999888887632222            


Q ss_pred             ---------------CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 017234          213 ---------------NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGI--IPSIPILEKVLEGLCARRKLDRVKSFLKFL  275 (375)
Q Consensus       213 ---------------~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  275 (375)
                                     +..++ -++-++.+.+..+....+.....+..+  .-+...|.-+..++...|++..|..++..+
T Consensus       362 ~~~~~~~~~~~~~s~~l~v~-rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i  440 (895)
T KOG2076|consen  362 EEPNALCEVGKELSYDLRVI-RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPI  440 (895)
T ss_pred             ccccccccCCCCCCccchhH-hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence                           22231 223344455555555556666666653  334578999999999999999999999999


Q ss_pred             HhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          276 LGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       276 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      ......-+..+|-.+.++|...|.++.|.+.++......  |+..-. --.|-..+-+.|+.++|.+++..+.
T Consensus       441 ~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~--p~~~D~-Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  441 TNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA--PDNLDA-RITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             hcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCchhh-hhhHHHHHHhcCCHHHHHHHHhccc
Confidence            887555678899999999999999999999999998854  433322 3457777899999999999999876

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.11  E-value=1.6e-07  Score=82.06  Aligned_cols=218  Identities=12%  Similarity=-0.012  Sum_probs=148.2

Q ss_pred             hcCChHHHHHHHHHHHHHhhcCCC----CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCC
Q 017234           82 QSSSPKKAQLVLEWRLDKMLKGNE----SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSG  157 (375)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~m~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  157 (375)
                      ..+..+.++..    +.++.....    .....|..+...+.+.|+.+.|...|++..+.. +.+...|+.+...+...|
T Consensus        38 ~~~~~e~~i~~----~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g  112 (296)
T PRK11189         38 PTLQQEVILAR----LNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAG  112 (296)
T ss_pred             CchHHHHHHHH----HHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCC
Confidence            33455666666    444443332    224567888888899999999999999988874 336788999999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHH
Q 017234          158 DVVTALSLFEIMVSSEEYKP-NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRF  236 (375)
Q Consensus       158 ~~~~a~~~~~~m~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~  236 (375)
                      ++++|...|+...+   +.| +..++..+..++...|++++|.+.|++..+..+. +. ........+...+++++|...
T Consensus       113 ~~~~A~~~~~~Al~---l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~-~~-~~~~~~~l~~~~~~~~~A~~~  187 (296)
T PRK11189        113 NFDAAYEAFDSVLE---LDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPN-DP-YRALWLYLAESKLDPKQAKEN  187 (296)
T ss_pred             CHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CH-HHHHHHHHHHccCCHHHHHHH
Confidence            99999999999987   245 4567778888888899999999999998886533 22 222222334456789999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCC---cCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 017234          237 YEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG---GWK---INENMAQKLVKCYCELGRVDELEEQLETL  310 (375)
Q Consensus       237 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~  310 (375)
                      |++..... .|+...+ .+  .....|+...+ ..+..+.+.   ...   .....|..+...+.+.|++++|...|++.
T Consensus       188 l~~~~~~~-~~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~A  262 (296)
T PRK11189        188 LKQRYEKL-DKEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLA  262 (296)
T ss_pred             HHHHHhhC-CccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            97655432 3332222 22  22335555444 344444422   111   12357888888999999999999999998


Q ss_pred             HhCC
Q 017234          311 TKCN  314 (375)
Q Consensus       311 ~~~~  314 (375)
                      .+.+
T Consensus       263 l~~~  266 (296)
T PRK11189        263 LANN  266 (296)
T ss_pred             HHhC
Confidence            8754

>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=99.10  E-value=4.6e-07  Score=83.96  Aligned_cols=255  Identities=13%  Similarity=0.125  Sum_probs=186.1

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHH-HHHHHHHHcC---
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVF-NSLICACLCS---  156 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~-~~li~~~~~~---  156 (375)
                      ...|++++|++.    +..-....+.....+......+.+.|+.++|..++..+.+.+  |+-..| ..+..+..-.   
T Consensus        15 ~e~g~~~~AL~~----L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   15 EEAGDYEEALEH----LEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHCCCHHHHHHH----HHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhccc
Confidence            478999999999    554433334557777888999999999999999999999985  555554 4555554222   


Q ss_pred             --CChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCH-HHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHH
Q 017234          157 --GDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNV-DAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSV  233 (375)
Q Consensus       157 --g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a  233 (375)
                        .+.+...++|+++...   -|.......+.-.+.....+ ..+...+..+...|++   .+|+.|-..|......+-.
T Consensus        89 ~~~~~~~~~~~y~~l~~~---yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i  162 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEK---YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAII  162 (517)
T ss_pred             ccccHHHHHHHHHHHHHh---CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHH
Confidence              3578889999999873   36655555554344433333 3455666777888865   4477777777766666666


Q ss_pred             HHHHHHHHHC----C----------CCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC-HHHHHHHHHHHHH
Q 017234          234 DRFYEEMMSL----G----------IIPSI--PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN-ENMAQKLVKCYCE  296 (375)
Q Consensus       234 ~~~~~~m~~~----~----------~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~  296 (375)
                      .+++......    +          -.|+.  .++..+.+.|-..|++++|..++++.++..  |+ +..|..-.+.+-+
T Consensus       163 ~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~KarilKh  240 (517)
T PF12569_consen  163 ESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT--PTLVELYMTKARILKH  240 (517)
T ss_pred             HHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHH
Confidence            6666665432    1          12343  456677788889999999999999999863  54 6788889999999


Q ss_pred             cCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCC
Q 017234          297 LGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGL  352 (375)
Q Consensus       297 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  352 (375)
                      .|++++|.+.++..++.+..- ...  -+-.+..+.+.|++++|.+++......+.
T Consensus       241 ~G~~~~Aa~~~~~Ar~LD~~D-Ryi--NsK~aKy~LRa~~~e~A~~~~~~Ftr~~~  293 (517)
T PF12569_consen  241 AGDLKEAAEAMDEARELDLAD-RYI--NSKCAKYLLRAGRIEEAEKTASLFTREDV  293 (517)
T ss_pred             CCCHHHHHHHHHHHHhCChhh-HHH--HHHHHHHHHHCCCHHHHHHHHHhhcCCCC
Confidence            999999999999999866432 333  56778888999999999999999988776

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 [], [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.09  E-value=1.2e-07  Score=82.72  Aligned_cols=220  Identities=11%  Similarity=0.004  Sum_probs=158.1

Q ss_pred             cCChhHHHHHHHHHHHCC-CCcC--HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHH
Q 017234          121 VQNVPFAMHVFTSMEAQG-IKPD--SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDA  197 (375)
Q Consensus       121 ~~~~~~a~~~~~~m~~~g-~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~  197 (375)
                      .++.+.++.-+.++.... ..|+  ...|..+...+.+.|+.++|...|++..+.  -+.+...|+.+...+...|++++
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~~~~~g~~~~  116 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALAL--RPDMADAYNYLGIYLTQAGNFDA  116 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCCHHH
Confidence            346677777777777542 1222  456888888999999999999999999872  24457889999999999999999


Q ss_pred             HHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          198 MNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       198 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      |.+.|++..+..+. +..+|..+..++...|++++|.+.|+...+.+  |+..........+...++.++|...+.+...
T Consensus       117 A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~  193 (296)
T PRK11189        117 AYEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYE  193 (296)
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            99999999987644 67788889999999999999999999998864  4432222222234467889999999977654


Q ss_pred             CCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC-----CCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          278 GGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCN-----QSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       278 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                      .. .|+...+ .  ......|+.+.+ +.++.+.+..     ..|. ....|..+...+.+.|++++|...|++..+.+
T Consensus       194 ~~-~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~-~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        194 KL-DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAER-LCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             hC-CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            32 3332222 2  233346666554 3555554321     1111 12238889999999999999999999999765

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.09  E-value=9.2e-08  Score=87.59  Aligned_cols=251  Identities=14%  Similarity=0.124  Sum_probs=178.4

Q ss_pred             HhhhccCCCCcc--cHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC---CCHHH-HHHHHHHHhccCChhHHHHHHHH
Q 017234           61 SVDIFAFNSSQF--SWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE---SCLDE-YACLIALSGKVQNVPFAMHVFTS  133 (375)
Q Consensus        61 ~m~~~~~~p~~~--~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~---~~~~~-~~~li~~~~~~~~~~~a~~~~~~  133 (375)
                      .+...|..+...  +...+... ..+|++++|..++.+.++.......   |...+ .+.+...|...+++.+|..+|++
T Consensus       187 ~~~~~~~~~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~  266 (508)
T KOG1840|consen  187 QAKGLGDEDPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEE  266 (508)
T ss_pred             HHHhcccCCchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            334444444332  33334444 5999999999999988887544433   33222 33466788999999999999998


Q ss_pred             HHHC-----CC-Cc-CHhHHHHHHHHHHcCCChHHHHHHHHHHHhC----CC-CCCChh-cHHHHHHHHHcCCCHHHHHH
Q 017234          134 MEAQ-----GI-KP-DSAVFNSLICACLCSGDVVTALSLFEIMVSS----EE-YKPNSK-TYDAFISGFSSLGNVDAMNK  200 (375)
Q Consensus       134 m~~~-----g~-~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~~~~~~-~~~~ll~~~~~~~~~~~a~~  200 (375)
                      +...     |- .| -..+++.|-.+|.+.|++++|...++...+-    .+ ..|.+. .++.+...++..+++++|..
T Consensus       267 AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~  346 (508)
T KOG1840|consen  267 ALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKK  346 (508)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHH
Confidence            8742     21 12 2457888888999999999888877766541    11 122222 35667778899999999999


Q ss_pred             HHHHHHHC---CCCc----CHHhHHHHHHHHHccCChHHHHHHHHHHHHC-----C-CCC-CHHHHHHHHHHHHhcCCHH
Q 017234          201 WYAANIAA---GFSV----NVQTYESLIHGSLKARDFDSVDRFYEEMMSL-----G-IIP-SIPILEKVLEGLCARRKLD  266 (375)
Q Consensus       201 ~~~~m~~~---~~~~----~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-----~-~~p-~~~~~~~li~~~~~~g~~~  266 (375)
                      ++....+.   -+.+    -..+++.|...|...|++++|.++|++....     | ..+ ....++.+...|.+.++.+
T Consensus       347 l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~  426 (508)
T KOG1840|consen  347 LLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYE  426 (508)
T ss_pred             HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccc
Confidence            98865432   1222    2468999999999999999999999988643     1 122 2456888889999999999


Q ss_pred             HHHHHHHHHHh----CCC-CcC-HHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          267 RVKSFLKFLLG----GGW-KIN-ENMAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       267 ~a~~~~~~~~~----~~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                      .|.++|.+...    .|. .|+ ..+|..|...|.+.|++++|.++.+.+.
T Consensus       427 ~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  427 EAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            99988887532    221 233 4679999999999999999999988865

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

Probab=99.08  E-value=2.2e-07  Score=74.38  Aligned_cols=188  Identities=15%  Similarity=0.083  Sum_probs=94.7

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVV  160 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  160 (375)
                      +..|+...|.+-    +++..+..+.+..+|..+...|.+.|+.+.|.+.|++..+.. +-+..+.|+....+|..|+++
T Consensus        46 L~~gd~~~A~~n----lekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg~~~  120 (250)
T COG3063          46 LQQGDYAQAKKN----LEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQGRPE  120 (250)
T ss_pred             HHCCCHHHHHHH----HHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCCChH
Confidence            355555555555    344444445555555555555555555555555555555442 123445555555555555555


Q ss_pred             HHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 017234          161 TALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       161 ~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      +|...|++........--..||..+.-+..+.|+.+.|.+.|++-.+.... ...+.-.+.....+.|++-.|...++..
T Consensus       121 eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~~~~~~  199 (250)
T COG3063         121 EAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARLYLERY  199 (250)
T ss_pred             HHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHHHHHHH
Confidence            555555555542222222344555555555555555555555555554332 3344444555555555555555555555


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 017234          241 MSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFL  275 (375)
Q Consensus       241 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  275 (375)
                      ...+. ++..+.-..|..--..|+.+.+.+.=.++
T Consensus       200 ~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL  233 (250)
T COG3063         200 QQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQL  233 (250)
T ss_pred             Hhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            54442 44444444444444555555554444443

>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=99.06  E-value=6.4e-07  Score=83.02  Aligned_cols=290  Identities=11%  Similarity=0.079  Sum_probs=201.1

Q ss_pred             HhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH--HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcc-
Q 017234           46 RLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS--LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKV-  121 (375)
Q Consensus        46 ~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~--~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~-  121 (375)
                      .+...|.. +|.+.+..-  .+.-+|..+|.-.-..  .+.|+.++|...    +..+...++.|..-|..+..+..-. 
T Consensus        13 il~e~g~~~~AL~~L~~~--~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~----y~~Li~rNPdn~~Yy~~L~~~~g~~~   86 (517)
T PF12569_consen   13 ILEEAGDYEEALEHLEKN--EKQILDKLAVLEKRAELLLKLGRKEEAEKI----YRELIDRNPDNYDYYRGLEEALGLQL   86 (517)
T ss_pred             HHHHCCCHHHHHHHHHhh--hhhCCCHHHHHHHHHHHHHHcCCHHHHHHH----HHHHHHHCCCcHHHHHHHHHHHhhhc
Confidence            34555655 666666553  3355666666554444  599999999999    6788888888888888888777333 


Q ss_pred             ----CChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChH-HHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHH
Q 017234          122 ----QNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVV-TALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVD  196 (375)
Q Consensus       122 ----~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~-~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~  196 (375)
                          .+.+...++++++.+.  -|.......+.-.+.....+. .+..++..+.. .|+++   +|+.|-..|....+.+
T Consensus        87 ~~~~~~~~~~~~~y~~l~~~--yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~-KgvPs---lF~~lk~Ly~d~~K~~  160 (517)
T PF12569_consen   87 QLSDEDVEKLLELYDELAEK--YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLR-KGVPS---LFSNLKPLYKDPEKAA  160 (517)
T ss_pred             ccccccHHHHHHHHHHHHHh--CccccchhHhhcccCCHHHHHHHHHHHHHHHHh-cCCch---HHHHHHHHHcChhHHH
Confidence                2567788888888765  244444433333333322333 34556666666 56554   5666666677666666


Q ss_pred             HHHHHHHHHHHC----C----------CCcCH--HhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 017234          197 AMNKWYAANIAA----G----------FSVNV--QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPS-IPILEKVLEGL  259 (375)
Q Consensus       197 ~a~~~~~~m~~~----~----------~~~~~--~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~  259 (375)
                      -..+++......    +          -+|+.  .++.-+...|...|++++|++.+++..++  .|+ +..|..-...+
T Consensus       161 ~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~Karil  238 (517)
T PF12569_consen  161 IIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARIL  238 (517)
T ss_pred             HHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH
Confidence            666666665432    1          12333  34566677888999999999999999987  466 57788888889


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHH------HHHHHHHHHHh
Q 017234          260 CARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLH------FFSGIIRLYAL  333 (375)
Q Consensus       260 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~------~~~~li~~~~~  333 (375)
                      -+.|++++|.+.++...+.. .-|-.+-+-.+..+.+.|++++|.+++......+..|.....      .......+|.+
T Consensus       239 Kh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r  317 (517)
T PF12569_consen  239 KHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLR  317 (517)
T ss_pred             HHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999998876 346777777888899999999999999998776654433221      12456788899


Q ss_pred             hCCHHHHHHHHHHHHhC
Q 017234          334 SDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       334 ~g~~~~A~~~~~~m~~~  350 (375)
                      .|++..|++-|....+.
T Consensus       318 ~~~~~~ALk~~~~v~k~  334 (517)
T PF12569_consen  318 QGDYGLALKRFHAVLKH  334 (517)
T ss_pred             HhhHHHHHHHHHHHHHH
Confidence            99999998888777653

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 [], [].

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

Probab=99.05  E-value=1.2e-06  Score=78.90  Aligned_cols=263  Identities=11%  Similarity=-0.011  Sum_probs=164.4

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHH---HHHHHhccCChhHHHHHHHHHHHCCCCcC-HhHHHHHHHHHHcC
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYAC---LIALSGKVQNVPFAMHVFTSMEAQGIKPD-SAVFNSLICACLCS  156 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~  156 (375)
                      ...|++++|.+.+    ++.....+.|...+..   ........+....+.+.+..  .....|+ ......+...+...
T Consensus        54 ~~~g~~~~A~~~~----~~~l~~~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~  127 (355)
T cd05804          54 WIAGDLPKALALL----EQLLDDYPRDLLALKLHLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEA  127 (355)
T ss_pred             HHcCCHHHHHHHH----HHHHHHCCCcHHHHHHhHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHc
Confidence            5899999999994    4544445555555552   22222234555666666654  1122333 34555666788899


Q ss_pred             CChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-cCH--HhHHHHHHHHHccCChHHH
Q 017234          157 GDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFS-VNV--QTYESLIHGSLKARDFDSV  233 (375)
Q Consensus       157 g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~--~~~~~ll~~~~~~g~~~~a  233 (375)
                      |++++|...+++..+.  .+.+...+..+...+...|++++|...+++....... |+.  ..|..+...+...|++++|
T Consensus       128 G~~~~A~~~~~~al~~--~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A  205 (355)
T cd05804         128 GQYDRAEEAARRALEL--NPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAA  205 (355)
T ss_pred             CCHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999972  2445667788889999999999999999998775432 232  3456788899999999999


Q ss_pred             HHHHHHHHHCCC-CCCHHHH-H--HHHHHHHhcCCHHHHHHH--HHHHHhCCC--CcCHHHHHHHHHHHHHcCChHHHHH
Q 017234          234 DRFYEEMMSLGI-IPSIPIL-E--KVLEGLCARRKLDRVKSF--LKFLLGGGW--KINENMAQKLVKCYCELGRVDELEE  305 (375)
Q Consensus       234 ~~~~~~m~~~~~-~p~~~~~-~--~li~~~~~~g~~~~a~~~--~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~  305 (375)
                      ..++++...... .+..... +  .++.-+...|....+.++  +........  ............++...|+.+.|..
T Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~  285 (355)
T cd05804         206 LAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDK  285 (355)
T ss_pred             HHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHH
Confidence            999999864432 1222211 1  233333444544333333  211111111  1112222356778889999999999


Q ss_pred             HHHHHHhCCCC----Cc--hHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          306 QLETLTKCNQS----PE--VLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       306 ~~~~~~~~~~~----~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                      +++.+......    ..  .....--...-++...|++++|.+.+.+.....
T Consensus       286 ~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         286 LLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            99988663222    00  111112222334568899999999998887653

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.

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

Probab=99.02  E-value=1e-06  Score=70.60  Aligned_cols=199  Identities=12%  Similarity=0.036  Sum_probs=152.5

Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHH
Q 017234          110 EYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGF  189 (375)
Q Consensus       110 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~  189 (375)
                      +..-|.-.|.+.|+...|..-+++..+.+ +-+..+|..+...|-+.|+.+.|.+-|++....  -+-+..+.|....-+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHH
Confidence            45567778888888888888888888874 335668888888888888888888888888762  134556777888888


Q ss_pred             HcCCCHHHHHHHHHHHHHCC-CCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 017234          190 SSLGNVDAMNKWYAANIAAG-FSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRV  268 (375)
Q Consensus       190 ~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  268 (375)
                      |..|++++|...|++....- ...-..+|..+.-+..+.|+++.|...|++-.+.. +-...+.-.+.....+.|++-.|
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHH
Confidence            88888888888888877641 11235678888888888888888888888888765 23346677788888888888888


Q ss_pred             HHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          269 KSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       269 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      ..+++.....+. ++....-..|+.-.+.|+-+.+.+.=..+...
T Consensus       193 r~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         193 RLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             HHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            888888877764 78888888888888888888877776666653

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

Probab=99.02  E-value=2.1e-06  Score=81.93  Aligned_cols=255  Identities=11%  Similarity=0.026  Sum_probs=121.4

Q ss_pred             CCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCC--cCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcH
Q 017234          105 ESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIK--PDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTY  182 (375)
Q Consensus       105 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  182 (375)
                      ..|+.+.+.|.+.|.-.|+++.+..+...+......  .-...|-.+.++|-..|++++|...|.+..+   ..|+..++
T Consensus       267 ~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k---~~~d~~~l  343 (1018)
T KOG2002|consen  267 NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLK---ADNDNFVL  343 (1018)
T ss_pred             CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc---cCCCCccc
Confidence            344445555555555555555555555444433111  1122344455555555555555555544443   12332222


Q ss_pred             --HHHHHHHHcCCCHHHHHHHHHHHHHCCCC-------------------------------------cCHHhHHHHHHH
Q 017234          183 --DAFISGFSSLGNVDAMNKWYAANIAAGFS-------------------------------------VNVQTYESLIHG  223 (375)
Q Consensus       183 --~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-------------------------------------~~~~~~~~ll~~  223 (375)
                        --|...|.+.|+.+.+...|+...+..+.                                     .|...|-.+...
T Consensus       344 ~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql  423 (1018)
T KOG2002|consen  344 PLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQL  423 (1018)
T ss_pred             cccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence              23344444555555544444444443211                                     134444444443


Q ss_pred             HHccCChHHHHHHHHH----HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCC------cCHHHHHHH
Q 017234          224 SLKARDFDSVDRFYEE----MMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG---GWK------INENMAQKL  290 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~----m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~------~~~~~~~~l  290 (375)
                      +-.. +...++.+|..    +...+..+.....|.+.......|+++.|...|......   ...      ++..+-..+
T Consensus       424 ~e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNl  502 (1018)
T KOG2002|consen  424 LEQT-DPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNL  502 (1018)
T ss_pred             HHhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHH
Confidence            3332 22222444332    233444455566666666666777777777777666443   111      222233335


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHHHHHHHH
Q 017234          291 VKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESWFIW  368 (375)
Q Consensus       291 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~  368 (375)
                      .+.+-..++.+.|.+++..+.+..  |.-... |--+...-...+...+|...+++.....-.  .|+..+++..+.+
T Consensus       503 arl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~-ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~--np~arsl~G~~~l  575 (1018)
T KOG2002|consen  503 ARLLEELHDTEVAEEMYKSILKEH--PGYIDA-YLRLGCMARDKNNLYEASLLLKDALNIDSS--NPNARSLLGNLHL  575 (1018)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHHC--chhHHH-HHHhhHHHHhccCcHHHHHHHHHHHhcccC--CcHHHHHHHHHHH
Confidence            555666667777777777666643  322221 333332223335666777777777654332  6666666653333

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

Probab=98.98  E-value=1.1e-05  Score=73.94  Aligned_cols=283  Identities=10%  Similarity=0.047  Sum_probs=193.2

Q ss_pred             hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC-CCHHHHHHHHHHHhccCChhHHHHHH
Q 017234           54 QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE-SCLDEYACLIALSGKVQNVPFAMHVF  131 (375)
Q Consensus        54 ~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~  131 (375)
                      .+..+++..+ ..+..+...|.+-... -.+|+.+...+++.+-+..+...|. -+...|-.=...|-..|..-.+..+.
T Consensus       424 nAkkvLNkaR-e~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi  502 (913)
T KOG0495|consen  424 NAKKVLNKAR-EIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAII  502 (913)
T ss_pred             HHHHHHHHHH-hhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHH
Confidence            4566666664 3466677778655555 5889999999998877778877776 67788888888888888888888888


Q ss_pred             HHHHHCCCCcC--HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCC
Q 017234          132 TSMEAQGIKPD--SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAG  209 (375)
Q Consensus       132 ~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  209 (375)
                      ......|+.-.  ..||+.-...|.+.+.++-|..+|....+.  ++-+...|......=-..|..+....+|++....-
T Consensus       503 ~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv--fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~  580 (913)
T KOG0495|consen  503 RAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV--FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC  580 (913)
T ss_pred             HHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh--ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            88887776532  457888888888888888888888887762  34445556666555556677777777777776654


Q ss_pred             CCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHH
Q 017234          210 FSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQK  289 (375)
Q Consensus       210 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  289 (375)
                      + .....|-....-+-..|+...|..++....+.. +-+...|-.-+..-....+++.|..+|.+....  .|+..+|.-
T Consensus       581 p-kae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mK  656 (913)
T KOG0495|consen  581 P-KAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMK  656 (913)
T ss_pred             C-cchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHH
Confidence            3 356666666667777777777777777776654 224566666666677777777777777776553  456666666


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHH
Q 017234          290 LVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGR  346 (375)
Q Consensus       290 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  346 (375)
                      -+..--..++.++|.+++++..+.  -|+..-. |-.+.+.+-+.++++.|.+.|..
T Consensus       657 s~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl-~lmlGQi~e~~~~ie~aR~aY~~  710 (913)
T KOG0495|consen  657 SANLERYLDNVEEALRLLEEALKS--FPDFHKL-WLMLGQIEEQMENIEMAREAYLQ  710 (913)
T ss_pred             HhHHHHHhhhHHHHHHHHHHHHHh--CCchHHH-HHHHhHHHHHHHHHHHHHHHHHh
Confidence            566556667777777777666552  2332221 55666666666666666666544

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

Probab=98.97  E-value=5.5e-06  Score=75.97  Aligned_cols=257  Identities=9%  Similarity=0.062  Sum_probs=160.1

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVV  160 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  160 (375)
                      ...|+...|..+    +.+..+..+.+...|-..++.-....+++.|..+|.+....  .|+..+|..-+..-.-.+..+
T Consensus       595 w~agdv~~ar~i----l~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~e  668 (913)
T KOG0495|consen  595 WKAGDVPAARVI----LDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVE  668 (913)
T ss_pred             HhcCCcHHHHHH----HHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHH
Confidence            456666666666    34444444556666666666666666777777776666553  456666655555555566666


Q ss_pred             HHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 017234          161 TALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       161 ~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      +|.+++++..+.  ++--...|-.+...+-+.++.+.|.+.|..-.+. ++-.+..|-.|...=-+.|.+-.|..+++.-
T Consensus       669 eA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildra  745 (913)
T KOG0495|consen  669 EALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRA  745 (913)
T ss_pred             HHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            677666666652  2222234445555556666666666665543332 2234556666666666677788888888887


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-----------------------------CCcCHHHHHHHH
Q 017234          241 MSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGG-----------------------------WKINENMAQKLV  291 (375)
Q Consensus       241 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----------------------------~~~~~~~~~~li  291 (375)
                      ...+ +-+...|-..|..-.+.|+.+.|..++.+.++.-                             +.-|+.+...+.
T Consensus       746 rlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia  824 (913)
T KOG0495|consen  746 RLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIA  824 (913)
T ss_pred             HhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHH
Confidence            7765 4566778888888888888888888777765431                             122444444555


Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          292 KCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       292 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ..+-...++++|.+.|.+..+.+.... .+  |.-+...+..+|.-++-.++++.....
T Consensus       825 ~lfw~e~k~~kar~Wf~Ravk~d~d~G-D~--wa~fykfel~hG~eed~kev~~~c~~~  880 (913)
T KOG0495|consen  825 KLFWSEKKIEKAREWFERAVKKDPDNG-DA--WAWFYKFELRHGTEEDQKEVLKKCETA  880 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHccCCccc-hH--HHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            566666677777777777776553332 22  666777777777777777777666543

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

Probab=98.97  E-value=6.3e-07  Score=79.20  Aligned_cols=223  Identities=9%  Similarity=0.005  Sum_probs=168.8

Q ss_pred             HhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHH
Q 017234          118 SGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDA  197 (375)
Q Consensus       118 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~  197 (375)
                      +.-.|+.-.|..-|+...+....++ ..|--+..+|....+.++..+.|++..+..  +.++.+|..-...+.-.+++++
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld--p~n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLD--PENPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcC--CCCCchhHhHHHHHHHHHHHHH
Confidence            3456888889999988887753322 237777788899999999999999998732  4456677777777777889999


Q ss_pred             HHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          198 MNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       198 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      |..=|++.....+. +...|--+-.+.-+.+++++++..|++.+++- +-.+..|+.....+...+++++|.+.|+...+
T Consensus       413 A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkF-P~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  413 AIADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKKF-PNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-CCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            99999998887654 67777777777788889999999999998873 33467888889999999999999999998876


Q ss_pred             CC-----C--CcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          278 GG-----W--KINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       278 ~~-----~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      ..     +  .+.+.+.-.++..-- .+++..|..++.+..+.+  |..... |..|...-.+.|++++|+++|++-..
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~D--pkce~A-~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELD--PKCEQA-YETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hccccccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccC--chHHHH-HHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            32     1  122233333333322 388999999999998855  433333 88899999999999999999987653

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

Probab=98.94  E-value=1.6e-06  Score=78.08  Aligned_cols=260  Identities=10%  Similarity=0.079  Sum_probs=186.2

Q ss_pred             hHHHHHHHhh-hccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHH
Q 017234           54 QIKTTLDSVD-IFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVF  131 (375)
Q Consensus        54 ~~~~~~~~m~-~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  131 (375)
                      +..++.+... ..++.++.  +..-|.+ ...|+..+-..+    --++.+..+..+.+|-++...|.-.|+.++|.+.|
T Consensus       262 ~c~kit~~lle~dpfh~~~--~~~~ia~l~el~~~n~Lf~l----sh~LV~~yP~~a~sW~aVg~YYl~i~k~seARry~  335 (611)
T KOG1173|consen  262 ECLKITEELLEKDPFHLPC--LPLHIACLYELGKSNKLFLL----SHKLVDLYPSKALSWFAVGCYYLMIGKYSEARRYF  335 (611)
T ss_pred             HHHHHhHHHHhhCCCCcch--HHHHHHHHHHhcccchHHHH----HHHHHHhCCCCCcchhhHHHHHHHhcCcHHHHHHH
Confidence            4466666653 33444443  3334445 677777666666    45666666677888888888888889999999999


Q ss_pred             HHHHHCCCCcC-HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCC
Q 017234          132 TSMEAQGIKPD-SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGF  210 (375)
Q Consensus       132 ~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  210 (375)
                      .+....+  |+ ...|-.....|+-.|..|+|+.-|...-+.  ++-...-+--+.--|.+.+..+.|.+.|.+....-+
T Consensus       336 SKat~lD--~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl--~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~P  411 (611)
T KOG1173|consen  336 SKATTLD--PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL--MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIAP  411 (611)
T ss_pred             HHHhhcC--ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh--ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcCC
Confidence            8776542  32 457888888888889999998888877651  122222233344567788889999999988877654


Q ss_pred             CcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC----C--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH
Q 017234          211 SVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL----G--IIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINE  284 (375)
Q Consensus       211 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  284 (375)
                      . |+...+-+.-..-..+.+.+|..+|+..+..    +  ..-...+++.|..+|.+.+.+++|...+++.+... +-|.
T Consensus       412 ~-Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~  489 (611)
T KOG1173|consen  412 S-DPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDA  489 (611)
T ss_pred             C-cchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCch
Confidence            3 7888888877777788899999888877621    1  11245678888889999999999999999888764 5578


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 017234          285 NMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIR  329 (375)
Q Consensus       285 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~  329 (375)
                      .++.++.-.|...|+++.|...|.+...  +.|+..+  -..++.
T Consensus       490 ~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~--~~~lL~  530 (611)
T KOG1173|consen  490 STHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIF--ISELLK  530 (611)
T ss_pred             hHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHH--HHHHHH
Confidence            8889988899999999999999988766  5676554  344444

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

Probab=98.94  E-value=7.8e-06  Score=71.04  Aligned_cols=305  Identities=14%  Similarity=0.029  Sum_probs=199.9

Q ss_pred             CCCcccccchHHHHHHhhcCC---cchHHHHHHHhhhccC-CCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC
Q 017234           31 NTNSTSVSSSNPLISRLLQVP---VSQIKTTLDSVDIFAF-NSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE  105 (375)
Q Consensus        31 ~~~~~~~~~~~~ll~~l~~~~---~~~~~~~~~~m~~~~~-~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~  105 (375)
                      ..+.|..++...=+.++++..   ...+-.++........ +-|+.....+... +..|+.++|...|    ++....++
T Consensus       188 ~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~F----e~~~~~dp  263 (564)
T KOG1174|consen  188 ATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIF----SSTLCANP  263 (564)
T ss_pred             eecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHH----HHHhhCCh
Confidence            344555555555555554443   2244444444433333 3345555556666 6888888888884    44443343


Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          106 SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       106 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      -+......-...+.+.|+.+....+...+.... +-+...|-.-........+++.|+.+-++..+..  +.+...|-.-
T Consensus       264 y~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~--~r~~~alilK  340 (564)
T KOG1174|consen  264 DNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE--PRNHEALILK  340 (564)
T ss_pred             hhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC--cccchHHHhc
Confidence            333333333444556777777777776665442 2344555555666677788888888888887621  3344455555


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHH-hcC
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVL-EGLC-ARR  263 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li-~~~~-~~g  263 (375)
                      ...+...+++++|.-.|.......+ -+...|.-|+.+|...|.+.+|.-.-++..+. +..+..+.+.+. ..|. ...
T Consensus       341 G~lL~~~~R~~~A~IaFR~Aq~Lap-~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~  418 (564)
T KOG1174|consen  341 GRLLIALERHTQAVIAFRTAQMLAP-YRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPR  418 (564)
T ss_pred             cHHHHhccchHHHHHHHHHHHhcch-hhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCch
Confidence            6677888999999999988877643 37889999999999999999988766555432 123344444331 2222 334


Q ss_pred             CHHHHHHHHHHHHhCCCCcC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHH
Q 017234          264 KLDRVKSFLKFLLGGGWKIN-ENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEY  342 (375)
Q Consensus       264 ~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  342 (375)
                      .-++|..+++..+..  .|+ ....+.+...+...|..+++..+++.-..  ..|+...  .+.|.+.+...+.+++|.+
T Consensus       419 ~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~L--H~~Lgd~~~A~Ne~Q~am~  492 (564)
T KOG1174|consen  419 MREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNL--HNHLGDIMRAQNEPQKAME  492 (564)
T ss_pred             hHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHH--HHHHHHHHHHhhhHHHHHH
Confidence            458888888877654  344 44567778889999999999999998876  4566666  7899999999999999999


Q ss_pred             HHHHHHhC
Q 017234          343 SVGRMGKQ  350 (375)
Q Consensus       343 ~~~~m~~~  350 (375)
                      .|......
T Consensus       493 ~y~~ALr~  500 (564)
T KOG1174|consen  493 YYYKALRQ  500 (564)
T ss_pred             HHHHHHhc
Confidence            99877654

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

Probab=98.94  E-value=4e-07  Score=79.70  Aligned_cols=238  Identities=10%  Similarity=0.015  Sum_probs=137.9

Q ss_pred             ChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHH
Q 017234           85 SPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALS  164 (375)
Q Consensus        85 ~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  164 (375)
                      ++..|.+.    -+.......-+......--+.....|+++.|...+.+....+-.-....|| +.-.+-..|++++|++
T Consensus       471 ~~~~aqqy----ad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald  545 (840)
T KOG2003|consen  471 DFADAQQY----ADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALD  545 (840)
T ss_pred             chhHHHHH----HHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHH
Confidence            34444444    333333333344444333444455677777777777776553222222232 2334456677777777


Q ss_pred             HHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCC
Q 017234          165 LFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLG  244 (375)
Q Consensus       165 ~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~  244 (375)
                      .|-++..  -+..+..+...+.+.|-...+...|.+++-+.... ++.|+....-|...|-+.|+-..|.+.+-+--+- 
T Consensus       546 ~f~klh~--il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-  621 (840)
T KOG2003|consen  546 CFLKLHA--ILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-  621 (840)
T ss_pred             HHHHHHH--HHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-
Confidence            7766654  23445566666777777777777777777665544 3346677777777777777777777665544332 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHH-HHHHcCChHHHHHHHHHHHhCCCCCchHHHH
Q 017234          245 IIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVK-CYCELGRVDELEEQLETLTKCNQSPEVLLHF  323 (375)
Q Consensus       245 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~-~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  323 (375)
                      .+-+..|...|...|....=++++..+|+...-  +.|+..-|..++. ++.+.|++.+|..+++....+ +.-+...  
T Consensus       622 fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldc--  696 (840)
T KOG2003|consen  622 FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDC--  696 (840)
T ss_pred             cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHH--
Confidence            244566666666666666667777777766543  4577777766663 345567777777777766543 2223333  


Q ss_pred             HHHHHHHHHhhCC
Q 017234          324 FSGIIRLYALSDR  336 (375)
Q Consensus       324 ~~~li~~~~~~g~  336 (375)
                      ..-|++.+...|-
T Consensus       697 lkflvri~~dlgl  709 (840)
T KOG2003|consen  697 LKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHhccccc
Confidence            4445555555553

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

Probab=98.90  E-value=1.5e-05  Score=71.74  Aligned_cols=263  Identities=9%  Similarity=-0.052  Sum_probs=162.6

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHH----cC
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACL----CS  156 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~----~~  156 (375)
                      ...++++.+...+.......... .............+...|++++|.+.+++..+.. +.+...+.. ...+.    ..
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~   93 (355)
T cd05804          17 LLGGERPAAAAKAAAAAQALAAR-ATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFS   93 (355)
T ss_pred             HhcCCcchHHHHHHHHHHHhccC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccc
Confidence            35677777766643322222211 1112223333455678899999999999988763 334444442 22222    34


Q ss_pred             CChHHHHHHHHHHHhCCCCCCCh-hcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHH
Q 017234          157 GDVVTALSLFEIMVSSEEYKPNS-KTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDR  235 (375)
Q Consensus       157 g~~~~a~~~~~~m~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~  235 (375)
                      +..+.+.+.+...   ....|+. .....+...+...|++++|.+.+++..+..+. +...+..+...+...|++++|..
T Consensus        94 ~~~~~~~~~l~~~---~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~~~~g~~~eA~~  169 (355)
T cd05804          94 GMRDHVARVLPLW---APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHVLEMQGRFKEGIA  169 (355)
T ss_pred             cCchhHHHHHhcc---CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHH
Confidence            5555666655542   2223433 34445667888999999999999999997644 67788899999999999999999


Q ss_pred             HHHHHHHCCC-CCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CcCHHHH-H--HHHHHHHHcCChHHHHHH--
Q 017234          236 FYEEMMSLGI-IPSI--PILEKVLEGLCARRKLDRVKSFLKFLLGGGW-KINENMA-Q--KLVKCYCELGRVDELEEQ--  306 (375)
Q Consensus       236 ~~~~m~~~~~-~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~-~--~li~~~~~~g~~~~a~~~--  306 (375)
                      .+++...... .|+.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+...|..+.+.+.  
T Consensus       170 ~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~  249 (355)
T cd05804         170 FMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWED  249 (355)
T ss_pred             HHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHH
Confidence            9999887532 2332  3455678889999999999999999864432 1222211 1  334444445544433333  


Q ss_pred             -HHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          307 -LETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       307 -~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                       ..........+ ...........++...|+.++|..+++.+....
T Consensus       250 ~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~  294 (355)
T cd05804         250 LADYAAWHFPDH-GLAFNDLHAALALAGAGDKDALDKLLAALKGRA  294 (355)
T ss_pred             HHHHHHhhcCcc-cchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence             22211111111 111112356777889999999999999987643

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.

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

Probab=98.89  E-value=5.8e-07  Score=79.38  Aligned_cols=221  Identities=14%  Similarity=0.114  Sum_probs=174.5

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVV  160 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  160 (375)
                      +..|++..+.+.    ++......+.+...|--+...|....+.++..+.|+...+.+ +-++.+|..-.....-.++++
T Consensus       337 fL~g~~~~a~~d----~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e  411 (606)
T KOG0547|consen  337 FLKGDSLGAQED----FDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYE  411 (606)
T ss_pred             hhcCCchhhhhh----HHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHH
Confidence            378899999999    566666666444447778889999999999999999998876 337778888888888889999


Q ss_pred             HHHHHHHHHHhCCCCCC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHH
Q 017234          161 TALSLFEIMVSSEEYKP-NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEE  239 (375)
Q Consensus       161 ~a~~~~~~m~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~  239 (375)
                      +|..=|++.+.   +.| +...|-.+..+..+.+.+++++..|++.++.- +..+.+|+.....+...++++.|.+.|+.
T Consensus       412 ~A~aDF~Kai~---L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkF-P~~~Evy~~fAeiLtDqqqFd~A~k~YD~  487 (606)
T KOG0547|consen  412 EAIADFQKAIS---LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKF-PNCPEVYNLFAEILTDQQQFDKAVKQYDK  487 (606)
T ss_pred             HHHHHHHHHhh---cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-CCCchHHHHHHHHHhhHHhHHHHHHHHHH
Confidence            99999999987   234 45677778888889999999999999998874 44788999999999999999999999999


Q ss_pred             HHHCCCC-----CCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          240 MMSLGII-----PSI--PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       240 m~~~~~~-----p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      ..+....     .+.  ..--.++ .+.-.+++..|..++....+.. +-....|..|...-.+.|++++|.++|++-..
T Consensus       488 ai~LE~~~~~~~v~~~plV~Ka~l-~~qwk~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  488 AIELEPREHLIIVNAAPLVHKALL-VLQWKEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHhhccccccccccchhhhhhhHh-hhchhhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            8764211     111  1111111 1223489999999999998865 33556799999999999999999999998654

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

Probab=98.88  E-value=2.7e-07  Score=79.68  Aligned_cols=247  Identities=12%  Similarity=0.089  Sum_probs=147.2

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCC-CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCCh
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNE-SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDV  159 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  159 (375)
                      +-.|++..++.-    .+ ...... .+......+.+++...|+++.++   .++.+.. .|.......+...+...++-
T Consensus        12 fy~G~Y~~~i~e----~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen   12 FYLGNYQQCINE----AS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HCTT-HHHHCHH----HH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTH
T ss_pred             HHhhhHHHHHHH----hh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccch
Confidence            567777777755    23 222222 34455556777777888766543   3443333 55655554444444333455


Q ss_pred             HHHHHHHHHHHhCCCCCCChhcHH-HHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHH
Q 017234          160 VTALSLFEIMVSSEEYKPNSKTYD-AFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYE  238 (375)
Q Consensus       160 ~~a~~~~~~m~~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~  238 (375)
                      +.++.-+++... ....++..++. .....+...|++++|+++++.-      .+.......+..|.+.++++.|.+.++
T Consensus        83 e~~l~~l~~~~~-~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~  155 (290)
T PF04733_consen   83 ESALEELKELLA-DQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELK  155 (290)
T ss_dssp             HCHHHHHHHCCC-TS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHH-hccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHH
Confidence            556555555443 22222222332 3334566778888888877542      356667777888888888888888888


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          239 EMMSLGIIPSIPILEKVLEGLCA----RRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       239 ~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      .|.+.+   +..+...+..++..    ...+++|..+|+++.+. +.+++.+.+.+..+....|++++|++++.+..+.+
T Consensus       156 ~~~~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~  231 (290)
T PF04733_consen  156 NMQQID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD  231 (290)
T ss_dssp             HHHCCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-
T ss_pred             HHHhcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc
Confidence            888642   33445555555442    23688888888887664 56788888888888888888998888888876544


Q ss_pred             CCCchHHHHHHHHHHHHHhhCCH-HHHHHHHHHHHhC
Q 017234          315 QSPEVLLHFFSGIIRLYALSDRL-DDVEYSVGRMGKQ  350 (375)
Q Consensus       315 ~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~  350 (375)
                        |..... ...++.+....|+. +.+.+++.+++..
T Consensus       232 --~~~~d~-LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  232 --PNDPDT-LANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             --CCHHHH-HHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             --cCCHHH-HHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence              333322 44456666666666 6677888887754

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.

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

Probab=98.88  E-value=9.5e-06  Score=73.18  Aligned_cols=268  Identities=12%  Similarity=0.082  Sum_probs=148.7

Q ss_pred             hcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHH
Q 017234           82 QSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVT  161 (375)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  161 (375)
                      ..+++.+..++    .+......++....+..=|..+...|+..+-.-+=.++.+.- +-.+.+|-++..-|.-.|+.++
T Consensus       256 ~~c~f~~c~ki----t~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~se  330 (611)
T KOG1173|consen  256 YGCRFKECLKI----TEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSE  330 (611)
T ss_pred             HcChHHHHHHH----hHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHH
Confidence            44445555555    334444444444444444445555555444443334444331 2234455555555555555555


Q ss_pred             HHHHHHHHHhCCCCCCC-hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 017234          162 ALSLFEIMVSSEEYKPN-SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       162 a~~~~~~m~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      |.+.|.+...   +.|+ ...|-.+...|.-.|..+.|...+...-+.=..... -+--+.--|.+.++.+-|.+.|...
T Consensus       331 ARry~SKat~---lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hl-P~LYlgmey~~t~n~kLAe~Ff~~A  406 (611)
T KOG1173|consen  331 ARRYFSKATT---LDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHL-PSLYLGMEYMRTNNLKLAEKFFKQA  406 (611)
T ss_pred             HHHHHHHHhh---cCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcc-hHHHHHHHHHHhccHHHHHHHHHHH
Confidence            5555555443   1222 124445555555555555555555444332110000 0111223355566677777776665


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----C--CCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          241 MSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG----G--WKINENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       241 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      .... +.|+...+.+.-.....+.+.+|..+|+..++.    +  ...-..+++.|..+|.+.+.+++|...+++.....
T Consensus       407 ~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~  485 (611)
T KOG1173|consen  407 LAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS  485 (611)
T ss_pred             HhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC
Confidence            5432 345566666666666778888888888876521    1  11244567888888889999999998888877643


Q ss_pred             CCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHHHH
Q 017234          315 QSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMES  364 (375)
Q Consensus       315 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~  364 (375)
                      .+ +..+  +.++.-.|...|+++.|++.|.+..  .+.|+.....+.++
T Consensus       486 ~k-~~~~--~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  486 PK-DAST--HASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLK  530 (611)
T ss_pred             CC-chhH--HHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHH
Confidence            22 2333  7788888888899999999888876  45565554444444

>PF12854 PPR_1: PPR repeat

Probab=98.87  E-value=3e-09  Score=59.25  Aligned_cols=32  Identities=38%  Similarity=0.580  Sum_probs=15.9

Q ss_pred             CCCcCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 017234          209 GFSVNVQTYESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       209 ~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      |+.||..||++||.+|++.|++++|.++|++|
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

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

Probab=98.86  E-value=3.8e-06  Score=82.95  Aligned_cols=237  Identities=8%  Similarity=0.081  Sum_probs=159.2

Q ss_pred             HHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHC-CCCc---CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCC
Q 017234           98 DKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQ-GIKP---DSAVFNSLICACLCSGDVVTALSLFEIMVSSE  173 (375)
Q Consensus        98 ~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  173 (375)
                      ++.....+.+...|-.-|....+.++++.|.++.++.+.. ++.-   -...|.++++.-...|.-+...++|+++.+ .
T Consensus      1448 erlvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcq-y 1526 (1710)
T KOG1070|consen 1448 ERLVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQ-Y 1526 (1710)
T ss_pred             HHHHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHH-h
Confidence            3344444555666777777777888888888888777643 1111   123566666666666777777888888876 2


Q ss_pred             CCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCC---HH
Q 017234          174 EYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPS---IP  250 (375)
Q Consensus       174 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~  250 (375)
                        --....|..|+..|.+.+..++|-++++.|.+.-- .....|...+..+.+..+-++|..++.+..+.  .|.   ..
T Consensus      1527 --cd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~ 1601 (1710)
T KOG1070|consen 1527 --CDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVE 1601 (1710)
T ss_pred             --cchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHH
Confidence              12234577777888888888888888888876522 36677888888888888888888888777664  233   33


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHH
Q 017234          251 ILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRL  330 (375)
Q Consensus       251 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~  330 (375)
                      .....++.-.+.|+.+.+..+|+..+... +--...|+.++++-.+.|+.+.++.+|++....++.|-..-..|.-.+.-
T Consensus      1602 ~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLey 1680 (1710)
T KOG1070|consen 1602 FISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEY 1680 (1710)
T ss_pred             HHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHH
Confidence            34444555567788888888888776653 33456788888888888888888888888888777776555556666665


Q ss_pred             HHhhCCHHHHH
Q 017234          331 YALSDRLDDVE  341 (375)
Q Consensus       331 ~~~~g~~~~A~  341 (375)
                      =-+.|+-+.+.
T Consensus      1681 Ek~~Gde~~vE 1691 (1710)
T KOG1070|consen 1681 EKSHGDEKNVE 1691 (1710)
T ss_pred             HHhcCchhhHH
Confidence            55556644333

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

Probab=98.86  E-value=2.6e-05  Score=69.04  Aligned_cols=88  Identities=14%  Similarity=0.104  Sum_probs=43.3

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHH
Q 017234          261 ARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDV  340 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  340 (375)
                      +.++++.+..+++..++-+ +-|..+|......=...|+.+.|..+|.-..+... .+.....|.+.|+-=...|.++.|
T Consensus       449 qL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~-ldmpellwkaYIdFEi~~~E~eka  526 (677)
T KOG1915|consen  449 QLREFDRCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPA-LDMPELLWKAYIDFEIEEGEFEKA  526 (677)
T ss_pred             HHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcc-cccHHHHHHHhhhhhhhcchHHHH
Confidence            3334444444444444433 22334444444444455555555555555444321 222222355555555666666666


Q ss_pred             HHHHHHHHhC
Q 017234          341 EYSVGRMGKQ  350 (375)
Q Consensus       341 ~~~~~~m~~~  350 (375)
                      ..+++++++.
T Consensus       527 R~LYerlL~r  536 (677)
T KOG1915|consen  527 RALYERLLDR  536 (677)
T ss_pred             HHHHHHHHHh
Confidence            6666666654

>PF12854 PPR_1: PPR repeat

Probab=98.83  E-value=5.1e-09  Score=58.31  Aligned_cols=32  Identities=38%  Similarity=0.591  Sum_probs=18.1

Q ss_pred             CCCcCHhHHHHHHHHHHcCCChHHHHHHHHHH
Q 017234          138 GIKPDSAVFNSLICACLCSGDVVTALSLFEIM  169 (375)
Q Consensus       138 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  169 (375)
                      |+.||..|||.||++|++.|++++|.++|++|
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            45555555555555555555555555555555

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

Probab=98.76  E-value=5.2e-06  Score=76.99  Aligned_cols=218  Identities=14%  Similarity=0.082  Sum_probs=173.3

Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHc
Q 017234          112 ACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSS  191 (375)
Q Consensus       112 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~  191 (375)
                      -.+...+.+.|-...|..+|++..         .|..+|.+|...|+..+|..+..+..+   -+||...|..+.+....
T Consensus       402 ~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~le---k~~d~~lyc~LGDv~~d  469 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELE---KDPDPRLYCLLGDVLHD  469 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhc---CCCcchhHHHhhhhccC
Confidence            456667778888888988888754         466788999999999999999888876   27899999999988888


Q ss_pred             CCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 017234          192 LGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSF  271 (375)
Q Consensus       192 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  271 (375)
                      ..-+++|.++++.....       +-..+.....+.++++++.+.|+.-.+.+ +.-..+|-.+-.+..+.++++.+.+.
T Consensus       470 ~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~a  541 (777)
T KOG1128|consen  470 PSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKA  541 (777)
T ss_pred             hHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHH
Confidence            88889999998765432       12222222334789999999998877764 34567888888888899999999999


Q ss_pred             HHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          272 LKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                      |....... +-+...||.+-.+|.+.|+-.+|...+.+..+.+..+ ...  |...+....+.|.+++|++.+.++.+..
T Consensus       542 F~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~-w~i--WENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  542 FHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQH-WQI--WENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             HHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCC-Cee--eechhhhhhhcccHHHHHHHHHHHHHhh
Confidence            99987643 3345679999999999999999999999999987444 333  8888889999999999999999998754


Q ss_pred             CC
Q 017234          352 LS  353 (375)
Q Consensus       352 ~~  353 (375)
                      ..
T Consensus       618 ~~  619 (777)
T KOG1128|consen  618 KK  619 (777)
T ss_pred             hh
Confidence            43

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.72  E-value=7.1e-06  Score=69.27  Aligned_cols=61  Identities=13%  Similarity=0.183  Sum_probs=40.4

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhCCCC-CchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          289 KLVKCYCELGRVDELEEQLETLTKCNQS-PEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       289 ~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .+...+.+.|++++|...++...+.... |.. ...+..+..++.+.|++++|..+++.+...
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~-~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPAT-EEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcch-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4455677778888888888777765332 221 112667777888888888888877777543

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).

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

Probab=98.71  E-value=8.4e-07  Score=76.59  Aligned_cols=223  Identities=9%  Similarity=0.005  Sum_probs=142.8

Q ss_pred             HHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCH
Q 017234          116 ALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNV  195 (375)
Q Consensus       116 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~  195 (375)
                      +-+.-.|++..++.-.+ .....-..+.....-+.+++...|+.+.++   .+... .. .|.......+...+...++-
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~-~~-~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKK-SS-SPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-T-TS-SCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhcc-CC-ChhHHHHHHHHHHHhCccch
Confidence            33445688888876555 222222223455667788899999877544   45544 22 67777776666555544555


Q ss_pred             HHHHHHHHHHHHCCCC-cCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 017234          196 DAMNKWYAANIAAGFS-VNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKF  274 (375)
Q Consensus       196 ~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  274 (375)
                      +.+..-+++....... .+....-.....+...|++++|++++..-      .+.......+..+.+.++++.|.+.++.
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~  156 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKN  156 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5555555544333322 23333344445677789999999887542      4567778889999999999999999999


Q ss_pred             HHhCCCCcCHHHHHHHHHHH----HHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          275 LLGGGWKINENMAQKLVKCY----CELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       275 ~~~~~~~~~~~~~~~li~~~----~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      |.+.+  .|.. ...+..++    .-.+.+.+|..+|+++.+. ..++..+  .+.+..+....|++++|.+++.+..+.
T Consensus       157 ~~~~~--eD~~-l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~--lng~A~~~l~~~~~~eAe~~L~~al~~  230 (290)
T PF04733_consen  157 MQQID--EDSI-LTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKL--LNGLAVCHLQLGHYEEAEELLEEALEK  230 (290)
T ss_dssp             HHCCS--CCHH-HHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHH--HHHHHHHHHHCT-HHHHHHHHHHHCCC
T ss_pred             HHhcC--CcHH-HHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHH--HHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            98753  4433 33344433    3344699999999998775 3455555  889999999999999999999998754


Q ss_pred             CCCccCch
Q 017234          351 GLSFKSAE  358 (375)
Q Consensus       351 ~~~~~~~~  358 (375)
                        .|+.|+
T Consensus       231 --~~~~~d  236 (290)
T PF04733_consen  231 --DPNDPD  236 (290)
T ss_dssp             ---CCHHH
T ss_pred             --ccCCHH
Confidence              344544

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.

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

Probab=98.68  E-value=1.8e-05  Score=78.37  Aligned_cols=235  Identities=13%  Similarity=0.093  Sum_probs=184.2

Q ss_pred             cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC-CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHH
Q 017234           71 QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE-SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNS  148 (375)
Q Consensus        71 ~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  148 (375)
                      ...|-..+.- +..++.++|.+++++++..+.-... .-...|-++++.-...|.-+...++|++..+.  .-....|..
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~~ 1535 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHLK 1535 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHHH
Confidence            4556666666 7999999999998877766632222 45678888888888889889999999999876  223557889


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-cCHHhHHHHHHHHHcc
Q 017234          149 LICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFS-VNVQTYESLIHGSLKA  227 (375)
Q Consensus       149 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~  227 (375)
                      |...|.+.+++++|.++++.|.+.  +......|...+..+.+..+-+.|.+++.+..+.-++ -......-.+..-.+.
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KK--F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKK--FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHH--hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            999999999999999999999984  4467788999999999999999999999998775322 1334445555666789


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH--HHHHHHHHHHHHcCChHHHHH
Q 017234          228 RDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINE--NMAQKLVKCYCELGRVDELEE  305 (375)
Q Consensus       228 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~  305 (375)
                      |+.+.+..+|+...... +--...|+..|..-.++|+.+.+..+|+++...++.|--  ..|.-.+..=...|+-+.++.
T Consensus      1614 GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~ 1692 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEY 1692 (1710)
T ss_pred             CCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHH
Confidence            99999999999998764 234568999999999999999999999999998876642  456666666666677666555


Q ss_pred             HHHHH
Q 017234          306 QLETL  310 (375)
Q Consensus       306 ~~~~~  310 (375)
                      +=.+.
T Consensus      1693 VKarA 1697 (1710)
T KOG1070|consen 1693 VKARA 1697 (1710)
T ss_pred             HHHHH
Confidence            54443

>PLN02789 farnesyltranstransferase

Probab=98.68  E-value=9.5e-05  Score=64.86  Aligned_cols=223  Identities=9%  Similarity=0.001  Sum_probs=101.2

Q ss_pred             HHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCC-ChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCC
Q 017234          116 ALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSG-DVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGN  194 (375)
Q Consensus       116 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~  194 (375)
                      ..+...++.++|+.+.++..+.. +-+..+|+.--.++...| ++++++..++++.+.  -+.+..+|+.-...+.+.|+
T Consensus        45 a~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~--npknyqaW~~R~~~l~~l~~  121 (320)
T PLN02789         45 AVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAED--NPKNYQIWHHRRWLAEKLGP  121 (320)
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH--CCcchHHhHHHHHHHHHcCc
Confidence            33344445555555555555442 112334444333444444 345555555555541  12233344433333333333


Q ss_pred             H--HHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---CCH----
Q 017234          195 V--DAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCAR---RKL----  265 (375)
Q Consensus       195 ~--~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---g~~----  265 (375)
                      .  +++.++++++.+...+ |..+|+...-++...|+++++++.++++.+.+ .-+...|+.....+.+.   |..    
T Consensus       122 ~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~  199 (320)
T PLN02789        122 DAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEAMR  199 (320)
T ss_pred             hhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccccH
Confidence            1  4445555555554433 55555555555555555555555555555544 22334444443333332   111    


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHc----CChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhC------
Q 017234          266 DRVKSFLKFLLGGGWKINENMAQKLVKCYCEL----GRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSD------  335 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g------  335 (375)
                      +....+...++... +-|...|+-+...+...    +...+|...+.+....+  |..... ...|++.|+...      
T Consensus       200 e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~--~~s~~a-l~~l~d~~~~~~~~~~~~  275 (320)
T PLN02789        200 DSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD--SNHVFA-LSDLLDLLCEGLQPTAEF  275 (320)
T ss_pred             HHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc--CCcHHH-HHHHHHHHHhhhccchhh
Confidence            23444444444332 23444455554444441    22344555555544422  211111 455555555422      


Q ss_pred             ------------CHHHHHHHHHHH
Q 017234          336 ------------RLDDVEYSVGRM  347 (375)
Q Consensus       336 ------------~~~~A~~~~~~m  347 (375)
                                  ..++|.+++..+
T Consensus       276 ~~~~~~~~~~~~~~~~a~~~~~~l  299 (320)
T PLN02789        276 RDTVDTLAEELSDSTLAQAVCSEL  299 (320)
T ss_pred             hhhhhccccccccHHHHHHHHHHH
Confidence                        346788888888

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.65  E-value=4e-05  Score=73.99  Aligned_cols=131  Identities=12%  Similarity=0.030  Sum_probs=62.7

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh-hcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHH
Q 017234          142 DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS-KTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESL  220 (375)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  220 (375)
                      +...+-.|.....+.|..++|..+++...+   +.|+. .....+...+.+.+++++|+...++.....+. +......+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~  160 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLE  160 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHH
Confidence            344455555555555555555555555544   23332 23334444455555555555555555554433 44444444


Q ss_pred             HHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          221 IHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       221 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      ..++...|++++|..+|++....+ +-+..++..+..++-..|+.++|...|+...+
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            445555555555555555555422 12234444444555555555555555555444

>PLN02789 farnesyltranstransferase

Probab=98.65  E-value=9.1e-05  Score=64.97  Aligned_cols=228  Identities=8%  Similarity=-0.007  Sum_probs=159.6

Q ss_pred             hcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccC-ChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCCh-
Q 017234           82 QSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQ-NVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDV-  159 (375)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-  159 (375)
                      ..+..++|+.+    .++.....+.+..+|+.--..+...| ++++++..++++.+.. +.+..+|+..-..+.+.|+. 
T Consensus        49 ~~e~serAL~l----t~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~  123 (320)
T PLN02789         49 SDERSPRALDL----TADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDA  123 (320)
T ss_pred             cCCCCHHHHHH----HHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchh
Confidence            56678888888    56666666667777777766777777 5789999999888775 33666777665556666653 


Q ss_pred             -HHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHcc---CCh----H
Q 017234          160 -VTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKA---RDF----D  231 (375)
Q Consensus       160 -~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~---g~~----~  231 (375)
                       ++++.+++++.+.  -+-+..+|+....++...|+++++++.++++.+.++. |..+|+.....+.+.   |..    +
T Consensus       124 ~~~el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e  200 (320)
T PLN02789        124 ANKELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRD  200 (320)
T ss_pred             hHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHH
Confidence             6788888888862  2456788888888888889999999999999988765 777777776665554   222    4


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcC---------
Q 017234          232 SVDRFYEEMMSLGIIPSIPILEKVLEGLCAR----RKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELG---------  298 (375)
Q Consensus       232 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---------  298 (375)
                      +......+..... +-|...|+.+...+...    +...+|..+..+..+.+ ..+......|++.|+...         
T Consensus       201 ~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~~~~~  278 (320)
T PLN02789        201 SELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPTAEFRDT  278 (320)
T ss_pred             HHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccchhhhhh
Confidence            5666666666654 44567788887777763    34566888887776654 346777888888887632         


Q ss_pred             ---------ChHHHHHHHHHHHhCCCCCchHH
Q 017234          299 ---------RVDELEEQLETLTKCNQSPEVLL  321 (375)
Q Consensus       299 ---------~~~~a~~~~~~~~~~~~~~~~~~  321 (375)
                               ..++|.++++.+.+  ..|-...
T Consensus       279 ~~~~~~~~~~~~~a~~~~~~l~~--~d~ir~~  308 (320)
T PLN02789        279 VDTLAEELSDSTLAQAVCSELEV--ADPMRRN  308 (320)
T ss_pred             hhccccccccHHHHHHHHHHHHh--hCcHHHH
Confidence                     23567777777743  4453333

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

Probab=98.65  E-value=0.0001  Score=64.35  Aligned_cols=258  Identities=8%  Similarity=-0.021  Sum_probs=176.1

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCH-hHHHHHHHHHHcCCCh
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDS-AVFNSLICACLCSGDV  159 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~  159 (375)
                      +..++...+...+-  +-+..+.-..|++....+.+.+...|+..+|...|++..-.  .|+. .......-.+.+.|+.
T Consensus       207 ~~~~~hs~a~~t~l--~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~  282 (564)
T KOG1174|consen  207 MFNFKHSDASQTFL--MLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGC  282 (564)
T ss_pred             HHhcccchhhhHHH--HHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCH
Confidence            45555555555532  34444444567888889999999999999999999887754  2322 2222223334577888


Q ss_pred             HHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHH
Q 017234          160 VTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEE  239 (375)
Q Consensus       160 ~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~  239 (375)
                      ++...+...+...  ..-+...|-.-+.......+++.|+.+-++..+.... +...|-.-...+...|++++|.-.|+.
T Consensus       283 e~~~~L~~~Lf~~--~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~  359 (564)
T KOG1174|consen  283 EQDSALMDYLFAK--VKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRT  359 (564)
T ss_pred             hhHHHHHHHHHhh--hhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHH
Confidence            8888888777651  1233444444455556677888888888888776533 555665556778888999999999998


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHH-HHH-HHcCChHHHHHHHHHHHhCCCCC
Q 017234          240 MMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLV-KCY-CELGRVDELEEQLETLTKCNQSP  317 (375)
Q Consensus       240 m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li-~~~-~~~g~~~~a~~~~~~~~~~~~~~  317 (375)
                      .+... +-+...|.-|+.+|...|.+.+|.-.-...... +.-+..+.+.+. ..+ ....--++|.++++.-..  +.|
T Consensus       360 Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P  435 (564)
T KOG1174|consen  360 AQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INP  435 (564)
T ss_pred             HHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCC
Confidence            87653 345789999999999999999988776665443 234555555442 222 223345788888887766  456


Q ss_pred             chHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          318 EVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       318 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      +-... .+.+...+...|+.++++.++++....
T Consensus       436 ~Y~~A-V~~~AEL~~~Eg~~~D~i~LLe~~L~~  467 (564)
T KOG1174|consen  436 IYTPA-VNLIAELCQVEGPTKDIIKLLEKHLII  467 (564)
T ss_pred             ccHHH-HHHHHHHHHhhCccchHHHHHHHHHhh
Confidence            44333 678889999999999999999988754

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.62  E-value=1.5e-05  Score=67.30  Aligned_cols=185  Identities=13%  Similarity=0.004  Sum_probs=120.7

Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcC---HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChh--
Q 017234          106 SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPD---SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSK--  180 (375)
Q Consensus       106 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~--  180 (375)
                      .....+..+...+.+.|+++.|...|+++.+.. +.+   ..++..+..++.+.|++++|...++++.+.   .|+..  
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~---~p~~~~~  106 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL---HPNHPDA  106 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH---CcCCCch
Confidence            456677777788888888888888888887653 112   246677788888888888888888888763   23222  


Q ss_pred             --cHHHHHHHHHcC--------CCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHH
Q 017234          181 --TYDAFISGFSSL--------GNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIP  250 (375)
Q Consensus       181 --~~~~ll~~~~~~--------~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  250 (375)
                        ++..+..++...        |+.++|.+.|+.+.+..+. +...+..+.....    ....      ..        .
T Consensus       107 ~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~----~~~~------~~--------~  167 (235)
T TIGR03302       107 DYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDY----LRNR------LA--------G  167 (235)
T ss_pred             HHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHH----HHHH------HH--------H
Confidence              344444445443        6677888888888776433 2233322221111    0000      00        0


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          251 ILEKVLEGLCARRKLDRVKSFLKFLLGGG--WKINENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       251 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      ....+...+.+.|++++|...++...+..  -+.....+..+..++...|++++|...++.+...
T Consensus       168 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       168 KELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            11245566888899999999999887652  1223567888889999999999999988887764

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).

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.61  E-value=2.5e-05  Score=65.13  Aligned_cols=200  Identities=15%  Similarity=0.056  Sum_probs=106.0

Q ss_pred             CCCcccccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCC-CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCC
Q 017234           31 NTNSTSVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNS-SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESC  107 (375)
Q Consensus        31 ~~~~~~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p-~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~  107 (375)
                      ++......-++.++..+++..+. ++.+.+.....  -.| +..-.+.|-.+ +..-++..|.+.    ++++.... |.
T Consensus         4 ~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~E--r~p~~rAgLSlLgyCYY~~Q~f~~AA~C----YeQL~ql~-P~   76 (459)
T KOG4340|consen    4 SGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELE--RSPRSRAGLSLLGYCYYRLQEFALAAEC----YEQLGQLH-PE   76 (459)
T ss_pred             ccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHh--cCccchHHHHHHHHHHHHHHHHHHHHHH----HHHHHhhC-hH
Confidence            34444445678888888877655 44444443322  234 44455555555 677788888888    55554433 33


Q ss_pred             HHHHH-HHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHH--HHcCCChHHHHHHHHHHHhCCCCCCChhcHHH
Q 017234          108 LDEYA-CLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICA--CLCSGDVVTALSLFEIMVSSEEYKPNSKTYDA  184 (375)
Q Consensus       108 ~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~--~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~  184 (375)
                      ..-|. .-...+.+.+.+..|+++...|...   |+...-..-+.+  ....+++..+..+.++...    ..+..+.+.
T Consensus        77 ~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~----en~Ad~~in  149 (459)
T KOG4340|consen   77 LEQYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPS----ENEADGQIN  149 (459)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccC----CCccchhcc
Confidence            32232 2345666788888999888877642   121111111111  1234555555555555542    122333333


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCC
Q 017234          185 FISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGI  245 (375)
Q Consensus       185 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  245 (375)
                      ......+.|+++.|.+-|+...+-+--.....||.-+.. .+.|+++.|++...++.++|+
T Consensus       150 ~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~  209 (459)
T KOG4340|consen  150 LGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGI  209 (459)
T ss_pred             chheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhh
Confidence            333345566666666666665554322244455554433 344566666666666665543

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

Probab=98.59  E-value=0.00011  Score=60.49  Aligned_cols=153  Identities=16%  Similarity=0.125  Sum_probs=88.3

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA----  261 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----  261 (375)
                      ...|++.|++++|++..+...      +....-.=+..+.+..+++-|.+.++.|.+-   .+..|.+.|.+++.+    
T Consensus       115 a~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~g  185 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATG  185 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhcc
Confidence            445667777777777665411      2222222234445566677777777777652   345666666665542    


Q ss_pred             cCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHH
Q 017234          262 RRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVE  341 (375)
Q Consensus       262 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  341 (375)
                      .+++..|.-+|++|-++ ..|+..+.+-...++...|++++|+.++++...+..+-....  -|.++.+.....+.+-..
T Consensus       186 gek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL--~Nliv~a~~~Gkd~~~~~  262 (299)
T KOG3081|consen  186 GEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETL--ANLIVLALHLGKDAEVTE  262 (299)
T ss_pred             chhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHH--HHHHHHHHHhCCChHHHH
Confidence            34566777777777553 456777777777777777777777777777766544332222  444444444444444455


Q ss_pred             HHHHHHHhC
Q 017234          342 YSVGRMGKQ  350 (375)
Q Consensus       342 ~~~~~m~~~  350 (375)
                      +.+.+++..
T Consensus       263 r~l~QLk~~  271 (299)
T KOG3081|consen  263 RNLSQLKLS  271 (299)
T ss_pred             HHHHHHHhc
Confidence            556665543

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

Probab=98.57  E-value=3.3e-05  Score=63.33  Aligned_cols=158  Identities=9%  Similarity=0.043  Sum_probs=96.1

Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHc
Q 017234          112 ACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSS  191 (375)
Q Consensus       112 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~  191 (375)
                      ..+-..+...|+-+....+........ +.|....+..+....+.|++.+|+..+++...  .-++|..+|+.+.-+|-+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            445555555666666655555543221 23445555566666677777777777776664  335666666766667777


Q ss_pred             CCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 017234          192 LGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSF  271 (375)
Q Consensus       192 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  271 (375)
                      .|+.++|..-|.+..+.... +....|.+.-.+.-.|+.+.|..++......+ .-|...-..+.......|+++.|..+
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i  224 (257)
T COG5010         147 LGRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDI  224 (257)
T ss_pred             ccChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhh
Confidence            77777777666666665433 45556666666666677777777666666554 23455555666666666777666666


Q ss_pred             HHH
Q 017234          272 LKF  274 (375)
Q Consensus       272 ~~~  274 (375)
                      ...
T Consensus       225 ~~~  227 (257)
T COG5010         225 AVQ  227 (257)
T ss_pred             ccc
Confidence            544

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

Probab=98.55  E-value=0.00062  Score=62.86  Aligned_cols=170  Identities=9%  Similarity=0.115  Sum_probs=86.8

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcC---HHhHHHHHHHHHccCChHHHHHHHHHHHHC----------CCCC
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVN---VQTYESLIHGSLKARDFDSVDRFYEEMMSL----------GIIP  247 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----------~~~p  247 (375)
                      .|..+...|-..|+++.|..+|++..+-..+.-   ..+|......=.++.+++.|+++++.....          |-.|
T Consensus       389 Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~p  468 (835)
T KOG2047|consen  389 LWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEP  468 (835)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCc
Confidence            355666667777777777777776665433211   244555555555666666666666554321          0011


Q ss_pred             -------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchH
Q 017234          248 -------SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVL  320 (375)
Q Consensus       248 -------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  320 (375)
                             +...|+..+..--..|-++....+|+.+.+..+. ++.+.-.....+-...-++++.+++++-...-.-|+..
T Consensus       469 vQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~  547 (835)
T KOG2047|consen  469 VQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVY  547 (835)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHH
Confidence                   1122444444444556666666777666655432 22222222222333344555555555444332223222


Q ss_pred             HHHHHHHHHHHHhh---CCHHHHHHHHHHHHhCCCC
Q 017234          321 LHFFSGIIRLYALS---DRLDDVEYSVGRMGKQGLS  353 (375)
Q Consensus       321 ~~~~~~li~~~~~~---g~~~~A~~~~~~m~~~~~~  353 (375)
                       ..|+..+.-+.+.   -..+.|..+|++.++ |++
T Consensus       548 -diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cp  581 (835)
T KOG2047|consen  548 -DIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCP  581 (835)
T ss_pred             -HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCC
Confidence             2366655555442   246777777777776 554

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

Probab=98.54  E-value=3.6e-05  Score=62.78  Aligned_cols=119  Identities=10%  Similarity=0.068  Sum_probs=69.1

Q ss_pred             CCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHH-HccCC--hHH
Q 017234          156 SGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGS-LKARD--FDS  232 (375)
Q Consensus       156 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~-~~~g~--~~~  232 (375)
                      .++.+++...++...+.  -+.+...|..+...|...|++++|...|++..+.... +...+..+..++ ...|+  .++
T Consensus        52 ~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         52 QQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             chhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHH
Confidence            44455555555555541  2445556666666666666666666666666665543 555555555543 44455  366


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 017234          233 VDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG  278 (375)
Q Consensus       233 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  278 (375)
                      |.+++++..+.+ +-+...+..+...+...|++++|...|+.+.+.
T Consensus       129 A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        129 TREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            666666666654 234455666666666666666666666666554

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

Probab=98.52  E-value=2.6e-05  Score=70.69  Aligned_cols=224  Identities=11%  Similarity=0.011  Sum_probs=167.9

Q ss_pred             HHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCC-ChhcHHHHHHHHHcCCC
Q 017234          116 ALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKP-NSKTYDAFISGFSSLGN  194 (375)
Q Consensus       116 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~~ll~~~~~~~~  194 (375)
                      ..+.+.|++.+|.-.|+...+.+ +-+...|--|......+++-..|+..+++..+   +.| |....-.|.-.|...|.
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-PQHAEAWQKLGITQAENENEQNAISALRRCLE---LDPTNLEALMALAVSYTNEGL  368 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHh---cCCccHHHHHHHHHHHhhhhh
Confidence            34567888999999999888774 33678999999999999999999999999887   345 45667788888999999


Q ss_pred             HHHHHHHHHHHHHCCCCc--------CHHhHHHHHHHHHccCChHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhcCCH
Q 017234          195 VDAMNKWYAANIAAGFSV--------NVQTYESLIHGSLKARDFDSVDRFYEEMMS-LGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       195 ~~~a~~~~~~m~~~~~~~--------~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      -..|+..++.-....++-        +...-+.  ..+.....+....++|-++-. .+..+|......|--.|--.|++
T Consensus       369 q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~ef  446 (579)
T KOG1125|consen  369 QNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEF  446 (579)
T ss_pred             HHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHH
Confidence            999999998876654220        1000000  122223334555666666544 45457777788888888899999


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHH
Q 017234          266 DRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVG  345 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  345 (375)
                      ++|...|+.++... +-|..+||.|...++...+.++|...+.+..+  +.|...-..|| |.-.|...|.+++|.+.|-
T Consensus       447 draiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyN-lgIS~mNlG~ykEA~~hlL  522 (579)
T KOG1125|consen  447 DRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYN-LGISCMNLGAYKEAVKHLL  522 (579)
T ss_pred             HHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehh-hhhhhhhhhhHHHHHHHHH
Confidence            99999999998864 45677899999999999999999999999988  55654444365 5667899999999999996


Q ss_pred             HHHh
Q 017234          346 RMGK  349 (375)
Q Consensus       346 ~m~~  349 (375)
                      +.+.
T Consensus       523 ~AL~  526 (579)
T KOG1125|consen  523 EALS  526 (579)
T ss_pred             HHHH
Confidence            6554

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

Probab=98.50  E-value=0.00012  Score=59.82  Aligned_cols=150  Identities=13%  Similarity=0.070  Sum_probs=109.8

Q ss_pred             HHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCC
Q 017234          150 ICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARD  229 (375)
Q Consensus       150 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~  229 (375)
                      +-.|...|+++.+....+.+..     |. .       .+...++.+++...++...+..+. |...|..+...|...|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~-----~~-~-------~~~~~~~~~~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD-----PL-H-------QFASQQTPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC-----cc-c-------cccCchhHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCC
Confidence            4467788888776555433322     11 0       122366677888888877776654 88888998899999999


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HhcCC--HHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHH
Q 017234          230 FDSVDRFYEEMMSLGIIPSIPILEKVLEGL-CARRK--LDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQ  306 (375)
Q Consensus       230 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~-~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  306 (375)
                      +++|...|++..+.. +.+...+..+..++ ...|+  .++|..++++..+.+ +-+..++..+...+...|++++|...
T Consensus        89 ~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~  166 (198)
T PRK10370         89 YDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIEL  166 (198)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999888775 34567777777764 56676  488999999988865 34677788888888899999999999


Q ss_pred             HHHHHhCCC
Q 017234          307 LETLTKCNQ  315 (375)
Q Consensus       307 ~~~~~~~~~  315 (375)
                      ++++.+...
T Consensus       167 ~~~aL~l~~  175 (198)
T PRK10370        167 WQKVLDLNS  175 (198)
T ss_pred             HHHHHhhCC
Confidence            998887543

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

Probab=98.49  E-value=0.00078  Score=60.05  Aligned_cols=267  Identities=14%  Similarity=0.154  Sum_probs=196.7

Q ss_pred             CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCH-hHHH
Q 017234           70 SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDS-AVFN  147 (375)
Q Consensus        70 ~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~  147 (375)
                      +...|--..+. ..++++..|..+|+    ........+...|---+..=.+..++..|..+|++....  -|-+ ..|-
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~E----RALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWy  145 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFE----RALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWY  145 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHH----HHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHH
Confidence            34445444445 58889999999954    444445567777888888888999999999999998865  3433 3555


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHcc
Q 017234          148 SLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKA  227 (375)
Q Consensus       148 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  227 (375)
                      ..+..=-..|++..|.++|+.-.+   ..|+...|.+.++.=.+-..++.|..++++.+-.  .|++.+|--....-.++
T Consensus       146 KY~ymEE~LgNi~gaRqiferW~~---w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~  220 (677)
T KOG1915|consen  146 KYIYMEEMLGNIAGARQIFERWME---WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKH  220 (677)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhc
Confidence            666666677999999999998876   5899999999999999999999999999999875  48999999999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC--HHHHHHHHHHHHHcCChH
Q 017234          228 RDFDSVDRFYEEMMSLGIIPSIP----ILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN--ENMAQKLVKCYCELGRVD  301 (375)
Q Consensus       228 g~~~~a~~~~~~m~~~~~~p~~~----~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~  301 (375)
                      |....|..+|+...+.  ..|..    .+.+...--.+...++.|.-+|+-.++. ++-+  ...|..+...=-+-|+..
T Consensus       221 g~~~~aR~VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~  297 (677)
T KOG1915|consen  221 GNVALARSVYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKE  297 (677)
T ss_pred             CcHHHHHHHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchh
Confidence            9999999999988764  12233    3444433344778899999999998875 2323  455666666656667655


Q ss_pred             HHHHHH--------HHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCc
Q 017234          302 ELEEQL--------ETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSF  354 (375)
Q Consensus       302 ~a~~~~--------~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  354 (375)
                      ..+...        +.+.+.+. .+-.+  |--.++.-...|+.+...++|++.... ++|
T Consensus       298 gIEd~Iv~KRk~qYE~~v~~np-~nYDs--WfdylrL~e~~g~~~~Ire~yErAIan-vpp  354 (677)
T KOG1915|consen  298 GIEDAIVGKRKFQYEKEVSKNP-YNYDS--WFDYLRLEESVGDKDRIRETYERAIAN-VPP  354 (677)
T ss_pred             hhHHHHhhhhhhHHHHHHHhCC-CCchH--HHHHHHHHHhcCCHHHHHHHHHHHHcc-CCc
Confidence            444332        33333332 22333  667777778889999999999999864 544

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

Probab=98.47  E-value=7.8e-05  Score=61.21  Aligned_cols=159  Identities=16%  Similarity=0.108  Sum_probs=113.7

Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHc
Q 017234          147 NSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLK  226 (375)
Q Consensus       147 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  226 (375)
                      ..+-..+.-.|+-+....+......  ..+.|.......+....+.|++..|...|.+.....+ +|...|+.+.-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p-~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAP-TDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCC-CChhhhhHHHHHHHH
Confidence            5556667777777777777776553  2234444555677778888888888888888776653 478888888888888


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHH
Q 017234          227 ARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQ  306 (375)
Q Consensus       227 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  306 (375)
                      .|++++|..-|.+..+.. .-+...++.+...+.-.|+.+.|..++......+ .-|..+-..+.......|++++|+++
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i  224 (257)
T COG5010         147 LGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDI  224 (257)
T ss_pred             ccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhh
Confidence            888888888887777653 2234567777777778888888888888777665 33666677777777888888888777


Q ss_pred             HHHH
Q 017234          307 LETL  310 (375)
Q Consensus       307 ~~~~  310 (375)
                      ...-
T Consensus       225 ~~~e  228 (257)
T COG5010         225 AVQE  228 (257)
T ss_pred             cccc
Confidence            6543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.45  E-value=0.00012  Score=70.84  Aligned_cols=232  Identities=9%  Similarity=-0.030  Sum_probs=167.5

Q ss_pred             CHHHHHHHHHHHhccCChhHH-HHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFA-MHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a-~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      ++....-+=.+.+..|..++| .+++.+..+            ++..........+++.-......  .++.+...+-.|
T Consensus        27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~L   92 (694)
T PRK15179         27 GPTILDLLEAALAEPGESEEAGRELLQQARQ------------VLERHAAVHKPAAALPELLDYVR--RYPHTELFQVLV   92 (694)
T ss_pred             CcHHHhHHHHHhcCcccchhHHHHHHHHHHH------------HHHHhhhhcchHhhHHHHHHHHH--hccccHHHHHHH
Confidence            344444444455666666665 444444432            44444444444555544444443  346678889999


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      .....+.|..++|..+++...+..+. +......+...+.+.+++++|+..++...... +-+......+..++...|++
T Consensus        93 a~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a~~l~~~g~~  170 (694)
T PRK15179         93 ARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEAKSWDEIGQS  170 (694)
T ss_pred             HHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHHHHHHHhcch
Confidence            99999999999999999999997654 67788889999999999999999999999875 33456777788888999999


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHH
Q 017234          266 DRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVG  345 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  345 (375)
                      ++|..+|+++...+ +-+..++..+..++...|+.++|...|+...+.. .+....  |+.++      ++...-...++
T Consensus       171 ~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~--~~~~~------~~~~~~~~~~~  240 (694)
T PRK15179        171 EQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARK--LTRRL------VDLNADLAALR  240 (694)
T ss_pred             HHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHH--HHHHH------HHHHHHHHHHH
Confidence            99999999999843 4457889999999999999999999999988753 233344  55543      34455667777


Q ss_pred             HHHhCCCCccCchhHHHHH
Q 017234          346 RMGKQGLSFKSAEDVEMES  364 (375)
Q Consensus       346 ~m~~~~~~~~~~~~~~~~~  364 (375)
                      ++.-.+...+.+..+..+.
T Consensus       241 ~~~~~~~~~~~~~~~~~~~  259 (694)
T PRK15179        241 RLGVEGDGRDVPVSILVLE  259 (694)
T ss_pred             HcCcccccCCCceeeeeHH
Confidence            7776666655555444433

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.44  E-value=0.00023  Score=72.55  Aligned_cols=270  Identities=13%  Similarity=0.049  Sum_probs=174.5

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCC-CHHHHHHHHHHHhccCChhHHHHHHHHHHHC----CC-CcCHhHHHHHHHHHH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNES-CLDEYACLIALSGKVQNVPFAMHVFTSMEAQ----GI-KPDSAVFNSLICACL  154 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~-~p~~~~~~~li~~~~  154 (375)
                      ...|++++|...++..+........+ -....+.+...+...|+++.|...+++....    |- .+...++..+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            48899999999965544322111110 1234566677788899999999999887643    21 111235566677888


Q ss_pred             cCCChHHHHHHHHHHHhC---CCCC--C-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC----CCCcCHHhHHHHHHHH
Q 017234          155 CSGDVVTALSLFEIMVSS---EEYK--P-NSKTYDAFISGFSSLGNVDAMNKWYAANIAA----GFSVNVQTYESLIHGS  224 (375)
Q Consensus       155 ~~g~~~~a~~~~~~m~~~---~~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~~~ll~~~  224 (375)
                      ..|++++|...+++..+.   .+..  + ....+..+...+...|++++|...+.+....    +.......+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            999999999998876651   1111  1 1233445556677889999999998876543    2111234455566778


Q ss_pred             HccCChHHHHHHHHHHHHCC--CCCCHH---HH-HHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC---HHHHHHHHHHHH
Q 017234          225 LKARDFDSVDRFYEEMMSLG--IIPSIP---IL-EKVLEGLCARRKLDRVKSFLKFLLGGGWKIN---ENMAQKLVKCYC  295 (375)
Q Consensus       225 ~~~g~~~~a~~~~~~m~~~~--~~p~~~---~~-~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~  295 (375)
                      ...|++++|.+.++......  ......   .. ...+..+...|+.+.|..++...........   ...+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            88999999999998875421  111111   11 1122444568899999999877654321111   112445677888


Q ss_pred             HcCChHHHHHHHHHHHhC----CCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          296 ELGRVDELEEQLETLTKC----NQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       296 ~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                      ..|+.++|...+++....    +..+ ........+..++.+.|+.++|...+.+..+..
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~-~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMS-DLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchH-HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            999999999999887653    2222 222226667788899999999999999988753

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

Probab=98.44  E-value=0.0011  Score=59.44  Aligned_cols=139  Identities=10%  Similarity=-0.012  Sum_probs=85.0

Q ss_pred             HHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHH
Q 017234          153 CLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDS  232 (375)
Q Consensus       153 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~  232 (375)
                      +...|++++|++.++.+...  .+-|..-+......+.+.++..+|.+.++++....+. .....-.+..+|.+.|++.+
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~-~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPN-SPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-ccHHHHHHHHHHHhcCChHH
Confidence            33567777777777776652  2333334445556667777777777777777665322 25555566667777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          233 VDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       233 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      |..+++...... +-|...|..|.++|...|+..++.....+                  .|...|+++.|...+....+
T Consensus       393 ai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~  453 (484)
T COG4783         393 AIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQ  453 (484)
T ss_pred             HHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHH
Confidence            777776666554 45566777777777777766666554433                  33445666666666666555


Q ss_pred             C
Q 017234          313 C  313 (375)
Q Consensus       313 ~  313 (375)
                      .
T Consensus       454 ~  454 (484)
T COG4783         454 Q  454 (484)
T ss_pred             h
Confidence            4

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

Probab=98.43  E-value=0.00079  Score=57.58  Aligned_cols=256  Identities=11%  Similarity=0.025  Sum_probs=138.5

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHH-HHHHHHHHcCCCh
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVF-NSLICACLCSGDV  159 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~-~~li~~~~~~g~~  159 (375)
                      +.+|++..|+..|    -....+++.+-.++..-...|...|+-..|+.=+....+.  +||-..- .--...+.+.|.+
T Consensus        49 la~~Q~sDALt~y----HaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Gel  122 (504)
T KOG0624|consen   49 LARGQLSDALTHY----HAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGEL  122 (504)
T ss_pred             HHhhhHHHHHHHH----HHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcccH
Confidence            5677777777773    3333334334444444455666667666666666666654  4553221 1122345677777


Q ss_pred             HHHHHHHHHHHhCCCCCCCh--------------hcH--HHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHH
Q 017234          160 VTALSLFEIMVSSEEYKPNS--------------KTY--DAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHG  223 (375)
Q Consensus       160 ~~a~~~~~~m~~~~~~~~~~--------------~~~--~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~  223 (375)
                      ++|..=|+...+.   .|+.              ..+  ...+..+...|+...|++....+.+..+ .|...|..-..+
T Consensus       123 e~A~~DF~~vl~~---~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~-Wda~l~~~Rakc  198 (504)
T KOG0624|consen  123 EQAEADFDQVLQH---EPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQP-WDASLRQARAKC  198 (504)
T ss_pred             HHHHHHHHHHHhc---CCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCc-chhHHHHHHHHH
Confidence            7777777777652   2211              111  2334445566777777777777776543 366677777777


Q ss_pred             HHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHH----H-------H--
Q 017234          224 SLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQ----K-------L--  290 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~----~-------l--  290 (375)
                      |...|++..|+.=++...+.. ..+..++-.+-..+...|+.+.++...++.++.  .||....-    .       |  
T Consensus       199 ~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les  275 (504)
T KOG0624|consen  199 YIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLES  275 (504)
T ss_pred             HHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHH
Confidence            777777777765555444432 234455555566666677777777766666653  34433211    1       1  


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCC-CchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          291 VKCYCELGRVDELEEQLETLTKCNQS-PEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       291 i~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      +......++|.++..-.+...+.... +......+..+-.++...|++.+|++..++.++
T Consensus       276 ~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~  335 (504)
T KOG0624|consen  276 AEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD  335 (504)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh
Confidence            11123344555555555554443332 222222244455555566666666666666554

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.41  E-value=3.2e-05  Score=59.68  Aligned_cols=87  Identities=8%  Similarity=-0.029  Sum_probs=33.7

Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 017234          188 GFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDR  267 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  267 (375)
                      .+...|++++|...|+......+. +...|..+..++...|++++|...|+.....+ +.+...+..+..++...|+.++
T Consensus        33 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~~~e  110 (144)
T PRK15359         33 ASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGEPGL  110 (144)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHH
Confidence            333344444444444443333221 33333344444444444444444444443332 2223333333333444444444


Q ss_pred             HHHHHHHHH
Q 017234          268 VKSFLKFLL  276 (375)
Q Consensus       268 a~~~~~~~~  276 (375)
                      |...++...
T Consensus       111 Ai~~~~~Al  119 (144)
T PRK15359        111 AREAFQTAI  119 (144)
T ss_pred             HHHHHHHHH
Confidence            444444433

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

Probab=98.41  E-value=0.00051  Score=61.41  Aligned_cols=183  Identities=20%  Similarity=0.065  Sum_probs=132.1

Q ss_pred             CcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHH
Q 017234          140 KPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYES  219 (375)
Q Consensus       140 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  219 (375)
                      .|+...+...+.+......-..+..++-+-.+    +-.....--....+...|..++|+..+..+....+. |+.-+..
T Consensus       271 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~----~~~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~~P~-N~~~~~~  345 (484)
T COG4783         271 SPDFQLARARIRAKYEALPNQQAADLLAKRSK----RGGLAAQYGRALQTYLAGQYDEALKLLQPLIAAQPD-NPYYLEL  345 (484)
T ss_pred             CccHHHHHHHHHHHhccccccchHHHHHHHhC----ccchHHHHHHHHHHHHhcccchHHHHHHHHHHhCCC-CHHHHHH
Confidence            34556666666655544433333333332222    111222223333566789999999999998887644 7777888


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcC
Q 017234          220 LIHGSLKARDFDSVDRFYEEMMSLGIIPS-IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELG  298 (375)
Q Consensus       220 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  298 (375)
                      ....+.+.++..+|.+.++++...  .|+ ....-.+.+++.+.|+..+|..+++...... +-|+..|..|.++|...|
T Consensus       346 ~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g  422 (484)
T COG4783         346 AGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELG  422 (484)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhC
Confidence            889999999999999999999887  455 5666677889999999999999999988764 678899999999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          299 RVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       299 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      +..++....                    .+.|.-.|++++|...+.+..+.
T Consensus       423 ~~~~a~~A~--------------------AE~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         423 NRAEALLAR--------------------AEGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             chHHHHHHH--------------------HHHHHhCCCHHHHHHHHHHHHHh
Confidence            988775543                    34466778888888888777664

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

Probab=98.40  E-value=0.00052  Score=63.35  Aligned_cols=294  Identities=11%  Similarity=-0.013  Sum_probs=176.6

Q ss_pred             hHHHHHHHhhh-ccCCCCcccHHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHH
Q 017234           54 QIKTTLDSVDI-FAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFT  132 (375)
Q Consensus        54 ~~~~~~~~m~~-~~~~p~~~~~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  132 (375)
                      ...+..+.+.+ .+-.++...-. -+..+.-|+-++|.+.    ...-..+.+.+.+.|+.+.-.+....++++|.+.+.
T Consensus        25 kgLK~~~~iL~k~~eHgeslAmk-GL~L~~lg~~~ea~~~----vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~   99 (700)
T KOG1156|consen   25 KGLKLIKQILKKFPEHGESLAMK-GLTLNCLGKKEEAYEL----VRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYR   99 (700)
T ss_pred             hHHHHHHHHHHhCCccchhHHhc-cchhhcccchHHHHHH----HHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHH
Confidence            44666666643 23333332211 1111467777788777    445555666777888888888888888888888888


Q ss_pred             HHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCC-CC
Q 017234          133 SMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAG-FS  211 (375)
Q Consensus       133 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~  211 (375)
                      .....+ +-|...|..+--.-++.|+++..........+.  .+-....|..+..++.-.|+...|..+.++..+.. -.
T Consensus       100 nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~  176 (700)
T KOG1156|consen  100 NALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTS  176 (700)
T ss_pred             HHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence            888775 336777777777777888888887777777762  12334556777778888888888888888877654 23


Q ss_pred             cCHHhHHHHHH------HHHccCChHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH
Q 017234          212 VNVQTYESLIH------GSLKARDFDSVDRFYEEMMSLGIIPSIPIL-EKVLEGLCARRKLDRVKSFLKFLLGGGWKINE  284 (375)
Q Consensus       212 ~~~~~~~~ll~------~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~-~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  284 (375)
                      |+...|.-...      ...+.|.+++|.+.+.+-...  ..|...+ .+-...+.+.+++++|..++..++...  ||.
T Consensus       177 ~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn  252 (700)
T KOG1156|consen  177 PSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDN  252 (700)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chh
Confidence            55555544433      234567777777766555433  2233332 334456678888888888888888764  555


Q ss_pred             HHHH-HHHHHHHHcCChHHHH-HHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHH
Q 017234          285 NMAQ-KLVKCYCELGRVDELE-EQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEM  362 (375)
Q Consensus       285 ~~~~-~li~~~~~~g~~~~a~-~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~  362 (375)
                      .-|. .+..++.+..+.-++. .+|....+.-.......  . .=+.......-.+..-.++..+.++|+++-.++..++
T Consensus       253 ~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~--R-lplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SL  329 (700)
T KOG1156|consen  253 LDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPR--R-LPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSL  329 (700)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccch--h-ccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHH
Confidence            5444 4445554333333343 66666655432221111  0 0111111122234455667888888887666655554

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.38  E-value=0.00056  Score=66.27  Aligned_cols=252  Identities=11%  Similarity=0.131  Sum_probs=163.8

Q ss_pred             HHHHHHhhcCCc-chHHHHHHHhhhccCCCCccc-----HHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHH
Q 017234           41 NPLISRLLQVPV-SQIKTTLDSVDIFAFNSSQFS-----WDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACL  114 (375)
Q Consensus        41 ~~ll~~l~~~~~-~~~~~~~~~m~~~~~~p~~~~-----~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~l  114 (375)
                      ...+.++..++- .+..++++++.   ++|++++     -|.||-.+-..+..+.++.    ++++...+.|+      +
T Consensus       988 S~tVkAfMtadLp~eLIELLEKIv---L~~S~Fse~~nLQnLLiLtAikad~trVm~Y----I~rLdnyDa~~------i 1054 (1666)
T KOG0985|consen  988 SVTVKAFMTADLPNELIELLEKIV---LDNSVFSENRNLQNLLILTAIKADRTRVMEY----INRLDNYDAPD------I 1054 (1666)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHh---cCCcccccchhhhhhHHHHHhhcChHHHHHH----HHHhccCCchh------H
Confidence            334444444442 24455555553   3444333     2233333444555666666    45555544454      3


Q ss_pred             HHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCC
Q 017234          115 IALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGN  194 (375)
Q Consensus       115 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~  194 (375)
                      ...+...+-+++|..+|+...     .+....+.+|.   .-+..|.|.++-++..+       +.+|..+..+-.+.|.
T Consensus      1055 a~iai~~~LyEEAF~ifkkf~-----~n~~A~~VLie---~i~~ldRA~efAe~~n~-------p~vWsqlakAQL~~~~ 1119 (1666)
T KOG0985|consen 1055 AEIAIENQLYEEAFAIFKKFD-----MNVSAIQVLIE---NIGSLDRAYEFAERCNE-------PAVWSQLAKAQLQGGL 1119 (1666)
T ss_pred             HHHHhhhhHHHHHHHHHHHhc-----ccHHHHHHHHH---HhhhHHHHHHHHHhhCC-------hHHHHHHHHHHHhcCc
Confidence            344556667778888887653     35556666665   34667777776665543       4578899999889999


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 017234          195 VDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKF  274 (375)
Q Consensus       195 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  274 (375)
                      ..+|.+-|-+   .   -|+..|..+++...+.|.|++-.+.+...++...+|...  +.||.+|++.+++.+.++++  
T Consensus      1120 v~dAieSyik---a---dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi-- 1189 (1666)
T KOG0985|consen 1120 VKDAIESYIK---A---DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI-- 1189 (1666)
T ss_pred             hHHHHHHHHh---c---CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh--
Confidence            9888876633   2   377789999999999999999998887777776677654  56888999999888877665  


Q ss_pred             HHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHH
Q 017234          275 LLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGR  346 (375)
Q Consensus       275 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  346 (375)
                           ..||..-...+.+-|...|.++.|.-++.....           |..|...++..|+++.|.+.-++
T Consensus      1190 -----~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN-----------~a~La~TLV~LgeyQ~AVD~aRK 1245 (1666)
T KOG0985|consen 1190 -----AGPNVANIQQVGDRCFEEKMYEAAKLLYSNVSN-----------FAKLASTLVYLGEYQGAVDAARK 1245 (1666)
T ss_pred             -----cCCCchhHHHHhHHHhhhhhhHHHHHHHHHhhh-----------HHHHHHHHHHHHHHHHHHHHhhh
Confidence                 246777777777777777777777777654322           56666666666666666655444

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.36  E-value=2.8e-05  Score=59.99  Aligned_cols=94  Identities=11%  Similarity=-0.034  Sum_probs=60.6

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCE  296 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  296 (375)
                      +..+...+...|++++|...|+...... +.+...+..+..++...|++++|...|+...+.. +.+...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            4445556666677777777776666554 3355666666666667777777777777766643 3455666666666667


Q ss_pred             cCChHHHHHHHHHHHh
Q 017234          297 LGRVDELEEQLETLTK  312 (375)
Q Consensus       297 ~g~~~~a~~~~~~~~~  312 (375)
                      .|++++|...|+...+
T Consensus       105 ~g~~~eAi~~~~~Al~  120 (144)
T PRK15359        105 MGEPGLAREAFQTAIK  120 (144)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            7777777777766665

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.36  E-value=9.6e-05  Score=61.77  Aligned_cols=260  Identities=13%  Similarity=0.102  Sum_probs=171.1

Q ss_pred             cccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHH-H-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHH
Q 017234           36 SVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALIT-S-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYA  112 (375)
Q Consensus        36 ~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~-~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~  112 (375)
                      +......|-.++-...+. .+.+-+++...  ..|...-|...-. . ++.+.+..|+.+    ...|...  |+...-.
T Consensus        43 ~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q--l~P~~~qYrlY~AQSLY~A~i~ADALrV----~~~~~D~--~~L~~~~  114 (459)
T KOG4340|consen   43 SRAGLSLLGYCYYRLQEFALAAECYEQLGQ--LHPELEQYRLYQAQSLYKACIYADALRV----AFLLLDN--PALHSRV  114 (459)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hChHHHHHHHHHHHHHHHhcccHHHHHH----HHHhcCC--HHHHHHH
Confidence            444444555555555554 55566666644  3455555554322 2 689999999999    5555433  2211111


Q ss_pred             HHH--HHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHH
Q 017234          113 CLI--ALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFS  190 (375)
Q Consensus       113 ~li--~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~  190 (375)
                      .-+  ......+++..+..+.++....|   +..+.+.......+.|+++.|.+-|+...+-+|+.|-. .|+..+ ++.
T Consensus       115 lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpll-AYniAL-aHy  189 (459)
T KOG4340|consen  115 LQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLL-AYNLAL-AHY  189 (459)
T ss_pred             HHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHHHHHHHhhcCCCchh-HHHHHH-HHH
Confidence            111  22346789999999999887543   66677777778889999999999999999878887754 677666 455


Q ss_pred             cCCCHHHHHHHHHHHHHCCCCc-------------C---------------HHhHHHHHHHHHccCChHHHHHHHHHHHH
Q 017234          191 SLGNVDAMNKWYAANIAAGFSV-------------N---------------VQTYESLIHGSLKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       191 ~~~~~~~a~~~~~~m~~~~~~~-------------~---------------~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  242 (375)
                      +.++.+.|++...++.++|+..             |               +..+|.-...+.+.|+++.|.+-+-.|.-
T Consensus       190 ~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPP  269 (459)
T KOG4340|consen  190 SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPP  269 (459)
T ss_pred             hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCC
Confidence            6789999999999998887542             1               12233334445677899999988888853


Q ss_pred             C-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 017234          243 L-GIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETL  310 (375)
Q Consensus       243 ~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  310 (375)
                      + ....|++|...+.-.= ..+++....+-++-+++.. +....|+..++-.||+..-++.|-.++.+-
T Consensus       270 RaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  270 RAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             cccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHHhHHHHHHhhC
Confidence            3 2345677776664322 2344555555566666553 345678888888999998888888877653

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.36  E-value=7.1e-07  Score=50.25  Aligned_cols=33  Identities=36%  Similarity=0.616  Sum_probs=19.7

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCC
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPS  248 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~  248 (375)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            455666666666666666666666666555554

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.

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

Probab=98.35  E-value=0.00082  Score=63.31  Aligned_cols=255  Identities=11%  Similarity=-0.028  Sum_probs=174.5

Q ss_pred             HHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHH
Q 017234           87 KKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLF  166 (375)
Q Consensus        87 ~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  166 (375)
                      .++++.    +++..+.+..|+.+...+.--|+..++++.|.+...+..+.+-.-+...|..+.-.+...+++.+|+.+.
T Consensus       461 ~kslqa----le~av~~d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vv  536 (799)
T KOG4162|consen  461 KKSLQA----LEEAVQFDPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVV  536 (799)
T ss_pred             HHHHHH----HHHHHhcCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            455555    5666666666666666677778888999999999999998866778999999999999999999999999


Q ss_pred             HHHHhCCCCC------------------CChhcHHHHHHHHHc---------CC--------------CHHHHHHHHHH-
Q 017234          167 EIMVSSEEYK------------------PNSKTYDAFISGFSS---------LG--------------NVDAMNKWYAA-  204 (375)
Q Consensus       167 ~~m~~~~~~~------------------~~~~~~~~ll~~~~~---------~~--------------~~~~a~~~~~~-  204 (375)
                      +...+..|..                  ....|+..++..+-.         .|              +..++.+...+ 
T Consensus       537 d~al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~l  616 (799)
T KOG4162|consen  537 DAALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYL  616 (799)
T ss_pred             HHHHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHH
Confidence            9887633220                  011222233322220         00              00011110000 


Q ss_pred             -------HHHCC---------C--CcC------HHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 017234          205 -------NIAAG---------F--SVN------VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLC  260 (375)
Q Consensus       205 -------m~~~~---------~--~~~------~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  260 (375)
                             ....|         +  .|+      ...|......+.+.+..++|...+.+..... ......|......+.
T Consensus       617 s~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~  695 (799)
T KOG4162|consen  617 SSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLE  695 (799)
T ss_pred             HHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHH
Confidence                   00111         0  011      2234455667778888888888877776653 334456666666777


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHH--HHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHH
Q 017234          261 ARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEE--QLETLTKCNQSPEVLLHFFSGIIRLYALSDRLD  338 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  338 (375)
                      ..|++++|.+.|......+ +-++....++..++.+.|+..-|..  ++.++.+.+  |...-. |..+...+-+.|+.+
T Consensus       696 ~~~~~~EA~~af~~Al~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d--p~n~ea-W~~LG~v~k~~Gd~~  771 (799)
T KOG4162|consen  696 VKGQLEEAKEAFLVALALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD--PLNHEA-WYYLGEVFKKLGDSK  771 (799)
T ss_pred             HHHhhHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC--CCCHHH-HHHHHHHHHHccchH
Confidence            8899999999999887754 3346678899999999999888888  999998855  443333 999999999999999


Q ss_pred             HHHHHHHHHHhC
Q 017234          339 DVEYSVGRMGKQ  350 (375)
Q Consensus       339 ~A~~~~~~m~~~  350 (375)
                      +|.+.|.-..+-
T Consensus       772 ~Aaecf~aa~qL  783 (799)
T KOG4162|consen  772 QAAECFQAALQL  783 (799)
T ss_pred             HHHHHHHHHHhh
Confidence            999999887653

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

Probab=98.34  E-value=0.00027  Score=69.38  Aligned_cols=236  Identities=14%  Similarity=0.108  Sum_probs=141.7

Q ss_pred             cCCCC-cccHHHHHHHH-hcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCH
Q 017234           66 AFNSS-QFSWDALITSL-QSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDS  143 (375)
Q Consensus        66 ~~~p~-~~~~~~li~~~-~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~  143 (375)
                      ++.|+ ...|..|+..+ ..+++++|.++    .+.-....+.....|..+...+.+.++...+..+             
T Consensus        25 ~~~p~n~~a~~~Li~~~~~~~~~deai~i----~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv-------------   87 (906)
T PRK14720         25 NYSLSKFKELDDLIDAYKSENLTDEAKDI----CEEHLKEHKKSISALYISGILSLSRRPLNDSNLL-------------   87 (906)
T ss_pred             cCCcchHHHHHHHHHHHHhcCCHHHHHHH----HHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh-------------
Confidence            44443 44566666664 77777777777    4444344443344444444455555654444333             


Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHH
Q 017234          144 AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHG  223 (375)
Q Consensus       144 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~  223 (375)
                          .++.......++.-+..++..|.+   ..-+...+..+..+|-+.|+.++|..+++++.+..+. |+.+.|.+...
T Consensus        88 ----~~l~~~~~~~~~~~ve~~~~~i~~---~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~  159 (906)
T PRK14720         88 ----NLIDSFSQNLKWAIVEHICDKILL---YGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATS  159 (906)
T ss_pred             ----hhhhhcccccchhHHHHHHHHHHh---hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHH
Confidence                233333344445444444444444   2334457778888888889999999999999888754 88888988888


Q ss_pred             HHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHH-----HHHhcCCHHHHHHHHHHHHhC-CCCcCHHHHHHHHHHHHHc
Q 017234          224 SLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLE-----GLCARRKLDRVKSFLKFLLGG-GWKINENMAQKLVKCYCEL  297 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~-----~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~  297 (375)
                      |+.. ++++|.+++.+....-+  +..-|+.+..     ......+.+.-.++.+.+... |..--..++-.+-..|...
T Consensus       160 ~ae~-dL~KA~~m~~KAV~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~  236 (906)
T PRK14720        160 YEEE-DKEKAITYLKKAIYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKAL  236 (906)
T ss_pred             HHHh-hHHHHHHHHHHHHHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhh
Confidence            8888 88999888877765411  0001111111     111233444444444444433 4344455666777888899


Q ss_pred             CChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHH
Q 017234          298 GRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYA  332 (375)
Q Consensus       298 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~  332 (375)
                      ++|+++..+++.+.+.... +...  ..-++.+|.
T Consensus       237 ~~~~~~i~iLK~iL~~~~~-n~~a--~~~l~~~y~  268 (906)
T PRK14720        237 EDWDEVIYILKKILEHDNK-NNKA--REELIRFYK  268 (906)
T ss_pred             hhhhHHHHHHHHHHhcCCc-chhh--HHHHHHHHH
Confidence            9999999999999886543 2333  566777775

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

Probab=98.32  E-value=0.002  Score=59.64  Aligned_cols=247  Identities=15%  Similarity=0.087  Sum_probs=147.3

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCC--CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcC---HhHHHHHHHHHHc
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNE--SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPD---SAVFNSLICACLC  155 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~  155 (375)
                      +..|++.+....+..+.........  .-...|..+.+.|-..|+++.|..+|++..+...+--   ..+|-.....=.+
T Consensus       358 l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElr  437 (835)
T KOG2047|consen  358 LYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELR  437 (835)
T ss_pred             hhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHh
Confidence            3455666666664322222211111  1245688889999999999999999999887644322   3455555566667


Q ss_pred             CCChHHHHHHHHHHHhC----------CCCCC------ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHH
Q 017234          156 SGDVVTALSLFEIMVSS----------EEYKP------NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYES  219 (375)
Q Consensus       156 ~g~~~~a~~~~~~m~~~----------~~~~~------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  219 (375)
                      ..+++.|+++.+.....          .+.++      +...|...+..--..|-++....+++++.+..+- ++..-..
T Consensus       438 h~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~N  516 (835)
T KOG2047|consen  438 HENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIIN  516 (835)
T ss_pred             hhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHH
Confidence            78889999988877651          00011      1223455555556677888888888888887654 4433333


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHH---hcCCHHHHHHHHHHHHhCCCCcCHHH--HHHHHHH
Q 017234          220 LIHGSLKARDFDSVDRFYEEMMSLGIIPSI-PILEKVLEGLC---ARRKLDRVKSFLKFLLGGGWKINENM--AQKLVKC  293 (375)
Q Consensus       220 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~---~~g~~~~a~~~~~~~~~~~~~~~~~~--~~~li~~  293 (375)
                      ....+-.+.-++++.++|++-...--.|+. ..|+..+.-+.   ....++.|..+|++.++ |++|...-  |-.....
T Consensus       517 yAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~l  595 (835)
T KOG2047|consen  517 YAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKL  595 (835)
T ss_pred             HHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHH
Confidence            333444566678888888766554434554 34555554443   23467888888888887 56654332  2222233


Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHH
Q 017234          294 YCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRL  330 (375)
Q Consensus       294 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~  330 (375)
                      =-+.|....|..++++.-. ++.+.....+||..|.-
T Consensus       596 EEe~GLar~amsiyerat~-~v~~a~~l~myni~I~k  631 (835)
T KOG2047|consen  596 EEEHGLARHAMSIYERATS-AVKEAQRLDMYNIYIKK  631 (835)
T ss_pred             HHHhhHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHH
Confidence            3356777777777777543 34444444445555543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.32  E-value=0.0025  Score=58.43  Aligned_cols=194  Identities=8%  Similarity=-0.002  Sum_probs=115.7

Q ss_pred             hHHHHHHhhcC---Ccc-hHHHHHHHhhhccCCCCcccHHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHH
Q 017234           40 SNPLISRLLQV---PVS-QIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLI  115 (375)
Q Consensus        40 ~~~ll~~l~~~---~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li  115 (375)
                      ...++..+-+.   +.. ++.+..+.+.+.+..+....+-.++...+.+.+++|+.+++    .-.....-+...| --.
T Consensus        12 ~~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ik----k~~~~~~~~~~~f-EKA   86 (652)
T KOG2376|consen   12 LEALLTDLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIK----KNGALLVINSFFF-EKA   86 (652)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHH----hcchhhhcchhhH-HHH
Confidence            34555555444   333 77888888877664444444444554479999999997742    2110001111111 122


Q ss_pred             HHHhccCChhHHHHHHHHHHHCCCCc-CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCC------------------
Q 017234          116 ALSGKVQNVPFAMHVFTSMEAQGIKP-DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYK------------------  176 (375)
Q Consensus       116 ~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~------------------  176 (375)
                      .+..+.+..++|+..++-     ..+ +..+...-...+.+.|++++|+++|+.+.+. +.+                  
T Consensus        87 Yc~Yrlnk~Dealk~~~~-----~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn-~~dd~d~~~r~nl~a~~a~l~  160 (652)
T KOG2376|consen   87 YCEYRLNKLDEALKTLKG-----LDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKN-NSDDQDEERRANLLAVAAALQ  160 (652)
T ss_pred             HHHHHcccHHHHHHHHhc-----ccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-CCchHHHHHHHHHHHHHHhhh
Confidence            333477899999988882     233 3446666677888999999999999999762 211                  


Q ss_pred             --------C-ChhcHHHHH---HHHHcCCCHHHHHHHHHHHHHCCCC------cC-H-------HhHHHHHHHHHccCCh
Q 017234          177 --------P-NSKTYDAFI---SGFSSLGNVDAMNKWYAANIAAGFS------VN-V-------QTYESLIHGSLKARDF  230 (375)
Q Consensus       177 --------~-~~~~~~~ll---~~~~~~~~~~~a~~~~~~m~~~~~~------~~-~-------~~~~~ll~~~~~~g~~  230 (375)
                              . ...+|..+-   ..+...|++.+|+++++...+.+.+      -+ .       ..---|.-.+...|+-
T Consensus       161 ~~~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt  240 (652)
T KOG2376|consen  161 VQLLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQT  240 (652)
T ss_pred             HHHHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcch
Confidence                    0 011333332   2345778888888888877332211      11 1       1112234456678888


Q ss_pred             HHHHHHHHHHHHCC
Q 017234          231 DSVDRFYEEMMSLG  244 (375)
Q Consensus       231 ~~a~~~~~~m~~~~  244 (375)
                      ++|..+|.......
T Consensus       241 ~ea~~iy~~~i~~~  254 (652)
T KOG2376|consen  241 AEASSIYVDIIKRN  254 (652)
T ss_pred             HHHHHHHHHHHHhc
Confidence            89998888888775

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

Probab=98.31  E-value=5.8e-05  Score=57.55  Aligned_cols=91  Identities=7%  Similarity=0.039  Sum_probs=36.1

Q ss_pred             HHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCC
Q 017234          220 LIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGR  299 (375)
Q Consensus       220 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  299 (375)
                      +...+...|++++|.+.|+.....+ +.+...+..+...+...|++++|...++...+.+ +.+...+..+...|...|+
T Consensus        23 ~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~  100 (135)
T TIGR02552        23 LAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGE  100 (135)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCC
Confidence            3333444444444444444443332 1233333334444444444444444444433332 2233333333444444444


Q ss_pred             hHHHHHHHHHHHh
Q 017234          300 VDELEEQLETLTK  312 (375)
Q Consensus       300 ~~~a~~~~~~~~~  312 (375)
                      +++|...|+...+
T Consensus       101 ~~~A~~~~~~al~  113 (135)
T TIGR02552       101 PESALKALDLAIE  113 (135)
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444444433

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.31  E-value=1.1e-06  Score=49.14  Aligned_cols=32  Identities=34%  Similarity=0.606  Sum_probs=15.8

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCC
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIP  247 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p  247 (375)
                      +|++++.+|++.|+++.|.++|++|++.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            44455555555555555555555555444443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.30  E-value=0.0018  Score=66.15  Aligned_cols=270  Identities=11%  Similarity=0.028  Sum_probs=167.4

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCC---CCC--HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCH----hHHHHHHH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGN---ESC--LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDS----AVFNSLIC  151 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~---~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~li~  151 (375)
                      ...|+++++...++...+.....+   .+.  ......+...+...|+++.|...+++..+.-...+.    ...+.+..
T Consensus       420 ~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~  499 (903)
T PRK04841        420 QSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGE  499 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHH
Confidence            578899999888654433322221   111  122223344566889999999999987653111121    34566666


Q ss_pred             HHHcCCChHHHHHHHHHHHhCCC-C-CCC--hhcHHHHHHHHHcCCCHHHHHHHHHHHHHC----CCC--c-CHHhHHHH
Q 017234          152 ACLCSGDVVTALSLFEIMVSSEE-Y-KPN--SKTYDAFISGFSSLGNVDAMNKWYAANIAA----GFS--V-NVQTYESL  220 (375)
Q Consensus       152 ~~~~~g~~~~a~~~~~~m~~~~~-~-~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~--~-~~~~~~~l  220 (375)
                      .+...|++++|...+++...... . .+.  ..+...+...+...|++++|...+++....    +..  + ....+..+
T Consensus       500 ~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l  579 (903)
T PRK04841        500 VHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIR  579 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHH
Confidence            77889999999999988775110 0 111  234455667788899999999998876542    221  1 23345555


Q ss_pred             HHHHHccCChHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCcCHH--H--HHHH
Q 017234          221 IHGSLKARDFDSVDRFYEEMMSL--GIIPS--IPILEKVLEGLCARRKLDRVKSFLKFLLGG--GWKINEN--M--AQKL  290 (375)
Q Consensus       221 l~~~~~~g~~~~a~~~~~~m~~~--~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~--~--~~~l  290 (375)
                      ...+...|++++|...+++....  ...+.  ...+..+...+...|+.+.|...+.+....  .......  .  ....
T Consensus       580 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~  659 (903)
T PRK04841        580 AQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVR  659 (903)
T ss_pred             HHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHH
Confidence            66677789999999998887553  11122  334455566777899999999998887542  1111111  1  1112


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCc-hHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          291 VKCYCELGRVDELEEQLETLTKCNQSPE-VLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       291 i~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      +..+...|+.+.|...+........... .....+..+..++...|++++|...+++....
T Consensus       660 ~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        660 LIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            2445568899999998877554221111 11111346777889999999999999988764

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.30  E-value=0.0005  Score=62.79  Aligned_cols=119  Identities=12%  Similarity=-0.001  Sum_probs=67.2

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVV  160 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  160 (375)
                      ...+++++|.+.    .+++...++.|...+..-+-+..+.+++++|+.+.+.-...  ..+..-+---..+..+.++.|
T Consensus        23 ~~~~e~e~a~k~----~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~D   96 (652)
T KOG2376|consen   23 GKNGEYEEAVKT----ANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLD   96 (652)
T ss_pred             ccchHHHHHHHH----HHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHH
Confidence            566777777777    56666666656666777777777777777777554432211  001111011123334667777


Q ss_pred             HHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCC
Q 017234          161 TALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGF  210 (375)
Q Consensus       161 ~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  210 (375)
                      +|+..++...+     .+..+...-...+.+.|++++|+++|+.+.+++.
T Consensus        97 ealk~~~~~~~-----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~  141 (652)
T KOG2376|consen   97 EALKTLKGLDR-----LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS  141 (652)
T ss_pred             HHHHHHhcccc-----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            77777663322     2222444445556677777777777777766543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.29  E-value=1.5e-06  Score=48.90  Aligned_cols=32  Identities=13%  Similarity=0.203  Sum_probs=27.2

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHhCCCCcc
Q 017234          324 FSGIIRLYALSDRLDDVEYSVGRMGKQGLSFK  355 (375)
Q Consensus       324 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~  355 (375)
                      |+++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         3 YNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            88888888888888888888888888888765

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.

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

Probab=98.29  E-value=0.001  Score=62.64  Aligned_cols=253  Identities=12%  Similarity=0.038  Sum_probs=170.0

Q ss_pred             hHHHHHHHhhhcc-CCCCcccHHHHHHHHhcCChHHHHHHHHHHHHHhhcC-CCCCHHHHHHHHHHHhccCChhHHHHHH
Q 017234           54 QIKTTLDSVDIFA-FNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKG-NESCLDEYACLIALSGKVQNVPFAMHVF  131 (375)
Q Consensus        54 ~~~~~~~~m~~~~-~~p~~~~~~~li~~~~~~~~~~a~~~~~~~~~~m~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~  131 (375)
                      +..+.+++..+.+ -.|++ .|..-+....+++.+.|.+..    .+...- +..+...|..+.-.+...+++.+|+.+.
T Consensus       462 kslqale~av~~d~~dp~~-if~lalq~A~~R~l~sAl~~~----~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vv  536 (799)
T KOG4162|consen  462 KSLQALEEAVQFDPTDPLV-IFYLALQYAEQRQLTSALDYA----REALALNRGDSAKAWHLLALVLSAQKRLKEALDVV  536 (799)
T ss_pred             HHHHHHHHHHhcCCCCchH-HHHHHHHHHHHHhHHHHHHHH----HHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            3356666664433 34444 444444445778889999884    444444 4578999999999999999999999999


Q ss_pred             HHHHH-CCCC------------------cCHhHHHHHHHHHHc---------CC--------------ChHHHHHHHHHH
Q 017234          132 TSMEA-QGIK------------------PDSAVFNSLICACLC---------SG--------------DVVTALSLFEIM  169 (375)
Q Consensus       132 ~~m~~-~g~~------------------p~~~~~~~li~~~~~---------~g--------------~~~~a~~~~~~m  169 (375)
                      +...+ .|..                  -...|...++..+-.         .|              +..+|.+..+.+
T Consensus       537 d~al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~l  616 (799)
T KOG4162|consen  537 DAALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYL  616 (799)
T ss_pred             HHHHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHH
Confidence            86653 2210                  011222222222220         00              111111111111


Q ss_pred             Hh-------CCC---------CCCCh--------hcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHH
Q 017234          170 VS-------SEE---------YKPNS--------KTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSL  225 (375)
Q Consensus       170 ~~-------~~~---------~~~~~--------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  225 (375)
                      ..       ..+         +.|+.        ..|......+.+.+..++|...+.+..+..+ .....|......+.
T Consensus       617 s~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~-l~~~~~~~~G~~~~  695 (799)
T KOG4162|consen  617 SSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKIDP-LSASVYYLRGLLLE  695 (799)
T ss_pred             HHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcch-hhHHHHHHhhHHHH
Confidence            10       001         11111        1244556667788888888888888777643 37777888888888


Q ss_pred             ccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH--HHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHH
Q 017234          226 KARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKS--FLKFLLGGGWKINENMAQKLVKCYCELGRVDEL  303 (375)
Q Consensus       226 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  303 (375)
                      ..|++++|.+.|......+ +-++...+++...+.+.|+...+..  ++.++.+.+ +.+...|..+...+.+.|+.+.|
T Consensus       696 ~~~~~~EA~~af~~Al~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~A  773 (799)
T KOG4162|consen  696 VKGQLEEAKEAFLVALALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQA  773 (799)
T ss_pred             HHHhhHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHH
Confidence            9999999999999888764 3446788899999999998888888  999999887 67889999999999999999999


Q ss_pred             HHHHHHHHhCC
Q 017234          304 EEQLETLTKCN  314 (375)
Q Consensus       304 ~~~~~~~~~~~  314 (375)
                      -+.|+...+..
T Consensus       774 aecf~aa~qLe  784 (799)
T KOG4162|consen  774 AECFQAALQLE  784 (799)
T ss_pred             HHHHHHHHhhc
Confidence            99999877643

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.28  E-value=0.00089  Score=57.52  Aligned_cols=92  Identities=9%  Similarity=0.038  Sum_probs=52.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhh
Q 017234          255 VLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALS  334 (375)
Q Consensus       255 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  334 (375)
                      +.++.+..|++.+|+++|-++....++.+..-...|.++|.+.+..+.|+.++-++..    |.........+..-|.+.
T Consensus       399 ~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t----~~e~fsLLqlIAn~CYk~  474 (557)
T KOG3785|consen  399 LAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNT----PSERFSLLQLIANDCYKA  474 (557)
T ss_pred             HHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC----chhHHHHHHHHHHHHHHH
Confidence            4555666666777777766655444433333334455677777777777766654422    333333345555666666


Q ss_pred             CCHHHHHHHHHHHHhC
Q 017234          335 DRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       335 g~~~~A~~~~~~m~~~  350 (375)
                      +.+--|-+.|..+...
T Consensus       475 ~eFyyaaKAFd~lE~l  490 (557)
T KOG3785|consen  475 NEFYYAAKAFDELEIL  490 (557)
T ss_pred             HHHHHHHHhhhHHHcc
Confidence            7766666666665543

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

Probab=98.28  E-value=0.00043  Score=63.05  Aligned_cols=251  Identities=10%  Similarity=0.082  Sum_probs=183.9

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVV  160 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  160 (375)
                      .+.|++.+|.-.    |+.-.+..+.+...|..|-..-...++-..|+..+.+-.+.. +-+....-+|.-.|...|.-.
T Consensus       296 m~nG~L~~A~La----fEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  296 MKNGDLSEAALA----FEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HhcCCchHHHHH----HHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHH
Confidence            689999999988    566666677889999999999999999999999999998875 336778888888999999999


Q ss_pred             HHHHHHHHHHhCC---CC--C--CChhcHHHHHHHHHcCCCHHHHHHHHHHHH-HCCCCcCHHhHHHHHHHHHccCChHH
Q 017234          161 TALSLFEIMVSSE---EY--K--PNSKTYDAFISGFSSLGNVDAMNKWYAANI-AAGFSVNVQTYESLIHGSLKARDFDS  232 (375)
Q Consensus       161 ~a~~~~~~m~~~~---~~--~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~-~~~~~~~~~~~~~ll~~~~~~g~~~~  232 (375)
                      +|.+.++.-....   ..  .  ++...-..  ..+.....+....++|-++. +.+..+|+.+...|--.|--.|+++.
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdr  448 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDR  448 (579)
T ss_pred             HHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHH
Confidence            9999888775511   00  0  00000000  12223334455666666654 44545788888899888999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH-HHHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          233 VDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINE-NMAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       233 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                      |.+.|+..+... +-|..+||.|-..++...+.++|...|.+.++.  .|+- .+...|.-.|...|.+++|.+.|-...
T Consensus       449 aiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  449 AVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            999999998864 446789999999999999999999999999884  5653 455567778899999999999887654


Q ss_pred             hCCC---------CCchHHHHHHHHHHHHHhhCCHHHHHHH
Q 017234          312 KCNQ---------SPEVLLHFFSGIIRLYALSDRLDDVEYS  343 (375)
Q Consensus       312 ~~~~---------~~~~~~~~~~~li~~~~~~g~~~~A~~~  343 (375)
                      ....         .++...  |..|=.++.-.++.|-+.+.
T Consensus       526 ~mq~ks~~~~~~~~~se~i--w~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  526 SMQRKSRNHNKAPMASENI--WQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             HhhhcccccccCCcchHHH--HHHHHHHHHHcCCchHHHHh
Confidence            3211         111223  77776667777776655443

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

Probab=98.27  E-value=9.1e-05  Score=69.05  Aligned_cols=206  Identities=13%  Similarity=0.080  Sum_probs=152.9

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVV  160 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  160 (375)
                      .+.|-...|..+++    +        ...|.-+|..|...|+-..|..+..+..+.  +||+..|..+.+......-++
T Consensus       409 ~slGitksAl~I~E----r--------lemw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yE  474 (777)
T KOG1128|consen  409 LSLGITKSALVIFE----R--------LEMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYE  474 (777)
T ss_pred             HHcchHHHHHHHHH----h--------HHHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHH
Confidence            47777777777743    2        446788999999999999999999888874  789999988888877777788


Q ss_pred             HHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 017234          161 TALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       161 ~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      +|.++.+.....        .-..+.....+.++++++.+.|+.-.+... .-..+|-..-.+..+.++++.|.+.|..-
T Consensus       475 kawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~np-lq~~~wf~~G~~ALqlek~q~av~aF~rc  545 (777)
T KOG1128|consen  475 KAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINP-LQLGTWFGLGCAALQLEKEQAAVKAFHRC  545 (777)
T ss_pred             HHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCc-cchhHHHhccHHHHHHhhhHHHHHHHHHH
Confidence            888888776541        111222223346788888888887655442 35677777777888888888888888776


Q ss_pred             HHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          241 MSLGIIPS-IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       241 ~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      ...  .|| ...||.+-.+|.+.|+..+|...+++..+.+ .-+..+|...+....+.|.+++|.+.+.++.+
T Consensus       546 vtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  546 VTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             hhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            654  344 5778888888888888888888888888776 44556677777777888888888888877654

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

Probab=98.26  E-value=0.0012  Score=54.54  Aligned_cols=198  Identities=13%  Similarity=0.064  Sum_probs=132.3

Q ss_pred             CCCHHHHHHHHHHHhccCChhHHHH-HHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHH
Q 017234          105 ESCLDEYACLIALSGKVQNVPFAMH-VFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYD  183 (375)
Q Consensus       105 ~~~~~~~~~li~~~~~~~~~~~a~~-~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  183 (375)
                      .|.....-.+.......++.+.-+. +.+.+......-+......-...|++.|++++|++......       +.....
T Consensus        69 ~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~-------~lE~~A  141 (299)
T KOG3081|consen   69 ATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE-------NLEAAA  141 (299)
T ss_pred             CChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc-------hHHHHH
Confidence            3444444444444444454444333 33344433333333444444567889999999999887622       222333


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHc----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 017234          184 AFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLK----ARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGL  259 (375)
Q Consensus       184 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  259 (375)
                      .=...+.+..+.+-|.+.+++|.+..   +..|.+-|..++.+    .+.+.+|.-+|++|-++- .|+..+.+-...++
T Consensus       142 l~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~-~~T~~llnG~Av~~  217 (299)
T KOG3081|consen  142 LNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKT-PPTPLLLNGQAVCH  217 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhccc-CCChHHHccHHHHH
Confidence            33445567788999999999999852   56666666666654    456889999999998753 78888999999899


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChH-HHHHHHHHHHhCC
Q 017234          260 CARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVD-ELEEQLETLTKCN  314 (375)
Q Consensus       260 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~-~a~~~~~~~~~~~  314 (375)
                      ...|++++|..++++.+...- -++.+...++.+-...|... -..+.+..++...
T Consensus       218 l~~~~~eeAe~lL~eaL~kd~-~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~  272 (299)
T KOG3081|consen  218 LQLGRYEEAESLLEEALDKDA-KDPETLANLIVLALHLGKDAEVTERNLSQLKLSH  272 (299)
T ss_pred             HHhcCHHHHHHHHHHHHhccC-CCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcC
Confidence            999999999999999988763 45666666666656666554 4566677776643

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.25  E-value=0.0016  Score=53.42  Aligned_cols=194  Identities=10%  Similarity=0.059  Sum_probs=138.8

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCC-CCH-HHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCC
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNE-SCL-DEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGD  158 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~-~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  158 (375)
                      +...++++.++++..+...+..+.. ++. ..|..++-+....|+.+.|...++++...= +-+..+-..-.-.+-..|.
T Consensus        23 ~~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   23 ETVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             ccccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhc
Confidence            5667788888887776666666522 443 456777778888999999999999987662 2222222222223345689


Q ss_pred             hHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHH
Q 017234          159 VVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYE  238 (375)
Q Consensus       159 ~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~  238 (375)
                      +++|+++|+.+.++.  +.|..++..-+...-..|+.-+|++-+.+..+.- ..|...|.-+...|...|++++|.-.++
T Consensus       102 ~~~A~e~y~~lL~dd--pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F-~~D~EAW~eLaeiY~~~~~f~kA~fClE  178 (289)
T KOG3060|consen  102 YKEAIEYYESLLEDD--PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKF-MNDQEAWHELAEIYLSEGDFEKAAFCLE  178 (289)
T ss_pred             hhhHHHHHHHHhccC--cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHh-cCcHHHHHHHHHHHHhHhHHHHHHHHHH
Confidence            999999999999732  5566677766666777788778888888877763 4599999999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCC
Q 017234          239 EMMSLGIIPSIPILEKVLEGLCARR---KLDRVKSFLKFLLGGG  279 (375)
Q Consensus       239 ~m~~~~~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~  279 (375)
                      ++.-.. +.+...+..+...+.-.|   +.+.+.++|.+.++..
T Consensus       179 E~ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  179 ELLLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            998764 334445555555554443   5677888888887653

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.25  E-value=0.0017  Score=53.28  Aligned_cols=190  Identities=12%  Similarity=0.061  Sum_probs=143.5

Q ss_pred             ccCChhHHHHHHHHHHH---CC-CCcCHh-HHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCC
Q 017234          120 KVQNVPFAMHVFTSMEA---QG-IKPDSA-VFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGN  194 (375)
Q Consensus       120 ~~~~~~~a~~~~~~m~~---~g-~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~  194 (375)
                      ...+.++..+++.++..   .| ..++.. .|..++-+....|+.+.|...++.+.++  ++-+..+-..-.--+-..|.
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~--fp~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR--FPGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHhhc
Confidence            44577888888888763   34 455655 4556677778899999999999999973  33333333332334566899


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 017234          195 VDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKF  274 (375)
Q Consensus       195 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  274 (375)
                      +++|.++++.+.+..+ .|.+++---+...-..|+--+|++-+.+..+.- ..|...|..+...|...|++++|.-.+++
T Consensus       102 ~~~A~e~y~~lL~ddp-t~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F-~~D~EAW~eLaeiY~~~~~f~kA~fClEE  179 (289)
T KOG3060|consen  102 YKEAIEYYESLLEDDP-TDTVIRKRKLAILKAQGKNLEAIKELNEYLDKF-MNDQEAWHELAEIYLSEGDFEKAAFCLEE  179 (289)
T ss_pred             hhhHHHHHHHHhccCc-chhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHh-cCcHHHHHHHHHHHHhHhHHHHHHHHHHH
Confidence            9999999999999874 488888877888888888889988888887764 67899999999999999999999999999


Q ss_pred             HHhCCCCcCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhCC
Q 017234          275 LLGGGWKINENMAQKLVKCYCELG---RVDELEEQLETLTKCN  314 (375)
Q Consensus       275 ~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~  314 (375)
                      +.-.. +.++-.+..+...+--.|   +.+.|.+.+.+..+..
T Consensus       180 ~ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  180 LLLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            97653 445556666666654444   4567888888887744

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

Probab=98.24  E-value=2.6e-05  Score=70.20  Aligned_cols=122  Identities=12%  Similarity=0.070  Sum_probs=77.0

Q ss_pred             CCCHHHHHHHHHHHhccCChhHHHHHHHHHHHC--CCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcH
Q 017234          105 ESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQ--GIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTY  182 (375)
Q Consensus       105 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  182 (375)
                      +.+......+++.+....+++.+..++.+....  ....-..|.+++++.|.+.|..++++.+++.=.. .|+=||..++
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~-yGiF~D~~s~  141 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQ-YGIFPDNFSF  141 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhh-cccCCChhhH
Confidence            345556666666666666666777766666644  2222334455777777777777777777766666 6777777777


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHcc
Q 017234          183 DAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKA  227 (375)
Q Consensus       183 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  227 (375)
                      |.||..+.+.|++..|.++...|...+...+..|+..-+.+|.+-
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            777777777777777777766666555555555555555555443

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.24  E-value=1.9e-06  Score=48.10  Aligned_cols=32  Identities=31%  Similarity=0.597  Sum_probs=17.8

Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHCCCCc
Q 017234          110 EYACLIALSGKVQNVPFAMHVFTSMEAQGIKP  141 (375)
Q Consensus       110 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p  141 (375)
                      +|+++|.+|++.|+++.|.++|++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            45555555555555555555555555555544

>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=98.23  E-value=0.00011  Score=65.82  Aligned_cols=124  Identities=8%  Similarity=0.060  Sum_probs=80.8

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCE  296 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  296 (375)
                      -..|+..+...++++.|..+|+++.+..  |+.  ...++..+...++-.+|.+++.+.++.. +-+........+.+.+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            3445555556677777777777777653  443  3345666666667777777777776542 3455666666666777


Q ss_pred             cCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          297 LGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       297 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      .++++.|..+.+++.+  ..|+.... |..|..+|.+.|++++|+..++.+-
T Consensus       247 k~~~~lAL~iAk~av~--lsP~~f~~-W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVE--LSPSEFET-WYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHH--hCchhHHH-HHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            7777777777777776  33544322 7777777777777777777776654

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

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.23  E-value=0.00014  Score=67.89  Aligned_cols=193  Identities=15%  Similarity=0.161  Sum_probs=121.8

Q ss_pred             HHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCC
Q 017234          115 IALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGN  194 (375)
Q Consensus       115 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~  194 (375)
                      +.+.....++..|+.+++.+....  .-..-|..+.+.|+..|+++.|.++|-+.-          .++-.|..|.+.|+
T Consensus       739 ieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~----------~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD----------LFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc----------hhHHHHHHHhcccc
Confidence            344456677888888888777653  223346677788888899998888887653          36677888899999


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 017234          195 VDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKF  274 (375)
Q Consensus       195 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  274 (375)
                      |..|.++-++.  .|.......|-+-..-+-+.|++.+|.++|-.+.    .|+     ..|+.|-+.|..+...++..+
T Consensus       807 w~da~kla~e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  807 WEDAFKLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HHHHHHHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHH
Confidence            99888876554  3455566777777777778888888887774443    454     245566667766666666544


Q ss_pred             HHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHH
Q 017234          275 LLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSV  344 (375)
Q Consensus       275 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  344 (375)
                      -...   .-..|...+..-|...|++..|+.-|-+..+           |.+-+..|...+-|++|.++-
T Consensus       876 ~h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~d-----------~kaavnmyk~s~lw~dayria  931 (1636)
T KOG3616|consen  876 HHGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD-----------FKAAVNMYKASELWEDAYRIA  931 (1636)
T ss_pred             hChh---hhhHHHHHHHHHHHhccChhHHHHHHHhhhh-----------HHHHHHHhhhhhhHHHHHHHH
Confidence            2211   1123444555556666666666655543322           444455555555555555443

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

Probab=98.23  E-value=0.0001  Score=57.00  Aligned_cols=127  Identities=13%  Similarity=0.078  Sum_probs=78.2

Q ss_pred             HhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC--HHHHHH
Q 017234          215 QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPS---IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN--ENMAQK  289 (375)
Q Consensus       215 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~  289 (375)
                      ..|..++..+. .++...+...++.+.... +.+   ....-.+...+...|++++|...|+.+......|+  ......
T Consensus        13 ~~y~~~~~~~~-~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~   90 (145)
T PF09976_consen   13 ALYEQALQALQ-AGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHHHH-CCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHH
Confidence            34555555553 677777777777777653 122   12233344666677888888888887777652222  123444


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHH
Q 017234          290 LVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRM  347 (375)
Q Consensus       290 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  347 (375)
                      |...+...|++++|...++........|    ..+....+.|.+.|++++|...|++.
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~----~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKA----LAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHH----HHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            6677777888888888776643322222    12666777788888888888877653

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

Probab=98.21  E-value=0.00044  Score=67.89  Aligned_cols=229  Identities=14%  Similarity=0.136  Sum_probs=130.5

Q ss_pred             ccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH--HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHH
Q 017234           37 VSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS--LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYAC  113 (375)
Q Consensus        37 ~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~--~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~  113 (375)
                      ...+..|+..+...+.. ++..+.+.-.  -..|+...+-.+...  ++.++.+.+..+                    .
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~l--~~~P~~i~~yy~~G~l~~q~~~~~~~~lv--------------------~   88 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEHL--KEHKKSISALYISGILSLSRRPLNDSNLL--------------------N   88 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHH--HhCCcceehHHHHHHHHHhhcchhhhhhh--------------------h
Confidence            34778888888666655 7777777443  355655544433333  455554444443                    3


Q ss_pred             HHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCC
Q 017234          114 LIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLG  193 (375)
Q Consensus       114 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~  193 (375)
                      ++.......++..+..+...|.+.  .-+...+-.+..+|-+.|+.++|..+|+++.+ .. +-|..+.|.+...|... 
T Consensus        89 ~l~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~-~D-~~n~~aLNn~AY~~ae~-  163 (906)
T PRK14720         89 LIDSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVK-AD-RDNPEIVKKLATSYEEE-  163 (906)
T ss_pred             hhhhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHh-cC-cccHHHHHHHHHHHHHh-
Confidence            334444444444444444455443  22344666677777777777777777777776 32 44566667777777766 


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHH-----HccCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHH
Q 017234          194 NVDAMNKWYAANIAAGFSVNVQTYESLIHGS-----LKARDFDSVDRFYEEMMSL-GIIPSIPILEKVLEGLCARRKLDR  267 (375)
Q Consensus       194 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~-----~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~  267 (375)
                      ++++|.+++.+....-+  +..-|+.+....     ...-+++.-..+.+.++.. |..--..++-.+-..|-...++++
T Consensus       164 dL~KA~~m~~KAV~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~  241 (906)
T PRK14720        164 DKEKAITYLKKAIYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDE  241 (906)
T ss_pred             hHHHHHHHHHHHHHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhH
Confidence            77777777766655311  111111111110     1112333444444444433 222233455566677778889999


Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 017234          268 VKSFLKFLLGGGWKINENMAQKLVKCYC  295 (375)
Q Consensus       268 a~~~~~~~~~~~~~~~~~~~~~li~~~~  295 (375)
                      +..+++.+++.. +-|.....-++.+|.
T Consensus       242 ~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        242 VIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            999999998865 346677777887776

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

Probab=98.20  E-value=0.0033  Score=58.29  Aligned_cols=265  Identities=11%  Similarity=0.009  Sum_probs=143.2

Q ss_pred             cHHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHH
Q 017234           73 SWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICA  152 (375)
Q Consensus        73 ~~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  152 (375)
                      .|..++..+..+++.+.++..    +.+....+.-..+.....-.+...|+-++|......-...++. +...|+.+.-.
T Consensus        10 lF~~~lk~yE~kQYkkgLK~~----~~iL~k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~   84 (700)
T KOG1156|consen   10 LFRRALKCYETKQYKKGLKLI----KQILKKFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLL   84 (700)
T ss_pred             HHHHHHHHHHHHHHHhHHHHH----HHHHHhCCccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHH
Confidence            345556666777777777773    3333333323334444444455566777777666666554433 56666666666


Q ss_pred             HHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHH
Q 017234          153 CLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDS  232 (375)
Q Consensus       153 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~  232 (375)
                      +-...++++|++.|+.....  -+-|...+.-+--.-++.++++.......++.+..+. ....|..+.-++--.|+...
T Consensus        85 ~R~dK~Y~eaiKcy~nAl~~--~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~-~ra~w~~~Avs~~L~g~y~~  161 (700)
T KOG1156|consen   85 QRSDKKYDEAIKCYRNALKI--EKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPS-QRASWIGFAVAQHLLGEYKM  161 (700)
T ss_pred             HhhhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhh-hHHHHHHHHHHHHHHHHHHH
Confidence            66666777777777776651  1334455555544455666666666666666665432 44556666666666777777


Q ss_pred             HHHHHHHHHHCC-CCCCHHHHHHHHH------HHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHH
Q 017234          233 VDRFYEEMMSLG-IIPSIPILEKVLE------GLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEE  305 (375)
Q Consensus       233 a~~~~~~m~~~~-~~p~~~~~~~li~------~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  305 (375)
                      |..+.++..+.. -.|+...|.....      .....|..++|.+.+..-... +......-..-...+.+.+++++|..
T Consensus       162 A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~  240 (700)
T KOG1156|consen  162 ALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVK  240 (700)
T ss_pred             HHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHH
Confidence            777777666543 2344444332221      223556666666555443321 11112222334455666777777777


Q ss_pred             HHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHH-HHHHHHHh
Q 017234          306 QLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVE-YSVGRMGK  349 (375)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~-~~~~~m~~  349 (375)
                      ++..+..++  |+...+ |..+..++.+-.+.-++. .+|....+
T Consensus       241 ~y~~Ll~rn--Pdn~~Y-y~~l~~~lgk~~d~~~~lk~ly~~ls~  282 (700)
T KOG1156|consen  241 VYRRLLERN--PDNLDY-YEGLEKALGKIKDMLEALKALYAILSE  282 (700)
T ss_pred             HHHHHHhhC--chhHHH-HHHHHHHHHHHhhhHHHHHHHHHHHhh
Confidence            777776643  554442 444444443233333333 55555444

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

Probab=98.15  E-value=0.00012  Score=55.87  Aligned_cols=99  Identities=14%  Similarity=0.122  Sum_probs=48.1

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      +......+...+.+.|++++|...|+.....+ +.+...+..+..++.+.|++++|...++...+ . .+.+..++..+.
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~-~-~p~~~~~~~~la   92 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAA-L-DPDDPRPYFHAA   92 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-c-CCCChHHHHHHH
Confidence            33444444455555555555555555554432 22444555555555555555555555555443 1 122334444444


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHC
Q 017234          187 SGFSSLGNVDAMNKWYAANIAA  208 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~  208 (375)
                      ..+...|++++|...|+...+.
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        93 ECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            4555555555555555554443

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

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

Probab=98.15  E-value=7.5e-05  Score=67.24  Aligned_cols=133  Identities=14%  Similarity=0.046  Sum_probs=98.2

Q ss_pred             HHHHh---hhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHH
Q 017234           58 TLDSV---DIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTS  133 (375)
Q Consensus        58 ~~~~m---~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  133 (375)
                      ++..|   ...+..-+......+++. -...+.+.+..++.+ +..-......-..|.+++++.|.+.|..+.++.++..
T Consensus        50 ~~~~l~~k~~~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k-~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n  128 (429)
T PF10037_consen   50 LYSELDKKFERKKPVSSLDLDIFVNNVESKDDLDEVEDVLYK-FRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKN  128 (429)
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHH-HHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhC
Confidence            45555   234445566677777877 466677888888532 1111111212344556999999999999999999999


Q ss_pred             HHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcC
Q 017234          134 MEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSL  192 (375)
Q Consensus       134 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~  192 (375)
                      =...|+=||..++|.+|+.+.+.|++..|.++...|.. .+.-.+..|+..-+.+|.+-
T Consensus       129 ~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~l-Qe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  129 RLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMML-QEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHH-hhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999887 45556667777777776665

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 [].

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

Probab=98.14  E-value=0.00092  Score=60.53  Aligned_cols=189  Identities=11%  Similarity=0.068  Sum_probs=139.8

Q ss_pred             hHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCC---CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHH
Q 017234          159 VVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLG---NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDR  235 (375)
Q Consensus       159 ~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~  235 (375)
                      -+++.++++...+ .-...+..+|..+...--..-   ..+...+.++++...-..--..+|-..|+.-.+..-++.|..
T Consensus       309 t~e~~~~yEr~I~-~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~  387 (656)
T KOG1914|consen  309 TDEAASIYERAIE-GLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARK  387 (656)
T ss_pred             HHHHHHHHHHHHH-HHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHH
Confidence            3556666666655 222233334443332211111   255666777776655333234568888888888889999999


Q ss_pred             HHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          236 FYEEMMSLGIIP-SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       236 ~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      +|.+..+.+..+ ++..+++++..+| .++...|.++|+--++. +..++.-....++.+...++-..|..+|++....+
T Consensus       388 iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~  465 (656)
T KOG1914|consen  388 IFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSV  465 (656)
T ss_pred             HHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhcc
Confidence            999999988777 7788888888777 67789999999876654 34455666788899999999999999999999987


Q ss_pred             CCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          315 QSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       315 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      +.++....+|..++.-=..-|+...+.++-+++...
T Consensus       466 l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  466 LSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            788777777999999989999999999999888764

>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=98.12  E-value=0.00013  Score=65.39  Aligned_cols=124  Identities=14%  Similarity=0.102  Sum_probs=77.4

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHH
Q 017234          111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFS  190 (375)
Q Consensus       111 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~  190 (375)
                      -..++..+...++++.|..+|+++.+..  |+  ....++..+...++..+|.+++++..+.  .+.+......-...+.
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            3455566666677777777777776652  33  3344666666666667777777766652  2334444444455566


Q ss_pred             cCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 017234          191 SLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMM  241 (375)
Q Consensus       191 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  241 (375)
                      +.++.+.|+++.+++.+..+. +..+|..|..+|...|+++.|+..++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            777777777777777665432 44577777777777777777776666554

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

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

Probab=98.11  E-value=9.8e-05  Score=52.51  Aligned_cols=77  Identities=21%  Similarity=0.425  Sum_probs=46.7

Q ss_pred             HHHHHHccCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHhCCCCcCHHHHHHH
Q 017234          220 LIHGSLKARDFDSVDRFYEEMMSLGI-IPSIPILEKVLEGLCARR--------KLDRVKSFLKFLLGGGWKINENMAQKL  290 (375)
Q Consensus       220 ll~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~g--------~~~~a~~~~~~~~~~~~~~~~~~~~~l  290 (375)
                      .|..+...+++.....+|..+++.|+ .|+..+|+.++.+.++..        ++-+.+.+|+.|+..+++|+..+|+.+
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            34444444666666666666666666 666666666666655432        233456666666666666777777766


Q ss_pred             HHHHHH
Q 017234          291 VKCYCE  296 (375)
Q Consensus       291 i~~~~~  296 (375)
                      +..+.+
T Consensus       111 l~~Llk  116 (120)
T PF08579_consen  111 LGSLLK  116 (120)
T ss_pred             HHHHHH
Confidence            665543

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 [, , ].

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.11  E-value=0.00043  Score=65.63  Aligned_cols=239  Identities=14%  Similarity=0.080  Sum_probs=152.4

Q ss_pred             CcccHHHHHHH---HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHC-C-------
Q 017234           70 SQFSWDALITS---LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQ-G-------  138 (375)
Q Consensus        70 ~~~~~~~li~~---~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g-------  138 (375)
                      |..|-..+++-   ..-|+.+.|.+.+    .-++     +..+|..+.+.|.+.++++-|.-.+-.|... |       
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI----~~Ik-----S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a  795 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSI----QFIK-----SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRA  795 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHH----HHHh-----hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHH
Confidence            56667777776   2789999998884    3333     4668999999999999999988888777632 1       


Q ss_pred             -CCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhH
Q 017234          139 -IKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTY  217 (375)
Q Consensus       139 -~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  217 (375)
                       -.|+ .+=....-.....|-+++|..+|++-++          |..|=..|-..|.|++|+++-+.=-...+   ..||
T Consensus       796 ~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR----------~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Ty  861 (1416)
T KOG3617|consen  796 QQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR----------YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTY  861 (1416)
T ss_pred             HhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH----------HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhH
Confidence             1122 2222222334567899999999998886          56666778889999999988765333222   3456


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHH----------HCC---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 017234          218 ESLIHGSLKARDFDSVDRFYEEMM----------SLG---------IIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG  278 (375)
Q Consensus       218 ~~ll~~~~~~g~~~~a~~~~~~m~----------~~~---------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  278 (375)
                      ..-..-+-..++.+.|++.|++..          ...         -..|...|..-.+..-..|+.+.|+.+|....+ 
T Consensus       862 y~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D-  940 (1416)
T KOG3617|consen  862 YNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD-  940 (1416)
T ss_pred             HHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh-
Confidence            666666667778888877775431          111         123445555566666677777777777765543 


Q ss_pred             CCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          279 GWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       279 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                              |-++++..|-.|+.++|-++-++-.+      ...  .-.|.+.|-..|++.+|+..|.+..
T Consensus       941 --------~fs~VrI~C~qGk~~kAa~iA~esgd------~AA--cYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  941 --------YFSMVRIKCIQGKTDKAARIAEESGD------KAA--CYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             --------hhhheeeEeeccCchHHHHHHHhccc------HHH--HHHHHHHhhhhHHHHHHHHHHHHHH
Confidence                    44455555666666666665543221      111  3345666666666666666665443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.10  E-value=0.0026  Score=61.92  Aligned_cols=278  Identities=11%  Similarity=0.144  Sum_probs=153.6

Q ss_pred             cccchHHHHHHhhcCCcchHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHH----------HHHhhcCC
Q 017234           36 SVSSSNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWR----------LDKMLKGN  104 (375)
Q Consensus        36 ~~~~~~~ll~~l~~~~~~~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~----------~~~m~~~~  104 (375)
                      +.---|.||-...++.+.++.+.++..-... .|+.      ... ..++-+++|..+|...          ++......
T Consensus      1020 ~~nLQnLLiLtAikad~trVm~YI~rLdnyD-a~~i------a~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ld 1092 (1666)
T KOG0985|consen 1020 NRNLQNLLILTAIKADRTRVMEYINRLDNYD-APDI------AEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLD 1092 (1666)
T ss_pred             chhhhhhHHHHHhhcChHHHHHHHHHhccCC-chhH------HHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHH
Confidence            3345577777778888887777777663321 1221      111 2333334444442110          22211111


Q ss_pred             --------CCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCC
Q 017234          105 --------ESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYK  176 (375)
Q Consensus       105 --------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  176 (375)
                              ...+.+|+.+..+-.+.|.+.+|.+-|-+.      -|+..|..+++...+.|.+++-.+++...++ ..-.
T Consensus      1093 RA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRk-k~~E 1165 (1666)
T KOG0985|consen 1093 RAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARK-KVRE 1165 (1666)
T ss_pred             HHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHH-hhcC
Confidence                    135678899999999999988888776543      2788899999999999999999999888877 4444


Q ss_pred             CChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHH--------------
Q 017234          177 PNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMS--------------  242 (375)
Q Consensus       177 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~--------------  242 (375)
                      |...  +.|+-+|.+.++..+.++++.       -||......+.+-|...|.++.|.-+|.....              
T Consensus      1166 ~~id--~eLi~AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~Lgey 1236 (1666)
T KOG0985|consen 1166 PYID--SELIFAYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEY 1236 (1666)
T ss_pred             ccch--HHHHHHHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            5444  478889999988877665541       25555555555555555555555544433210              


Q ss_pred             ------CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC
Q 017234          243 ------LGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQS  316 (375)
Q Consensus       243 ------~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  316 (375)
                            ..-..+..||..+-.+|...+.+.-|     +|-..++.....-..-++..|-..|-+++...+++.-.  |+.
T Consensus      1237 Q~AVD~aRKAns~ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L--GLE 1309 (1666)
T KOG0985|consen 1237 QGAVDAARKANSTKTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL--GLE 1309 (1666)
T ss_pred             HHHHHHhhhccchhHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh--chh
Confidence                  00012233444444444443333222     12122223334445556666777777776666665432  222


Q ss_pred             CchHHHHHHHHHHHHHhhCCHHHHHHHHH
Q 017234          317 PEVLLHFFSGIIRLYALSDRLDDVEYSVG  345 (375)
Q Consensus       317 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~  345 (375)
                      . .+...|+-|.-.|.+- ++++..+.++
T Consensus      1310 R-AHMgmfTELaiLYsky-kp~km~EHl~ 1336 (1666)
T KOG0985|consen 1310 R-AHMGMFTELAILYSKY-KPEKMMEHLK 1336 (1666)
T ss_pred             H-HHHHHHHHHHHHHHhc-CHHHHHHHHH
Confidence            2 2222355555555443 3344444433

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

Probab=98.07  E-value=0.00026  Score=54.74  Aligned_cols=124  Identities=14%  Similarity=0.040  Sum_probs=62.5

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHCCCCcC---HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh--hcHHHH
Q 017234          111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPD---SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS--KTYDAF  185 (375)
Q Consensus       111 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--~~~~~l  185 (375)
                      |..++..+ ..++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+.... ..-.|+.  ...-.+
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-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALA-NAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-hCCCHHHHHHHHHHH
Confidence            44444444 3555566666666665542 112   12223344555566666666666666665 2211111  122234


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEE  239 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~  239 (375)
                      ...+...|++++|+..++......  .....+......|...|++++|...|+.
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            555566666666666665533222  2344555556666666666666666654

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

Probab=98.07  E-value=5.1e-06  Score=45.22  Aligned_cols=29  Identities=38%  Similarity=0.597  Sum_probs=14.6

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCC
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLG  244 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~  244 (375)
                      +|++++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            44555555555555555555555554443

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.

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

Probab=98.07  E-value=0.0085  Score=54.55  Aligned_cols=152  Identities=10%  Similarity=0.096  Sum_probs=124.0

Q ss_pred             ChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCc-CHHhHHHHHHHHHccCChHHHHHH
Q 017234          158 DVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSV-NVQTYESLIHGSLKARDFDSVDRF  236 (375)
Q Consensus       158 ~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~  236 (375)
                      ..+....+++++.....+.|+. +|...++.-.+..-+..|..+|.+..+.+..+ ++.++++++..||. ++.+-|.++
T Consensus       346 ~~~~~~~~~~~ll~~~~~~~tL-v~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrI  423 (656)
T KOG1914|consen  346 KEKKVHEIYNKLLKIEDIDLTL-VYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRI  423 (656)
T ss_pred             hhhhhHHHHHHHHhhhccCCce-ehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHH
Confidence            3667778888887755556655 68888998889999999999999999998877 88999999998875 788999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH--HHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          237 YEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINE--NMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       237 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      |+-=.+.- .-+..-....+.-+...++-..+..+|++.+..++.||.  .+|..++..=+..|++..+.++-+++..
T Consensus       424 FeLGLkkf-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  424 FELGLKKF-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHHHhc-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            98766552 223344556777788999999999999999998766664  6799999999999999999998887654

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

Probab=98.04  E-value=6.7e-05  Score=53.32  Aligned_cols=77  Identities=17%  Similarity=0.333  Sum_probs=47.0

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHCCC-CcCHhHHHHHHHHHHcCC--------ChHHHHHHHHHHHhCCCCCCChhcHH
Q 017234          113 CLIALSGKVQNVPFAMHVFTSMEAQGI-KPDSAVFNSLICACLCSG--------DVVTALSLFEIMVSSEEYKPNSKTYD  183 (375)
Q Consensus       113 ~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~~~~~~~~~~~~  183 (375)
                      .-|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-+.+.+|++|.. .+++|+..||+
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~-~~lKP~~etYn  108 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILS-NKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHH-hccCCcHHHHH
Confidence            445555555777777777777777777 677777777777665532        23345555666655 55666666666


Q ss_pred             HHHHHHH
Q 017234          184 AFISGFS  190 (375)
Q Consensus       184 ~ll~~~~  190 (375)
                      .++..+.
T Consensus       109 ivl~~Ll  115 (120)
T PF08579_consen  109 IVLGSLL  115 (120)
T ss_pred             HHHHHHH
Confidence            6555543

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 [, , ].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.04  E-value=0.01  Score=57.21  Aligned_cols=75  Identities=11%  Similarity=0.055  Sum_probs=40.5

Q ss_pred             hccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHH
Q 017234          119 GKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDA  197 (375)
Q Consensus       119 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~  197 (375)
                      .+.|+.++|..+++.....+.. |..|...+-.+|.+.|+.++|..+|++...   ..|+..-...+..+|.+.+.+.+
T Consensus        54 ~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~---~~P~eell~~lFmayvR~~~yk~  128 (932)
T KOG2053|consen   54 FRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQ---KYPSEELLYHLFMAYVREKSYKK  128 (932)
T ss_pred             HHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHh---hCCcHHHHHHHHHHHHHHHHHHH
Confidence            3555555666555555444333 555555555566666666666666665554   23444444555555555555543

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=98.00  E-value=0.0036  Score=54.86  Aligned_cols=110  Identities=11%  Similarity=0.177  Sum_probs=84.7

Q ss_pred             HhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 017234          215 QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCY  294 (375)
Q Consensus       215 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  294 (375)
                      .+.+..|.-+...|+...|.++-.+.+    .||..-|-..+.+++..++|++...+-..    .  -.+.-|..++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCChHHHHHHH
Confidence            345555777788899888888877775    68999999999999999999988876432    1  1346688899999


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHH
Q 017234          295 CELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGR  346 (375)
Q Consensus       295 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  346 (375)
                      .+.|+..+|...+.++      +      +..-+..|.+.|++.+|.+.-.+
T Consensus       248 ~~~~~~~eA~~yI~k~------~------~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKI------P------DEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHCCCHHHHHHHHHhC------C------hHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999998888762      2      34457778999999999776543

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

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.98  E-value=0.0018  Score=55.72  Aligned_cols=201  Identities=9%  Similarity=0.026  Sum_probs=131.7

Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCC-------ChHHHHHHHHHHHhCCCCCCChh-c
Q 017234          110 EYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSG-------DVVTALSLFEIMVSSEEYKPNSK-T  181 (375)
Q Consensus       110 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-------~~~~a~~~~~~m~~~~~~~~~~~-~  181 (375)
                      .--.++-.|.+.+++++|..+...+.    +.++.-|-.-.-.++..|       +..-|.+.|+-.-+ ++..-|+. -
T Consensus       287 ARlNL~iYyL~q~dVqeA~~L~Kdl~----PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~-Sa~ecDTIpG  361 (557)
T KOG3785|consen  287 ARLNLIIYYLNQNDVQEAISLCKDLD----PTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGE-SALECDTIPG  361 (557)
T ss_pred             hhhhheeeecccccHHHHHHHHhhcC----CCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcc-cccccccccc
Confidence            33456667888899999988877654    223333332222233333       24455555554444 44444433 2


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHH
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILE-KVLEGLC  260 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~-~li~~~~  260 (375)
                      -.++..++.-..++++++-.++..+.--..-|...+ .+..+++..|.+.+|+++|-.+....++ |..+|. .|..+|.
T Consensus       362 RQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi  439 (557)
T KOG3785|consen  362 RQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYI  439 (557)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHH
Confidence            346666777777889988888888776554445444 4688999999999999999877655544 445554 5557788


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCcCHHHH-HHHHHHHHHcCChHHHHHHHHHHHhCCCCCchH
Q 017234          261 ARRKLDRVKSFLKFLLGGGWKINENMA-QKLVKCYCELGRVDELEEQLETLTKCNQSPEVL  320 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  320 (375)
                      +.++.+.|+.++-.+..   +.+..+. ..+.+-|-+.+.+--|-+.|+.+...++.|..+
T Consensus       440 ~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~pEnW  497 (557)
T KOG3785|consen  440 RNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTPENW  497 (557)
T ss_pred             hcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCcccc
Confidence            99999998877654432   2233443 334467888999999999999999877777554

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

Probab=97.97  E-value=1.1e-05  Score=43.82  Aligned_cols=29  Identities=14%  Similarity=0.369  Sum_probs=22.9

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHhCCC
Q 017234          324 FSGIIRLYALSDRLDDVEYSVGRMGKQGL  352 (375)
Q Consensus       324 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~  352 (375)
                      |+.++++|++.|++++|.++|++|.+.|+
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            77888888888888888888888877764

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.

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

Probab=97.95  E-value=0.014  Score=53.05  Aligned_cols=125  Identities=9%  Similarity=0.103  Sum_probs=89.5

Q ss_pred             HHHccCChHHHHHHHHHHHHCCCCCCHHH-------------------------HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          223 GSLKARDFDSVDRFYEEMMSLGIIPSIPI-------------------------LEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       223 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-------------------------~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      +|.+.++++.+...|.+.......|+..+                         .-.-.+.+.+.|++..|...|.+++.
T Consensus       307 a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIk  386 (539)
T KOG0548|consen  307 AYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIK  386 (539)
T ss_pred             hhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHh
Confidence            55556778888888777655444443322                         11224566788999999999999988


Q ss_pred             CCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          278 GGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       278 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                      .. +-|...|..-.-+|.+.|.+..|.+=.+...+.  .|+.... |.-=..++....+|+.|.+.|.+..+..
T Consensus       387 r~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kg-y~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  387 RD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKA-YLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             cC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            76 667888999999999999999998887777774  4543332 5555555666678899999998887763

>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=97.90  E-value=0.00021  Score=57.40  Aligned_cols=116  Identities=13%  Similarity=0.110  Sum_probs=73.9

Q ss_pred             CCCHHHHHHHHHHHhcc-----CChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh
Q 017234          105 ESCLDEYACLIALSGKV-----QNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS  179 (375)
Q Consensus       105 ~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  179 (375)
                      ..+..+|..++..|.+.     |..+-....+..|.+.|+..|..+|+.|++.+=+ |.+- -..+|+.+-         
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F---------  112 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEF---------  112 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHh---------
Confidence            35777788888877644     6778888888999999999999999999988865 3321 111111111         


Q ss_pred             hcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCCh-HHHHHHHHHH
Q 017234          180 KTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDF-DSVDRFYEEM  240 (375)
Q Consensus       180 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~-~~a~~~~~~m  240 (375)
                             .-  --.+-+-|++++++|...|+-||..++..+++.+.+.+.. .+..++.-.|
T Consensus       113 -------~h--yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWm  165 (228)
T PF06239_consen  113 -------MH--YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWM  165 (228)
T ss_pred             -------cc--CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence                   10  1123345667777777777777777777777777666553 3344444444

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

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.90  E-value=0.00035  Score=48.75  Aligned_cols=23  Identities=4%  Similarity=-0.015  Sum_probs=9.5

Q ss_pred             HHHHHHHHhhCCHHHHHHHHHHH
Q 017234          325 SGIIRLYALSDRLDDVEYSVGRM  347 (375)
Q Consensus       325 ~~li~~~~~~g~~~~A~~~~~~m  347 (375)
                      ..+...+...|++++|...+.+.
T Consensus        72 ~~~~~~~~~~~~~~~a~~~~~~~   94 (100)
T cd00189          72 YNLGLAYYKLGKYEEALEAYEKA   94 (100)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHH
Confidence            33334444444444444444433

>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=97.89  E-value=0.00047  Score=55.39  Aligned_cols=105  Identities=15%  Similarity=0.180  Sum_probs=71.2

Q ss_pred             CcCHhHHHHHHHHHHcC-----CChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCH
Q 017234          140 KPDSAVFNSLICACLCS-----GDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNV  214 (375)
Q Consensus       140 ~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~  214 (375)
                      ..+..+|..+++.|.+.     |..+-....++.|.+ .|+.-|..+|+.||+.+=+ |.+-               |..
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~e-fgv~kDL~~Y~~LLDvFPK-g~fv---------------p~n  106 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDE-FGVEKDLEVYKALLDVFPK-GKFV---------------PRN  106 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHH-cCCcccHHHHHHHHHhCCC-CCcc---------------ccc
Confidence            34667777777776643     566666777777777 7777777777777776554 2221               111


Q ss_pred             HhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 017234          215 QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRK  264 (375)
Q Consensus       215 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  264 (375)
                       .+.++..-  .-.+-+-|++++++|...|+.||..|+..+++.+++.+.
T Consensus       107 -~fQ~~F~h--yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  107 -FFQAEFMH--YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             -HHHHHhcc--CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence             11111111  223567799999999999999999999999999987764

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

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

Probab=97.88  E-value=0.00039  Score=60.10  Aligned_cols=129  Identities=7%  Similarity=0.118  Sum_probs=62.6

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHH-HHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHG-SLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGL  259 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  259 (375)
                      +|..+++..-+.+..+.|..+|.+..+.+. .+...|-..... +...++.+.|.++|+...+. ...+...|...+..+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~-~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            455555555555556666666666554321 122222222222 22234444566666665544 133444555555555


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCcC---HHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          260 CARRKLDRVKSFLKFLLGGGWKIN---ENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       260 ~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      .+.++.+.|..+|++.... +.++   ...|...++.=.+.|+++.+.++.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5666666666666665543 2211   13555555555556666666666555555

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.88  E-value=0.0018  Score=62.81  Aligned_cols=220  Identities=10%  Similarity=0.002  Sum_probs=151.1

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVV  160 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  160 (375)
                      +...+...++..|    -+-.+..+.=...|..+...|+...+...|.+.|+...+.+ ..+...+....+.|++..+++
T Consensus       469 ~~rK~~~~al~al----i~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we  543 (1238)
T KOG1127|consen  469 CMRKNSALALHAL----IRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWE  543 (1238)
T ss_pred             HhhhhHHHHHHHH----HHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHH
Confidence            4555566777764    23333344446789999999999889999999999998775 347778899999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 017234          161 TALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       161 ~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      .|..+.-..-+......-...|....-.|.+.++..+|..-|+......+. |...|..+..+|...|++..|.++|.+.
T Consensus       544 ~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kA  622 (1238)
T KOG1127|consen  544 EAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKA  622 (1238)
T ss_pred             HHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhh
Confidence            999984433331111112223444555678888999999999998887765 8999999999999999999999999888


Q ss_pred             HHCCCCCCHHHHHHHH--HHHHhcCCHHHHHHHHHHHHhC------CCCcCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 017234          241 MSLGIIPSIPILEKVL--EGLCARRKLDRVKSFLKFLLGG------GWKINENMAQKLVKCYCELGRVDELEEQLET  309 (375)
Q Consensus       241 ~~~~~~p~~~~~~~li--~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  309 (375)
                      ...  .|+ .+|...-  -.-+..|++.++...+......      +..--..++-.+...+...|-..+|...++.
T Consensus       623 s~L--rP~-s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~ek  696 (1238)
T KOG1127|consen  623 SLL--RPL-SKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEK  696 (1238)
T ss_pred             Hhc--CcH-hHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence            765  444 2333332  2346789999999988877542      1111223333333444444444445444444

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.85  E-value=0.00063  Score=64.56  Aligned_cols=213  Identities=11%  Similarity=0.087  Sum_probs=154.1

Q ss_pred             CCHHHHHHHHH--HHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCC--------
Q 017234          106 SCLDEYACLIA--LSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEY--------  175 (375)
Q Consensus       106 ~~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--------  175 (375)
                      -|..|-..+++  .|..-|+.+.|.+-.+.++      +..+|..|.+.|.+..++|-|.--+..|....|.        
T Consensus       724 Cd~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q  797 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQ  797 (1416)
T ss_pred             cCHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHh
Confidence            46777777765  4678899999998887765      6778999999999999988888777777653221        


Q ss_pred             CCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 017234          176 KPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKV  255 (375)
Q Consensus       176 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  255 (375)
                      .|+ .+-.-..-.....|.+++|..+|.+.+.         |..|=..|...|.|++|.++-+.=-+-.   -..||...
T Consensus       798 ~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~y  864 (1416)
T KOG3617|consen  798 NGE-EDEAKVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNY  864 (1416)
T ss_pred             CCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHH
Confidence            232 2222222334678999999999998876         4556677888999999998875433222   23577777


Q ss_pred             HHHHHhcCCHHHHHHHHHHH----------HhCC---------CCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC
Q 017234          256 LEGLCARRKLDRVKSFLKFL----------LGGG---------WKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQS  316 (375)
Q Consensus       256 i~~~~~~g~~~~a~~~~~~~----------~~~~---------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  316 (375)
                      ...+-..++.+.|++.|+..          +...         -.-|...|..-...+-..|+++.|..++...++    
T Consensus       865 A~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D----  940 (1416)
T KOG3617|consen  865 AKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD----  940 (1416)
T ss_pred             HHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh----
Confidence            77777888999998888753          2111         123556666666777788999999999987765    


Q ss_pred             CchHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          317 PEVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       317 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                             |-++++..|-.|+.++|-++-++-.
T Consensus       941 -------~fs~VrI~C~qGk~~kAa~iA~esg  965 (1416)
T KOG3617|consen  941 -------YFSMVRIKCIQGKTDKAARIAEESG  965 (1416)
T ss_pred             -------hhhheeeEeeccCchHHHHHHHhcc
Confidence                   6778888888899999888776543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.84  E-value=0.0008  Score=49.74  Aligned_cols=99  Identities=7%  Similarity=-0.062  Sum_probs=50.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 017234          252 LEKVLEGLCARRKLDRVKSFLKFLLGGGW--KINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIR  329 (375)
Q Consensus       252 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~  329 (375)
                      +..+...+.+.|++++|...+..+.+..-  ......+..+..++.+.|+++.|...++.+.............+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            34445555556666666666666554320  0112344445556666666666666666655433221111111444555


Q ss_pred             HHHhhCCHHHHHHHHHHHHhC
Q 017234          330 LYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       330 ~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ++.+.|++++|...++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            566666666666666666554

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=97.83  E-value=0.00088  Score=49.52  Aligned_cols=98  Identities=14%  Similarity=0.036  Sum_probs=40.5

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHCCC--CcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCC-CCChhcHHHHHH
Q 017234          111 YACLIALSGKVQNVPFAMHVFTSMEAQGI--KPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEY-KPNSKTYDAFIS  187 (375)
Q Consensus       111 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~~ll~  187 (375)
                      +..+...+.+.|++++|.+.|+.+.+...  +.....+..+..++.+.|++++|...|+.+.....- +.....+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            33444444444555555555544443210  001223334444444555555555555544431100 001223334444


Q ss_pred             HHHcCCCHHHHHHHHHHHHHC
Q 017234          188 GFSSLGNVDAMNKWYAANIAA  208 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~  208 (375)
                      ++.+.|+.++|...++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            444444555555555444444

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=97.80  E-value=0.0005  Score=47.96  Aligned_cols=15  Identities=33%  Similarity=0.598  Sum_probs=5.4

Q ss_pred             HHHHcCChHHHHHHH
Q 017234          293 CYCELGRVDELEEQL  307 (375)
Q Consensus       293 ~~~~~g~~~~a~~~~  307 (375)
                      .+...|++++|...+
T Consensus        77 ~~~~~~~~~~a~~~~   91 (100)
T cd00189          77 AYYKLGKYEEALEAY   91 (100)
T ss_pred             HHHHHHhHHHHHHHH
Confidence            333333333333333

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.79  E-value=0.0028  Score=59.68  Aligned_cols=109  Identities=7%  Similarity=0.172  Sum_probs=62.6

Q ss_pred             HHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCh
Q 017234          221 IHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRV  300 (375)
Q Consensus       221 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  300 (375)
                      +.+....++|.+|+.+++.++.....  .--|..+.+.|+..|+++.|.++|.+.         ..++--|.+|.+.|+|
T Consensus       739 ieaai~akew~kai~ildniqdqk~~--s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKTA--SGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhccc--cccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccH
Confidence            34445566777777777777765432  234666667777777777777777542         1244456777777777


Q ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHH
Q 017234          301 DELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSV  344 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  344 (375)
                      ++|.++-.+...    |......|-+-..-+-++|++.+|.++|
T Consensus       808 ~da~kla~e~~~----~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  808 EDAFKLAEECHG----PEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHHHHHhcC----chhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            777776655421    2222222444444445555555554444

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

Probab=97.70  E-value=0.035  Score=50.58  Aligned_cols=222  Identities=10%  Similarity=-0.012  Sum_probs=140.6

Q ss_pred             HHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHH-
Q 017234           74 WDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLIC-  151 (375)
Q Consensus        74 ~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~-  151 (375)
                      ...+.++ ++..+++.+++-+    +...... .+..-++....+|...|.+..+...-+...+.|-. ...-|+.+-. 
T Consensus       227 ek~lgnaaykkk~f~~a~q~y----~~a~el~-~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~  300 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHY----AKALELA-TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKA  300 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHH----HHHHhHh-hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHH
Confidence            4456666 6777888888884    4433333 45666777777888888887777777666655522 3333443333 


Q ss_pred             ------HHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHH
Q 017234          152 ------ACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSL  225 (375)
Q Consensus       152 ------~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  225 (375)
                            +|.+.++++.++..|.+... ....|+.         ..+....+++....+...-.++..-.. ...-...+.
T Consensus       301 ~~r~g~a~~k~~~~~~ai~~~~kaLt-e~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~pe~A~e-~r~kGne~F  369 (539)
T KOG0548|consen  301 LARLGNAYTKREDYEGAIKYYQKALT-EHRTPDL---------LSKLKEAEKALKEAERKAYINPEKAEE-EREKGNEAF  369 (539)
T ss_pred             HHHhhhhhhhHHhHHHHHHHHHHHhh-hhcCHHH---------HHHHHHHHHHHHHHHHHHhhChhHHHH-HHHHHHHHH
Confidence                  44455677888888887665 2222221         122333445555444444433332111 222256677


Q ss_pred             ccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHH
Q 017234          226 KARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEE  305 (375)
Q Consensus       226 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  305 (375)
                      +.|++..|...|.++.... +-|...|+.-.-+|.+.|.+..|..=-+...+.. ++....|..=..++....++++|.+
T Consensus       370 k~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAle  447 (539)
T KOG0548|consen  370 KKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALE  447 (539)
T ss_pred             hccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8889999999999988876 5567888888888889999888888777766653 3334445555556666778888888


Q ss_pred             HHHHHHhCC
Q 017234          306 QLETLTKCN  314 (375)
Q Consensus       306 ~~~~~~~~~  314 (375)
                      .|++..+.+
T Consensus       448 ay~eale~d  456 (539)
T KOG0548|consen  448 AYQEALELD  456 (539)
T ss_pred             HHHHHHhcC
Confidence            888887754

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

Probab=97.70  E-value=0.027  Score=48.54  Aligned_cols=85  Identities=12%  Similarity=0.077  Sum_probs=37.0

Q ss_pred             HcCCChHHHHHHHHHHHhCCCCCC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHH
Q 017234          154 LCSGDVVTALSLFEIMVSSEEYKP-NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDS  232 (375)
Q Consensus       154 ~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~  232 (375)
                      .-+|+...|+.....+.+   +.| |...+..-..+|...|++..|..=++...+..-. ++.++--+-..+-..|+.+.
T Consensus       166 ~~~GD~~~ai~~i~~llE---i~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~  241 (504)
T KOG0624|consen  166 SGSGDCQNAIEMITHLLE---IQPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAEN  241 (504)
T ss_pred             hcCCchhhHHHHHHHHHh---cCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHH
Confidence            344455555555555544   122 3333334444455555555544444443333222 33333333444444455555


Q ss_pred             HHHHHHHHHH
Q 017234          233 VDRFYEEMMS  242 (375)
Q Consensus       233 a~~~~~~m~~  242 (375)
                      ++...++-.+
T Consensus       242 sL~~iRECLK  251 (504)
T KOG0624|consen  242 SLKEIRECLK  251 (504)
T ss_pred             HHHHHHHHHc
Confidence            5544444443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.68  E-value=0.0044  Score=47.58  Aligned_cols=85  Identities=11%  Similarity=0.048  Sum_probs=34.2

Q ss_pred             HHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHH
Q 017234          224 SLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDEL  303 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  303 (375)
                      +...|++++|.++|+.+...+ +-+..-|-.|.-+|...|++++|...|....... +-|+..+-.+..++...|+.+.|
T Consensus        45 ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~~~~A  122 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDNVCYA  122 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCCHHHH
Confidence            334444444444444443332 1122333333333344444444444444443333 22333344444444444444444


Q ss_pred             HHHHHHH
Q 017234          304 EEQLETL  310 (375)
Q Consensus       304 ~~~~~~~  310 (375)
                      ++.|+..
T Consensus       123 ~~aF~~A  129 (157)
T PRK15363        123 IKALKAV  129 (157)
T ss_pred             HHHHHHH
Confidence            4444443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.66  E-value=0.0015  Score=51.87  Aligned_cols=61  Identities=8%  Similarity=-0.033  Sum_probs=25.9

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCCc--CHHhHHHHHHHHHccCChHHHHHHHHHHHH
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAGFSV--NVQTYESLIHGSLKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  242 (375)
                      |..+...+...|++++|...|++.......+  ...++..+...+...|++++|...++....
T Consensus        38 ~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         38 YYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3333444444444444444444443332111  112344444444444555555444444443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.64  E-value=0.019  Score=49.85  Aligned_cols=126  Identities=10%  Similarity=0.154  Sum_probs=55.7

Q ss_pred             HHHHHcc-CChHHHHHHHHHHHH----CCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----cCHH-HH
Q 017234          221 IHGSLKA-RDFDSVDRFYEEMMS----LGIIPS--IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWK-----INEN-MA  287 (375)
Q Consensus       221 l~~~~~~-g~~~~a~~~~~~m~~----~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~-~~  287 (375)
                      ...|-.. |++++|.+.|++..+    .| .+.  ..++..+...+.+.|++++|.++|++.......     .+.. .+
T Consensus       121 A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~  199 (282)
T PF14938_consen  121 AEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYF  199 (282)
T ss_dssp             HHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHH
Confidence            3344444 556666655555433    12 111  133445555566666666666666666543211     1111 12


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhCC--CCCchHHHHHHHHHHHHHhh--CCHHHHHHHHHHH
Q 017234          288 QKLVKCYCELGRVDELEEQLETLTKCN--QSPEVLLHFFSGIIRLYALS--DRLDDVEYSVGRM  347 (375)
Q Consensus       288 ~~li~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~~~li~~~~~~--g~~~~A~~~~~~m  347 (375)
                      -..+-++...||...|.+.+++.....  +..+....+...|+.+|-..  ..+++|+.-|+.+
T Consensus       200 l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  200 LKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHccc
Confidence            223334555666666666666665432  22222222244555554332  2244444444433

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

Probab=97.63  E-value=0.0016  Score=56.41  Aligned_cols=145  Identities=13%  Similarity=0.131  Sum_probs=102.6

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHH
Q 017234          144 AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHG  223 (375)
Q Consensus       144 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~  223 (375)
                      .+|..++...-+.+..+.|.++|.+..+...+..+.....+++. |...++.+.|.++|+...+. +..+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E-~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            47888888888888899999999999863223333333334443 33356777799999998876 34477888888999


Q ss_pred             HHccCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 017234          224 SLKARDFDSVDRFYEEMMSLGIIPSI----PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCY  294 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  294 (375)
                      +...|+.+.|..+|++....  .|..    ..|...+..-.+.|+++.+..+.+++.+.  -|+......+++-|
T Consensus        80 l~~~~d~~~aR~lfer~i~~--l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS--LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT--SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHhCcHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            99999999999999998866  3333    48888888888999999999999988874  34544444444433

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=97.63  E-value=0.0023  Score=57.42  Aligned_cols=87  Identities=10%  Similarity=0.012  Sum_probs=40.9

Q ss_pred             HHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 017234          189 FSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRV  268 (375)
Q Consensus       189 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  268 (375)
                      +...|++++|.+.|.+..+.... +...|..+..+|...|++++|+..+++..... +.+...|..+..+|...|++++|
T Consensus        12 a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~eA   89 (356)
T PLN03088         12 AFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQTA   89 (356)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHHH
Confidence            34445555555555555444332 34444444445555555555555555544432 12334444444444455555555


Q ss_pred             HHHHHHHHh
Q 017234          269 KSFLKFLLG  277 (375)
Q Consensus       269 ~~~~~~~~~  277 (375)
                      ...+++.++
T Consensus        90 ~~~~~~al~   98 (356)
T PLN03088         90 KAALEKGAS   98 (356)
T ss_pred             HHHHHHHHH
Confidence            555554444

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.63  E-value=0.031  Score=47.24  Aligned_cols=186  Identities=10%  Similarity=0.069  Sum_probs=114.2

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChh-cH---HHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhH
Q 017234          142 DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSK-TY---DAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTY  217 (375)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~-~~---~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  217 (375)
                      +...+-.....+.+.|++++|.+.|+++...   -|+.. .-   -.+..++.+.+++++|...+++..+..+.-...-|
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~---yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~  107 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNR---YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDY  107 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHH
Confidence            3333434455556789999999999999873   34332 22   34567788999999999999998887554333444


Q ss_pred             HHHHHHHHc--cC---------------Ch---HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          218 ESLIHGSLK--AR---------------DF---DSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       218 ~~ll~~~~~--~g---------------~~---~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      -..+.+.+.  .+               |.   .+|...|+++               +.-|-.+.-..+|...+..+..
T Consensus       108 a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~l---------------i~~yP~S~ya~~A~~rl~~l~~  172 (243)
T PRK10866        108 VLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKL---------------VRGYPNSQYTTDATKRLVFLKD  172 (243)
T ss_pred             HHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHH---------------HHHCcCChhHHHHHHHHHHHHH
Confidence            444444432  11               11   2233334443               3333344445555555544432


Q ss_pred             CCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          278 GGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       278 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      .   .-.. --.+.+.|.+.|.+..|..-++.+.+.-............++.+|.+.|..++|..+...+..
T Consensus       173 ~---la~~-e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        173 R---LAKY-ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             H---HHHH-HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence            1   0111 114667788999999999999998876443333333366788999999999999888776643

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.62  E-value=0.0084  Score=47.80  Aligned_cols=91  Identities=9%  Similarity=0.000  Sum_probs=64.6

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcC--HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPD--SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDA  184 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~  184 (375)
                      ....+..+...+...|++++|...|++..+.+..+.  ...+..+..++.+.|++++|...+++..+.  .+-+...+..
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~  111 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNN  111 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHH
Confidence            456677888888888999999988888876543222  357788888888888888888888888762  1234455666


Q ss_pred             HHHHHHcCCCHHHHH
Q 017234          185 FISGFSSLGNVDAMN  199 (375)
Q Consensus       185 ll~~~~~~~~~~~a~  199 (375)
                      +...+...|+...+.
T Consensus       112 lg~~~~~~g~~~~a~  126 (172)
T PRK02603        112 IAVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHHcCChHhHh
Confidence            666777766654433

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

Probab=97.61  E-value=9e-05  Score=51.25  Aligned_cols=17  Identities=6%  Similarity=0.087  Sum_probs=6.4

Q ss_pred             HHHHHcCCCHHHHHHHH
Q 017234          186 ISGFSSLGNVDAMNKWY  202 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~  202 (375)
                      ..+|.+.|++++|..++
T Consensus        32 a~~~~~~~~y~~A~~~~   48 (84)
T PF12895_consen   32 AQCYFQQGKYEEAIELL   48 (84)
T ss_dssp             HHHHHHTTHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHH
Confidence            33333333333333333

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.59  E-value=0.0061  Score=48.57  Aligned_cols=61  Identities=10%  Similarity=-0.001  Sum_probs=26.6

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcC--HHhHHHHHHHHHccCChHHHHHHHHHHHH
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAGFSVN--VQTYESLIHGSLKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  242 (375)
                      +..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++...
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  100 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE  100 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33444444444555555555554443322211  23344444444444444444444444443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.59  E-value=0.0046  Score=47.46  Aligned_cols=94  Identities=7%  Similarity=-0.047  Sum_probs=52.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHH
Q 017234          253 EKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYA  332 (375)
Q Consensus       253 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~  332 (375)
                      -.+..-+...|++++|..+|+.+..-. +-+..-|-.|.-++-..|++++|...+......++  +.... +-.+..++.
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~--ddp~~-~~~ag~c~L  114 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI--DAPQA-PWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC--CCchH-HHHHHHHHH
Confidence            334444556666666666666665543 22344455555666666666666666666655442  22111 444556666


Q ss_pred             hhCCHHHHHHHHHHHHhC
Q 017234          333 LSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       333 ~~g~~~~A~~~~~~m~~~  350 (375)
                      ..|+.+.|.+.|+..+..
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            666666666666655553

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

Probab=97.59  E-value=0.00016  Score=50.02  Aligned_cols=47  Identities=21%  Similarity=0.314  Sum_probs=19.7

Q ss_pred             CCHHHHHHHHHHHHhCCC-CcCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 017234          263 RKLDRVKSFLKFLLGGGW-KINENMAQKLVKCYCELGRVDELEEQLET  309 (375)
Q Consensus       263 g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~  309 (375)
                      |+++.|..+++++.+..- .++...+..+..+|.+.|++++|..+++.
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            444445555544444321 01222333344445555555555555544

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.58  E-value=0.028  Score=53.26  Aligned_cols=269  Identities=11%  Similarity=0.104  Sum_probs=156.6

Q ss_pred             hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCC---CHHHHHHHHHHHhccCChhHHHH
Q 017234           54 QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNES---CLDEYACLIALSGKVQNVPFAMH  129 (375)
Q Consensus        54 ~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~---~~~~~~~li~~~~~~~~~~~a~~  129 (375)
                      ++.+.+++-.+....| ..+|..+... +..|+++-|..+++  ++.-....+|   +..-+...+.-+.+.|+.+....
T Consensus       491 ~vld~I~~kls~~~~~-~iSy~~iA~~Ay~~GR~~LA~kLle--~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~  567 (829)
T KOG2280|consen  491 EVLDKIDEKLSAKLTP-GISYAAIARRAYQEGRFELARKLLE--LEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQ  567 (829)
T ss_pred             HHHHHHHHHhcccCCC-ceeHHHHHHHHHhcCcHHHHHHHHh--cCCCccchhHHHhccchHHHHHHHHHhcCCchhHHH
Confidence            3444444443333344 4456666666 89999999999964  3322222222   56667888899999999999988


Q ss_pred             HHHHHHHCC-----------CCcCHhHHHHHHHH--------HHcCCChHHHHHHH--HHHHhCCCCCCChhcHHHHHHH
Q 017234          130 VFTSMEAQG-----------IKPDSAVFNSLICA--------CLCSGDVVTALSLF--EIMVSSEEYKPNSKTYDAFISG  188 (375)
Q Consensus       130 ~~~~m~~~g-----------~~p~~~~~~~li~~--------~~~~g~~~~a~~~~--~~m~~~~~~~~~~~~~~~ll~~  188 (375)
                      ++-++...-           .+.....|.-+++-        +...++-.++..-|  +.......+.+-........++
T Consensus       568 Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~  647 (829)
T KOG2280|consen  568 VLLHLKNKLNRSSLFMTLRNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANA  647 (829)
T ss_pred             HHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHH
Confidence            888776531           11111222222220        01111111111111  1100000011111222334444


Q ss_pred             HHcCCCHH----------HHHHHHHHHHH-CCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 017234          189 FSSLGNVD----------AMNKWYAANIA-AGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLE  257 (375)
Q Consensus       189 ~~~~~~~~----------~a~~~~~~m~~-~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  257 (375)
                      +.+.....          +-+.+.+.+.. .|..-...+.+--+.-+...|+-.+|.++-.+.+    -||...|-.=+.
T Consensus       648 ~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~  723 (829)
T KOG2280|consen  648 FAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLT  723 (829)
T ss_pred             HhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHH
Confidence            44443311          11222233322 2323334445555667788899999998888777    789888888899


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCH
Q 017234          258 GLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRL  337 (375)
Q Consensus       258 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  337 (375)
                      +++..++|++.+++-+....      +.-|.-++.+|.+.|+.++|.+.+.+...           +.-.+.+|.+.|++
T Consensus       724 aLa~~~kweeLekfAkskks------PIGy~PFVe~c~~~~n~~EA~KYiprv~~-----------l~ekv~ay~~~~~~  786 (829)
T KOG2280|consen  724 ALADIKKWEELEKFAKSKKS------PIGYLPFVEACLKQGNKDEAKKYIPRVGG-----------LQEKVKAYLRVGDV  786 (829)
T ss_pred             HHHhhhhHHHHHHHHhccCC------CCCchhHHHHHHhcccHHHHhhhhhccCC-----------hHHHHHHHHHhccH
Confidence            99999999998777655432      34466688999999999999998865422           23457788999999


Q ss_pred             HHHHHHHHH
Q 017234          338 DDVEYSVGR  346 (375)
Q Consensus       338 ~~A~~~~~~  346 (375)
                      .+|.++--+
T Consensus       787 ~eAad~A~~  795 (829)
T KOG2280|consen  787 KEAADLAAE  795 (829)
T ss_pred             HHHHHHHHH
Confidence            888876543

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

Probab=97.56  E-value=0.0037  Score=56.16  Aligned_cols=92  Identities=16%  Similarity=0.138  Sum_probs=68.0

Q ss_pred             HHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCC
Q 017234          150 ICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARD  229 (375)
Q Consensus       150 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~  229 (375)
                      ...+...|++++|++.|++..+.  -+-+...|..+..+|...|++++|...+++..+.... +...|..+..+|...|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCC
Confidence            44556778888888888888762  1334566777777788888888888888888776543 66777777888888888


Q ss_pred             hHHHHHHHHHHHHCC
Q 017234          230 FDSVDRFYEEMMSLG  244 (375)
Q Consensus       230 ~~~a~~~~~~m~~~~  244 (375)
                      +++|...|++..+.+
T Consensus        86 ~~eA~~~~~~al~l~  100 (356)
T PLN03088         86 YQTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            888888888877653

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.50  E-value=0.013  Score=55.14  Aligned_cols=142  Identities=11%  Similarity=0.060  Sum_probs=97.9

Q ss_pred             CCCcCHHhHHHHHHHHHccC-----ChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhc--------CCHHHHHHHHHH
Q 017234          209 GFSVNVQTYESLIHGSLKAR-----DFDSVDRFYEEMMSLGIIPS-IPILEKVLEGLCAR--------RKLDRVKSFLKF  274 (375)
Q Consensus       209 ~~~~~~~~~~~ll~~~~~~g-----~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~--------g~~~~a~~~~~~  274 (375)
                      +.+.|...|...+.+.....     +.+.|.++|++..+.  .|+ ...|..+..++...        .++..+.+....
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            44568889999988865432     366899999999887  455 44555544444322        122334444444


Q ss_pred             HHhC-CCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCC
Q 017234          275 LLGG-GWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLS  353 (375)
Q Consensus       275 ~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  353 (375)
                      .... ....+...|..+.-.....|++++|...+++..+.+  |+...  |..+...+...|+.++|.+.+++...  +.
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a--~~~lG~~~~~~G~~~eA~~~~~~A~~--L~  483 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLN--YVLLGKVYELKGDNRLAADAYSTAFN--LR  483 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHh--cC
Confidence            3332 234456778887777777899999999999999865  55544  89999999999999999999999875  45


Q ss_pred             ccCch
Q 017234          354 FKSAE  358 (375)
Q Consensus       354 ~~~~~  358 (375)
                      |..|+
T Consensus       484 P~~pt  488 (517)
T PRK10153        484 PGENT  488 (517)
T ss_pred             CCCch
Confidence            55554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.50  E-value=0.005  Score=48.86  Aligned_cols=95  Identities=5%  Similarity=-0.156  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKI--NENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGI  327 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  327 (375)
                      ..+..+...+...|++++|...+++.....-.+  ...++..+...+...|++++|...++......  |..... +..+
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~--~~~~~~-~~~l  112 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN--PFLPQA-LNNM  112 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHH-HHHH
Confidence            344555555556666666666666665432111  12356666666666777777777766665532  222211 4444


Q ss_pred             HHHHH-------hhCCHHHHHHHHHHH
Q 017234          328 IRLYA-------LSDRLDDVEYSVGRM  347 (375)
Q Consensus       328 i~~~~-------~~g~~~~A~~~~~~m  347 (375)
                      ...+.       ..|++++|...+++.
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            44444       667766555555443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.45  E-value=0.13  Score=50.04  Aligned_cols=215  Identities=9%  Similarity=0.011  Sum_probs=144.3

Q ss_pred             hHHHHHHHhhhccCCCCcccHHHHHHH---HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHH
Q 017234           54 QIKTTLDSVDIFAFNSSQFSWDALITS---LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHV  130 (375)
Q Consensus        54 ~~~~~~~~m~~~~~~p~~~~~~~li~~---~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  130 (375)
                      +|........+  -.|+. .|..++.+   .+.|+.++|..+    ++.....+..|..|...+-..|.+.++.++|..+
T Consensus        27 kal~~~~kllk--k~Pn~-~~a~vLkaLsl~r~gk~~ea~~~----Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~   99 (932)
T KOG2053|consen   27 KALAKLGKLLK--KHPNA-LYAKVLKALSLFRLGKGDEALKL----LEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHL   99 (932)
T ss_pred             HHHHHHHHHHH--HCCCc-HHHHHHHHHHHHHhcCchhHHHH----HhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHH
Confidence            44444444422  23443 34555555   499999999988    6666666667999999999999999999999999


Q ss_pred             HHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCC----------HHHHHH
Q 017234          131 FTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGN----------VDAMNK  200 (375)
Q Consensus       131 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~  200 (375)
                      +++....  -|+..-...+..+|.+.+.+.+-.+.--++-+  .++.+...|-++++.....-.          ..-|.+
T Consensus       100 Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK--~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~  175 (932)
T KOG2053|consen  100 YERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK--NFPKRAYYFWSVISLILQSIFSENELLDPILLALAEK  175 (932)
T ss_pred             HHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCcccchHHHHHHHHHHhccCCcccccchhHHHHHH
Confidence            9999876  57788888888899998887654444333333  234455566666655543221          234666


Q ss_pred             HHHHHHHCC-CCcCHHhHHHHHHHHHccCChHHHHHHHHH-HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 017234          201 WYAANIAAG-FSVNVQTYESLIHGSLKARDFDSVDRFYEE-MMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG  278 (375)
Q Consensus       201 ~~~~m~~~~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~-m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  278 (375)
                      .++.+.+.+ .--+..-...-...+-..|++++|++++.. .-+.-...+...-+.-+..+...+++.+..++-.++...
T Consensus       176 m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k  255 (932)
T KOG2053|consen  176 MVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEK  255 (932)
T ss_pred             HHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHh
Confidence            777766654 222232233334445577889999999943 333333344455556677788899999999999999888


Q ss_pred             C
Q 017234          279 G  279 (375)
Q Consensus       279 ~  279 (375)
                      |
T Consensus       256 ~  256 (932)
T KOG2053|consen  256 G  256 (932)
T ss_pred             C
Confidence            7

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.44  E-value=0.019  Score=49.88  Aligned_cols=131  Identities=18%  Similarity=0.120  Sum_probs=79.5

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhC----CCC-cCHHHHHHHH
Q 017234          218 ESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCAR-RKLDRVKSFLKFLLGG----GWK-INENMAQKLV  291 (375)
Q Consensus       218 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~----~~~-~~~~~~~~li  291 (375)
                      ...+..|...|++..|-++               +..+...|... |+++.|.+.|++..+.    |-. .-..++..+.
T Consensus        98 ~~A~~~y~~~G~~~~aA~~---------------~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A  162 (282)
T PF14938_consen   98 EKAIEIYREAGRFSQAAKC---------------LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAA  162 (282)
T ss_dssp             HHHHHHHHHCT-HHHHHHH---------------HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcHHHHHHH---------------HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHH
Confidence            3334445555555555444               44445566666 8999999999887542    311 1134567788


Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCC-----chHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHHHH
Q 017234          292 KCYCELGRVDELEEQLETLTKCNQSP-----EVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMES  364 (375)
Q Consensus       292 ~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~  364 (375)
                      ..+.+.|++++|.++|+++.......     +.... |-..+-++...|+.-.|...+++...............++.
T Consensus       163 ~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~-~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~  239 (282)
T PF14938_consen  163 DLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEY-FLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLE  239 (282)
T ss_dssp             HHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHH-HHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHH-HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHH
Confidence            89999999999999999987653321     22222 33344466778999999999999987644433444444443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.38  E-value=0.053  Score=45.83  Aligned_cols=52  Identities=12%  Similarity=-0.027  Sum_probs=22.1

Q ss_pred             HHHHccCChHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 017234          222 HGSLKARDFDSVDRFYEEMMSL--GIIPSIPILEKVLEGLCARRKLDRVKSFLK  273 (375)
Q Consensus       222 ~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  273 (375)
                      .-|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|..+..
T Consensus       183 ~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~  236 (243)
T PRK10866        183 EYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAK  236 (243)
T ss_pred             HHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            3344444444444444444443  111222333344444444444444444443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.34  E-value=0.0043  Score=52.32  Aligned_cols=95  Identities=14%  Similarity=0.101  Sum_probs=65.3

Q ss_pred             HHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHH
Q 017234          223 GSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDE  302 (375)
Q Consensus       223 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  302 (375)
                      -+.+.+++++|+..|.+.++.. +-|.+-|..=..+|++.|.++.|.+--+..+.-+ +--..+|..|-.+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHH
Confidence            3566777888888887777764 3455666777777888888777777666665532 1224567777778888888888


Q ss_pred             HHHHHHHHHhCCCCCchHH
Q 017234          303 LEEQLETLTKCNQSPEVLL  321 (375)
Q Consensus       303 a~~~~~~~~~~~~~~~~~~  321 (375)
                      |.+.|++..+  +.|+..+
T Consensus       168 A~~aykKaLe--ldP~Ne~  184 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNES  184 (304)
T ss_pred             HHHHHHhhhc--cCCCcHH
Confidence            8877777766  5566554

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.30  E-value=0.013  Score=43.24  Aligned_cols=56  Identities=13%  Similarity=0.098  Sum_probs=26.3

Q ss_pred             HHHHccCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          222 HGSLKARDFDSVDRFYEEMMSLGIIPS--IPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       222 ~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      .++-..|+.++|..+|++....|....  ...+-.+...+...|++++|..++++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334444555555555555555443322  12333344444455555555555555443

>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=97.26  E-value=0.0011  Score=43.51  Aligned_cols=48  Identities=17%  Similarity=0.263  Sum_probs=18.2

Q ss_pred             CCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 017234          193 GNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMM  241 (375)
Q Consensus       193 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  241 (375)
                      |++++|.++|+++.+..+. +...+..+..+|.+.|++++|.++++.+.
T Consensus         5 ~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    5 GDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             THHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             cCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3344444444443333222 33333334444444444444444444333

...

>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=97.26  E-value=0.0044  Score=46.17  Aligned_cols=97  Identities=14%  Similarity=0.109  Sum_probs=50.1

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      |..++.++|.++++.|+++....+++..-.  +.++...         ..+.          ........|+..+..+++
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~Wg--I~~~~~~---------~~~~----------~~~~spl~Pt~~lL~AIv   59 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWG--IDVNGKK---------KEGD----------YPPSSPLYPTSRLLIAIV   59 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcC--CCCCCcc---------ccCc----------cCCCCCCCCCHHHHHHHH
Confidence            456778888888888888888887765432  2211100         0000          111133445555555555


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHC-CCCcCHHhHHHHHHHH
Q 017234          187 SGFSSLGNVDAMNKWYAANIAA-GFSVNVQTYESLIHGS  224 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~  224 (375)
                      .+|+..+++..|+++.+...+. +++.+..+|..|++-.
T Consensus        60 ~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   60 HSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             HHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            5555555555555555544332 4444455555555543

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

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.23  E-value=0.04  Score=51.97  Aligned_cols=136  Identities=11%  Similarity=0.040  Sum_probs=76.5

Q ss_pred             CCCCHHHHHHHHHHHhcc-----CChhHHHHHHHHHHHCCCCcC-HhHHHHHHHHHHcC--------CChHHHHHHHHHH
Q 017234          104 NESCLDEYACLIALSGKV-----QNVPFAMHVFTSMEAQGIKPD-SAVFNSLICACLCS--------GDVVTALSLFEIM  169 (375)
Q Consensus       104 ~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~--------g~~~~a~~~~~~m  169 (375)
                      .+.|...|...+.+....     ++...|.++|++..+.  .|+ ...|..+..++...        .++..+.+..++.
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            345566666666654332     2255666677666665  343 22333332222211        1223344444433


Q ss_pred             HhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC
Q 017234          170 VSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       170 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  243 (375)
                      ......+.+...|..+.-.....|++++|...+++....+  |+...|..+...+...|+.++|.+.|++....
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3211123344556666555556677888888887777764  56777777777777788888887777777665

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.20  E-value=0.03  Score=41.30  Aligned_cols=56  Identities=16%  Similarity=0.118  Sum_probs=25.5

Q ss_pred             HHHhccCChhHHHHHHHHHHHCCCCcC--HhHHHHHHHHHHcCCChHHHHHHHHHHHh
Q 017234          116 ALSGKVQNVPFAMHVFTSMEAQGIKPD--SAVFNSLICACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus       116 ~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      .++-..|+.++|..++++..+.|....  ...+-.+...+...|++++|..++++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334444555555555555544443322  22333344444444555555555554443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.17  E-value=0.003  Score=41.00  Aligned_cols=56  Identities=18%  Similarity=0.147  Sum_probs=31.6

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          291 VKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       291 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      ...+...|++++|...|+.+.+..  |+.... +..+..++...|++++|...|+++.+
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a-~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD--PDNPEA-WYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS--TTHHHH-HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC--CCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345556666666666666666544  322221 55566666666666666666666654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.17  E-value=0.076  Score=44.18  Aligned_cols=136  Identities=11%  Similarity=0.083  Sum_probs=104.6

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHH----
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVL----  256 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li----  256 (375)
                      +.++++..+.-.+.+.-....+++..+...+.++.....|.+.-.+.||.+.|...|++..+..-..|..+.+.++    
T Consensus       179 Vmy~~~~~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  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            5667788888888899999999999998877789999999999999999999999999887653344444444443    


Q ss_pred             -HHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC
Q 017234          257 -EGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSP  317 (375)
Q Consensus       257 -~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  317 (375)
                       ..+.-++++-.|...+.++...+ ..|+...|.-.-+..-.|+..+|.+.++.|.+..+.|
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~  319 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRH  319 (366)
T ss_pred             hhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence             34456678888888888887765 3455656655555566899999999999999865444

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.13  E-value=0.065  Score=52.63  Aligned_cols=184  Identities=8%  Similarity=0.004  Sum_probs=133.0

Q ss_pred             ChHHHHHHHHHHHhCCCCCCC-hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHH
Q 017234          158 DVVTALSLFEIMVSSEEYKPN-SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRF  236 (375)
Q Consensus       158 ~~~~a~~~~~~m~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~  236 (375)
                      +...|+..|=+..+   +.|+ ...|..|...|+...+...|.+.|....+.... +...+....+.|++..+++.|..+
T Consensus       473 ~~~~al~ali~alr---ld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I  548 (1238)
T KOG1127|consen  473 NSALALHALIRALR---LDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEI  548 (1238)
T ss_pred             hHHHHHHHHHHHHh---cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHH
Confidence            35666665555544   2333 357889999999988999999999998887643 778899999999999999999998


Q ss_pred             HHHHHHCCCCCCHHH--HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          237 YEEMMSLGIIPSIPI--LEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       237 ~~~m~~~~~~p~~~~--~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      .-..-+.. +.-...  |...--.|...++...+..-|+...... +-|...|..+..+|.++|.+..|.++|.+...  
T Consensus       549 ~l~~~qka-~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--  624 (1238)
T KOG1127|consen  549 CLRAAQKA-PAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASL--  624 (1238)
T ss_pred             HHHHhhhc-hHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHh--
Confidence            33322221 111122  2233335668899999999999888765 44778899999999999999999999999877  


Q ss_pred             CCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          315 QSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       315 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      +.|+.....|-.-+ .-+..|.+.+|...+......
T Consensus       625 LrP~s~y~~fk~A~-~ecd~GkYkeald~l~~ii~~  659 (1238)
T KOG1127|consen  625 LRPLSKYGRFKEAV-MECDNGKYKEALDALGLIIYA  659 (1238)
T ss_pred             cCcHhHHHHHHHHH-HHHHhhhHHHHHHHHHHHHHH
Confidence            55655533333222 246779999999988777653

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.06  E-value=0.0027  Score=41.20  Aligned_cols=21  Identities=14%  Similarity=0.143  Sum_probs=7.5

Q ss_pred             HHHHHHcCCCHHHHHHHHHHH
Q 017234          185 FISGFSSLGNVDAMNKWYAAN  205 (375)
Q Consensus       185 ll~~~~~~~~~~~a~~~~~~m  205 (375)
                      +..++...|++++|...|++.
T Consensus        37 lg~~~~~~g~~~~A~~~~~~a   57 (65)
T PF13432_consen   37 LGRILYQQGRYDEALAYYERA   57 (65)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH
Confidence            333333333333333333333

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.06  E-value=0.056  Score=44.95  Aligned_cols=133  Identities=11%  Similarity=0.123  Sum_probs=70.5

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHH--
Q 017234          144 AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLI--  221 (375)
Q Consensus       144 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll--  221 (375)
                      .+-+.++.++.-.|.+.-....+++.++ ..-+.++.....|.+.-.+.||.+.|...|++..+..-..|..+++.++  
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~-~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~  256 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIK-YYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLM  256 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHH-hCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHh
Confidence            3445555555556666666666666665 3334455555566666666666666666666554433233333333332  


Q ss_pred             ---HHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 017234          222 ---HGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG  278 (375)
Q Consensus       222 ---~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  278 (375)
                         ..|.-.+++.+|...|++....+ ..|....|.=.-+..-.|+...|.+.++.+.+.
T Consensus       257 n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  257 NSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence               23444556666666666665543 223333333333333456666666666666553

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

Probab=96.96  E-value=0.02  Score=44.22  Aligned_cols=55  Identities=15%  Similarity=0.196  Sum_probs=22.9

Q ss_pred             HHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 017234          220 LIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFL  275 (375)
Q Consensus       220 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  275 (375)
                      ++..+...|++++|.++.+.+.... +.|...|..+|.++...|+...|.++|+.+
T Consensus        68 l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   68 LAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            3334444444444444444444433 233444444444444444444444444443

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

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.96  E-value=0.18  Score=47.42  Aligned_cols=93  Identities=13%  Similarity=0.050  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHH---------
Q 017234          251 ILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLL---------  321 (375)
Q Consensus       251 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~---------  321 (375)
                      +...+..-+-+...+..|.++|..|-+         ..++++.....++|++|..+-+...+.  .|+...         
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~  817 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAEN  817 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhh
Confidence            333333334445555556666655532         123455555666666666666555442  122111         


Q ss_pred             HHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCc
Q 017234          322 HFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSF  354 (375)
Q Consensus       322 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  354 (375)
                      ..|...-++|.+.|+-.+|..+++++....+.-
T Consensus       818 DrFeEAqkAfhkAGr~~EA~~vLeQLtnnav~E  850 (1081)
T KOG1538|consen  818 DRFEEAQKAFHKAGRQREAVQVLEQLTNNAVAE  850 (1081)
T ss_pred             hhHHHHHHHHHHhcchHHHHHHHHHhhhhhhhh
Confidence            114455567778888888888888877665543

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.95  E-value=0.015  Score=49.14  Aligned_cols=153  Identities=11%  Similarity=0.008  Sum_probs=104.9

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      .+-..+.+++.+|+..|.+.++..+. |.+-|..=..+|++.|.++.|.+=.+.....+ +--..+|..|-.+|...|++
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcH
Confidence            34467889999999999999998654 88888999999999999999998887777653 22357899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHH-HHcCChH---HHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHH
Q 017234          266 DRVKSFLKFLLGGGWKINENMAQKLVKCY-CELGRVD---ELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVE  341 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~~~---~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  341 (375)
                      ++|.+.|+..++  +.|+-.+|-.=+... -+.+..+   .+..-++-....|..|+.... |+      ...-.-....
T Consensus       166 ~~A~~aykKaLe--ldP~Ne~~K~nL~~Ae~~l~e~~~~~~~~~~~d~~~~ig~~Pd~~s~-~~------~~l~nnp~l~  236 (304)
T KOG0553|consen  166 EEAIEAYKKALE--LDPDNESYKSNLKIAEQKLNEPKSSAQASGSFDMAGLIGAFPDSRSM-FN------GDLMNNPQLM  236 (304)
T ss_pred             HHHHHHHHhhhc--cCCCcHHHHHHHHHHHHHhcCCCcccccccchhhhhhccCCccchhh-hc------cccccCHHHH
Confidence            999999999887  567777665544332 2333333   233333333333444443321 22      1222334455


Q ss_pred             HHHHHHHh
Q 017234          342 YSVGRMGK  349 (375)
Q Consensus       342 ~~~~~m~~  349 (375)
                      .+...|..
T Consensus       237 ~~~~~m~~  244 (304)
T KOG0553|consen  237 QLASQMMK  244 (304)
T ss_pred             HHHHHHhh
Confidence            56666666

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.94  E-value=0.023  Score=48.44  Aligned_cols=86  Identities=8%  Similarity=-0.031  Sum_probs=35.8

Q ss_pred             HccCChHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCcCHHHHHHHHHHHHHcC
Q 017234          225 LKARDFDSVDRFYEEMMSLGIIPS----IPILEKVLEGLCARRKLDRVKSFLKFLLGGG--WKINENMAQKLVKCYCELG  298 (375)
Q Consensus       225 ~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g  298 (375)
                      .+.|++++|...|+.+.+..  |+    ...+..+..+|...|++++|...|+.+.+.-  -......+-.+...+...|
T Consensus       154 ~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g  231 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKG  231 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcC
Confidence            33445555555555544432  22    1233444444444445555544444444321  0111222333333444444


Q ss_pred             ChHHHHHHHHHHHh
Q 017234          299 RVDELEEQLETLTK  312 (375)
Q Consensus       299 ~~~~a~~~~~~~~~  312 (375)
                      +.++|...++.+.+
T Consensus       232 ~~~~A~~~~~~vi~  245 (263)
T PRK10803        232 DTAKAKAVYQQVIK  245 (263)
T ss_pred             CHHHHHHHHHHHHH
Confidence            44444444444444

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

Probab=96.94  E-value=0.0026  Score=41.72  Aligned_cols=62  Identities=16%  Similarity=0.196  Sum_probs=37.9

Q ss_pred             ccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          120 KVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       120 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      +.|++++|.+.|+++.+.. +-+...+..+..+|.+.|++++|..+++.+...   .|+...|..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~---~~~~~~~~~l   64 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ---DPDNPEYQQL   64 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG---GTTHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---CcCHHHHHHH
Confidence            4566777777777766553 225666666777777777777777777777652   3554444433

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.91  E-value=0.17  Score=41.51  Aligned_cols=62  Identities=13%  Similarity=0.086  Sum_probs=26.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHH
Q 017234           74 WDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEA  136 (375)
Q Consensus        74 ~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  136 (375)
                      |..-...+..|++.+|.+.|+.+...-.. +.--....-.++.++.+.|+++.|...++++.+
T Consensus         9 Y~~a~~~~~~g~y~~Ai~~f~~l~~~~P~-s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~   70 (203)
T PF13525_consen    9 YQKALEALQQGDYEEAIKLFEKLIDRYPN-SPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIK   70 (203)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHHHH-TT-STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33333335555555555554332222111 111123333445555555555555555555544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.90  E-value=0.15  Score=40.27  Aligned_cols=128  Identities=14%  Similarity=0.192  Sum_probs=69.0

Q ss_pred             CCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCC---CCCCHHHH
Q 017234          176 KPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLG---IIPSIPIL  252 (375)
Q Consensus       176 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~  252 (375)
                      .|+...--.|..+..+.|+..+|...|++....-.--|....-.+.++....+++..|...++++-+..   -.||  +.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--ch
Confidence            355555555566666666666666666665544344455555555666666666666666666655532   2233  23


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHH
Q 017234          253 EKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQL  307 (375)
Q Consensus       253 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  307 (375)
                      -.+...+...|+..+|+..|+.....  -|+...-......+.+.|+.+++..-+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHH
Confidence            33445555666666666666666553  344444333444555556555544333

>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=96.89  E-value=0.008  Score=39.48  Aligned_cols=64  Identities=16%  Similarity=0.140  Sum_probs=39.4

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhC-CHHHHHHHHHHHHh
Q 017234          283 NENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSD-RLDDVEYSVGRMGK  349 (375)
Q Consensus       283 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~  349 (375)
                      +..+|..+...+...|++++|...|++..+.+  |+.... |..+..+|...| ++++|++.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~~~~~-~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PNNAEA-YYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TTHHHH-HHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHH-HHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            34556666666667777777777777666643  433222 666666666666 56777776666554

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.88  E-value=0.28  Score=43.19  Aligned_cols=85  Identities=14%  Similarity=0.125  Sum_probs=68.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIR  329 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~  329 (375)
                      .+.+..|.-+...|+...|.++-.+..    .||...|..-+.+++..++|++-.++...  +  ..|  .-  |..++.
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s--k--KsP--IG--yepFv~  245 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS--K--KSP--IG--YEPFVE  245 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC--C--CCC--CC--hHHHHH
Confidence            456666778888999998888876652    48999999999999999999988886543  2  223  22  899999


Q ss_pred             HHHhhCCHHHHHHHHHH
Q 017234          330 LYALSDRLDDVEYSVGR  346 (375)
Q Consensus       330 ~~~~~g~~~~A~~~~~~  346 (375)
                      +|.+.|+..+|..+..+
T Consensus       246 ~~~~~~~~~eA~~yI~k  262 (319)
T PF04840_consen  246 ACLKYGNKKEASKYIPK  262 (319)
T ss_pred             HHHHCCCHHHHHHHHHh
Confidence            99999999999999877

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.83  E-value=0.33  Score=43.31  Aligned_cols=27  Identities=7%  Similarity=0.073  Sum_probs=14.6

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          324 FSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       324 ~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      +..++.++.-.|+.++|.+..++|...
T Consensus       308 ~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  308 VATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            445555555555555555555555543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.82  E-value=0.031  Score=47.69  Aligned_cols=88  Identities=8%  Similarity=-0.035  Sum_probs=36.0

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCcC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhC
Q 017234          260 CARRKLDRVKSFLKFLLGGGWKIN----ENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSD  335 (375)
Q Consensus       260 ~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  335 (375)
                      .+.|++++|...|+.+.+..  |+    ...+..+...|...|++++|...|+.+.+...........+-.+...+...|
T Consensus       154 ~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g  231 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKG  231 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcC
Confidence            33444555554444444431  22    1233444444444555555555554444322211111111222333444445


Q ss_pred             CHHHHHHHHHHHHh
Q 017234          336 RLDDVEYSVGRMGK  349 (375)
Q Consensus       336 ~~~~A~~~~~~m~~  349 (375)
                      +.++|..+|+++.+
T Consensus       232 ~~~~A~~~~~~vi~  245 (263)
T PRK10803        232 DTAKAKAVYQQVIK  245 (263)
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555544443

>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=96.82  E-value=0.0065  Score=39.91  Aligned_cols=62  Identities=15%  Similarity=0.113  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHh
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELG-RVDELEEQLETLTK  312 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~  312 (375)
                      .+|..+...+...|++++|...|++.++.. +.+...+..+..+|...| ++++|.+.+++..+
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            344555555555555555555555555532 223444555555555555 45555555555443

...

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.81  E-value=0.025  Score=42.18  Aligned_cols=51  Identities=12%  Similarity=0.002  Sum_probs=28.9

Q ss_pred             CCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHH
Q 017234          210 FSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL-GIIPSIPILEKVLEGLC  260 (375)
Q Consensus       210 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~  260 (375)
                      ..|+..+..+++.+|+..|++..|.++.+...+. +++.+..+|..|++-+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            3455666666666666666666666666555543 44555555665555443

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

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

Probab=96.80  E-value=0.008  Score=46.43  Aligned_cols=70  Identities=17%  Similarity=0.220  Sum_probs=44.5

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHH-----CCCCCCHHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMS-----LGIIPSIPI  251 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~  251 (375)
                      +...++..+...|++++|..+...+....+. |...|..+|.+|...|+..+|.++|+.+.+     .|+.|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            4455666677777788888877777776543 777777788888888888888777777643     377776654

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

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.79  E-value=0.16  Score=43.24  Aligned_cols=100  Identities=15%  Similarity=0.108  Sum_probs=58.7

Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH---hcCCHHHHHHHHHHHHhCCCCcCHHHHHH
Q 017234          213 NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLC---ARRKLDRVKSFLKFLLGGGWKINENMAQK  289 (375)
Q Consensus       213 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~---~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  289 (375)
                      |...|-.|...|...|+++.|..-|.+..+.. .++...+..+..++.   ......++..++++++... +-|..+...
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHHH
Confidence            66667777777777777777777776666542 233344444444333   2224455666666666654 334555555


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          290 LVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       290 li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      |...+...|++.+|...++.|.+..
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC
Confidence            5666666777777777776666643

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.73  E-value=0.25  Score=40.53  Aligned_cols=182  Identities=12%  Similarity=0.095  Sum_probs=85.6

Q ss_pred             HHHHHcCCChHHHHHHHHHHHhCCCCCCC-hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccC
Q 017234          150 ICACLCSGDVVTALSLFEIMVSSEEYKPN-SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKAR  228 (375)
Q Consensus       150 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g  228 (375)
                      ...+...|++++|.+.|+.+.......|- ....-.+..++.+.|+++.|...++++.+.-+.-...-+-..+.+.+...
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~   91 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYK   91 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHH
Confidence            33445667777777777777653211111 12333556666777777777777777666533322222222222222211


Q ss_pred             ChHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHH
Q 017234          229 DFDSVDRFYEEMMSLGII---PSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEE  305 (375)
Q Consensus       229 ~~~~a~~~~~~m~~~~~~---p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  305 (375)
                      ......     ....+..   --...+..++.-|-.+.-..+|...+..+.+.   .- .---.+.+.|.+.|.+..|..
T Consensus        92 ~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---la-~~e~~ia~~Y~~~~~y~aA~~  162 (203)
T PF13525_consen   92 QIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---LA-EHELYIARFYYKRGKYKAAII  162 (203)
T ss_dssp             HHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---HH-HHHHHHHHHHHCTT-HHHHHH
T ss_pred             hCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---HH-HHHHHHHHHHHHcccHHHHHH
Confidence            111110     0000000   00123444555555556666666655555331   01 111225667778888888888


Q ss_pred             HHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHH
Q 017234          306 QLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDV  340 (375)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  340 (375)
                      -++.+.+.-......-.....++.+|.+.|..+.|
T Consensus       163 r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  163 RFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            88877775433333323356677777777777644

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.62  E-value=0.48  Score=42.36  Aligned_cols=82  Identities=15%  Similarity=0.141  Sum_probs=48.1

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCC---CCcCHhHHHHHHHHHHc---CCChHHHHHHHHHHHhCCCCCCChh
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQG---IKPDSAVFNSLICACLC---SGDVVTALSLFEIMVSSEEYKPNSK  180 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g---~~p~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~~~~~~  180 (375)
                      +..+...++-+|....+++...++.+.+...-   +.-+..+--...-++.+   .|+.++|++++..+.. ..-.++..
T Consensus       140 s~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~-~~~~~~~d  218 (374)
T PF13281_consen  140 SPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLE-SDENPDPD  218 (374)
T ss_pred             ChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHh-ccCCCChH
Confidence            44444556666777778888888887777541   11122222233344455   6777888888777444 34456666


Q ss_pred             cHHHHHHHH
Q 017234          181 TYDAFISGF  189 (375)
Q Consensus       181 ~~~~ll~~~  189 (375)
                      +|..+...|
T Consensus       219 ~~gL~GRIy  227 (374)
T PF13281_consen  219 TLGLLGRIY  227 (374)
T ss_pred             HHHHHHHHH
Confidence            666665554

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.60  E-value=0.016  Score=39.14  Aligned_cols=64  Identities=17%  Similarity=0.145  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhC----CCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          285 NMAQKLVKCYCELGRVDELEEQLETLTKC----NQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       285 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      .+++.+...|...|++++|+..|++..+.    |........++..+..+|...|++++|.+.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34555666666666666666666654422    11111112236666666666677777666666554

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.59  E-value=0.019  Score=38.10  Aligned_cols=53  Identities=2%  Similarity=0.003  Sum_probs=22.5

Q ss_pred             HHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHH
Q 017234          189 FSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       189 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  242 (375)
                      |.+.+++++|.++++.+...++. +...+.....++...|++++|.+.|+...+
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            33444444444444444443322 333444444444444444444444444443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.55  E-value=0.28  Score=38.80  Aligned_cols=128  Identities=10%  Similarity=0.038  Sum_probs=66.2

Q ss_pred             CcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-cCHHhHH
Q 017234          140 KPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFS-VNVQTYE  218 (375)
Q Consensus       140 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~  218 (375)
                      .|+...--.|..++.+.|+..+|...|++... .-+.-|....-.+.++....+++..|...++++-+.... .++.+.-
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qals-G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALS-GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc-cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            45555555566666666666666666666654 334445555555556666666666666666655544210 0222334


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 017234          219 SLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKS  270 (375)
Q Consensus       219 ~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  270 (375)
                      .+...+...|.+++|+.-|+.....  -|+...-......+.+.|+.+++..
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            4455556666666666666665554  2333322222233444554444443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.49  E-value=0.11  Score=46.04  Aligned_cols=300  Identities=13%  Similarity=0.044  Sum_probs=162.7

Q ss_pred             CCCcccHHHHHHH---HhcCChHHHHHHHHHHHHHhhcCCCCC----HHHHHHHHHHHhccCChhHHHHHHHHHH--H--
Q 017234           68 NSSQFSWDALITS---LQSSSPKKAQLVLEWRLDKMLKGNESC----LDEYACLIALSGKVQNVPFAMHVFTSME--A--  136 (375)
Q Consensus        68 ~p~~~~~~~li~~---~~~~~~~~a~~~~~~~~~~m~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~--~--  136 (375)
                      ..+...+..-+..   |+.|+....+.+    |+...+-|..|    ..+|+.|-++|.-.+++++|++....=.  .  
T Consensus        12 ~q~~SCleLalEGERLck~gdcraGv~f----f~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~   87 (639)
T KOG1130|consen   12 MQDRSCLELALEGERLCKMGDCRAGVDF----FKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARL   87 (639)
T ss_pred             hhhhHHHHHHHHHHHHHhccchhhhHHH----HHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHH
Confidence            3344455555555   677888888877    44555555444    3345556666666677777776653211  1  


Q ss_pred             CCCC-cCHhHHHHHHHHHHcCCChHHHHHHHHH----HHhCCCCCCChhcHHHHHHHHHcCCC-----------------
Q 017234          137 QGIK-PDSAVFNSLICACLCSGDVVTALSLFEI----MVSSEEYKPNSKTYDAFISGFSSLGN-----------------  194 (375)
Q Consensus       137 ~g~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~----m~~~~~~~~~~~~~~~ll~~~~~~~~-----------------  194 (375)
                      .|-+ -...+...|...+--.|.+++|+-.-.+    .++...-......+-.+.+.|...|+                 
T Consensus        88 lgdklGEAKssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev  167 (639)
T KOG1130|consen   88 LGDKLGEAKSSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEV  167 (639)
T ss_pred             hcchhccccccccccchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHH
Confidence            0100 0122233344444445556555432221    11100001112233344445544332                 


Q ss_pred             ---HHHHHHHHHHHH----HCCCC-cCHHhHHHHHHHHHccCChHHHHHHHHHHH----HCCCC-CCHHHHHHHHHHHHh
Q 017234          195 ---VDAMNKWYAANI----AAGFS-VNVQTYESLIHGSLKARDFDSVDRFYEEMM----SLGII-PSIPILEKVLEGLCA  261 (375)
Q Consensus       195 ---~~~a~~~~~~m~----~~~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~----~~~~~-p~~~~~~~li~~~~~  261 (375)
                         ++.|.++|.+-.    +.|-. .--..|..|-+.|--.|+++.|...-+.=.    +-|-+ .....++.+.+++.-
T Consensus       168 ~~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hif  247 (639)
T KOG1130|consen  168 TSALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIF  247 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhh
Confidence               123344443221    11100 123456677777777888998876554322    22211 223567888888889


Q ss_pred             cCCHHHHHHHHHHHH----hCC-CCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh----C-CCCCchHHHHHHHHHHHH
Q 017234          262 RRKLDRVKSFLKFLL----GGG-WKINENMAQKLVKCYCELGRVDELEEQLETLTK----C-NQSPEVLLHFFSGIIRLY  331 (375)
Q Consensus       262 ~g~~~~a~~~~~~~~----~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~-~~~~~~~~~~~~~li~~~  331 (375)
                      .|+++.|.+.|+...    +.| -........+|.+.|.-..++++|+..+.+-..    . +..-....  +-+|..+|
T Consensus       248 lg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~Ra--cwSLgna~  325 (639)
T KOG1130|consen  248 LGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRA--CWSLGNAF  325 (639)
T ss_pred             hcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH--HHHHHHHH
Confidence            999999999888753    222 123455667788888888888988887765321    1 12222333  77889999


Q ss_pred             HhhCCHHHHHHHHHHHHhCCCCccCch----hHHHHHHHHHHhhcc
Q 017234          332 ALSDRLDDVEYSVGRMGKQGLSFKSAE----DVEMESWFIWKVGFR  373 (375)
Q Consensus       332 ~~~g~~~~A~~~~~~m~~~~~~~~~~~----~~~~~~~~~~~~~~~  373 (375)
                      ...|..++|..+.+.-++...+.+++.    ...-++-+.+.-|..
T Consensus       326 ~alg~h~kAl~fae~hl~~s~ev~D~sgelTar~Nlsdl~~~lG~~  371 (639)
T KOG1130|consen  326 NALGEHRKALYFAELHLRSSLEVNDTSGELTARDNLSDLILELGQE  371 (639)
T ss_pred             HhhhhHHHHHHHHHHHHHHHHHhCCcchhhhhhhhhHHHHHHhCCC
Confidence            999999999988877766544444443    222355555554443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.48  E-value=0.2  Score=42.69  Aligned_cols=102  Identities=12%  Similarity=0.124  Sum_probs=78.5

Q ss_pred             CcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcC---CCHHHHHHHHHHHHHCCCCcCHHh
Q 017234          140 KPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSL---GNVDAMNKWYAANIAAGFSVNVQT  216 (375)
Q Consensus       140 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~---~~~~~a~~~~~~m~~~~~~~~~~~  216 (375)
                      +-|...|-.|...|...|+++.|..-|....+..  .++...+..+..++...   ....++.++|+++...... |+.+
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~--g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-~ira  229 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA--GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIRA  229 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHHH
Confidence            4578889999999999999999999999888744  34445555555554333   2356888899998887654 7888


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHCC
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSLG  244 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~  244 (375)
                      ...|...+...|++.+|...|+.|.+..
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            8888888899999999999999998875

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.47  E-value=0.026  Score=37.44  Aligned_cols=55  Identities=16%  Similarity=0.091  Sum_probs=28.5

Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          293 CYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       293 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .|.+.+++++|.+.++.+...+  |+.... |......+.+.|++++|...|++..+.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~--p~~~~~-~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD--PDDPEL-WLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC--cccchh-hHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            4555555666666665555533  222111 444555555556666666666555543

>PRK15331 chaperone protein SicA; Provisional

Probab=96.29  E-value=0.37  Score=37.40  Aligned_cols=87  Identities=6%  Similarity=0.027  Sum_probs=53.8

Q ss_pred             HHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHH
Q 017234          224 SLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDEL  303 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  303 (375)
                      +-..|++++|..+|.-+...+ .-+..-+..|..++-..+++++|...|......+ .-|+..+-....+|...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHH
Confidence            445677777777777776654 2233344555555566677777777777665443 23444445556677777777777


Q ss_pred             HHHHHHHHh
Q 017234          304 EEQLETLTK  312 (375)
Q Consensus       304 ~~~~~~~~~  312 (375)
                      +..|....+
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            777766665

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

Probab=96.24  E-value=0.049  Score=45.77  Aligned_cols=89  Identities=11%  Similarity=0.044  Sum_probs=58.2

Q ss_pred             CcCHhHHHHHHHHHHcC-----CChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCH----------------HHH
Q 017234          140 KPDSAVFNSLICACLCS-----GDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNV----------------DAM  198 (375)
Q Consensus       140 ~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~----------------~~a  198 (375)
                      +.|-.+|-..+..+...     ++++-....++.|.+ .|+..|..+|+.||+.+-+..-.                +-+
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~e-yGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~  142 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKE-YGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCA  142 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHH-hcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHH
Confidence            45777777777777643     566777777788888 88888888888888876553221                224


Q ss_pred             HHHHHHHHHCCCCcCHHhHHHHHHHHHccCC
Q 017234          199 NKWYAANIAAGFSVNVQTYESLIHGSLKARD  229 (375)
Q Consensus       199 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~  229 (375)
                      .+++++|...|+.||-.+-..|++++.+.+-
T Consensus       143 I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  143 IKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            5555666666666666666666665555544

>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=96.21  E-value=0.15  Score=46.98  Aligned_cols=129  Identities=7%  Similarity=0.032  Sum_probs=59.4

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA  261 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  261 (375)
                      .+.++.-+-+.|..+.|+++-.+         +   ..-.+...+.|+++.|.++.++      .++...|..|.....+
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D---------~---~~rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~AL~  359 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTD---------P---DHRFELALQLGNLDIALEIAKE------LDDPEKWKQLGDEALR  359 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS----------H---HHHHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCC---------h---HHHhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHHHHH
Confidence            44555555555555555554322         1   1123333455555555543322      1244455555555555


Q ss_pred             cCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHH
Q 017234          262 RRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVE  341 (375)
Q Consensus       262 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  341 (375)
                      .|+++.|++.+++..+         +..|+-.|...|+.+...++.+.....|-        ++....++.-.|+.++..
T Consensus       360 ~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~--------~n~af~~~~~lgd~~~cv  422 (443)
T PF04053_consen  360 QGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD--------INIAFQAALLLGDVEECV  422 (443)
T ss_dssp             TTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT---------HHHHHHHHHHHT-HHHHH
T ss_pred             cCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC--------HHHHHHHHHHcCCHHHHH
Confidence            5555555555554321         34444455555555555555554444331        344444444555555555


Q ss_pred             HHHH
Q 017234          342 YSVG  345 (375)
Q Consensus       342 ~~~~  345 (375)
                      +++.
T Consensus       423 ~lL~  426 (443)
T PF04053_consen  423 DLLI  426 (443)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

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.

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

Probab=96.17  E-value=0.1  Score=43.87  Aligned_cols=84  Identities=15%  Similarity=0.208  Sum_probs=50.1

Q ss_pred             CChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCC----------------ChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          122 QNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSG----------------DVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       122 ~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g----------------~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      +.++-....+..|.+.|+..|..+|+.||..+-+..                +-+=+++++++|.. .|+.||..+-..+
T Consensus        86 ~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~l  164 (406)
T KOG3941|consen   86 THVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDIL  164 (406)
T ss_pred             chHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHH-cCCCCchHHHHHH
Confidence            344444445555556666666666666655554321                22346777888877 7788888888888


Q ss_pred             HHHHHcCCCH-HHHHHHHHHHH
Q 017234          186 ISGFSSLGNV-DAMNKWYAANI  206 (375)
Q Consensus       186 l~~~~~~~~~-~~a~~~~~~m~  206 (375)
                      ++++.+.+.. .+..++.-.|.
T Consensus       165 vn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  165 VNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHhccccccHHHHHHHHHhhh
Confidence            8888777653 33444444443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.14  E-value=0.91  Score=40.57  Aligned_cols=156  Identities=10%  Similarity=0.038  Sum_probs=86.9

Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHH--HHccCChHHHHHHHHHHHHCCCCCCHHH-------------
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHG--SLKARDFDSVDRFYEEMMSLGIIPSIPI-------------  251 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~--~~~~g~~~~a~~~~~~m~~~~~~p~~~~-------------  251 (375)
                      .++.-.|+.++|.++-....+...   ...+...+++  +-..++.+.|...|.+-...+  |+-..             
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld~---~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~  251 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLDA---TNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEV  251 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhccc---chhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHH
Confidence            344556677777666655555321   1223333333  334566666776666665543  33221             


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHH
Q 017234          252 LEKVLEGLCARRKLDRVKSFLKFLLGG---GWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGII  328 (375)
Q Consensus       252 ~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li  328 (375)
                      +..=.+-..+.|++..|.+.|.+.+..   ..+|+...|........+.|+.++|..--++..+  +.+.-.-. |-.-.
T Consensus       252 ~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~--iD~syika-ll~ra  328 (486)
T KOG0550|consen  252 KKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK--IDSSYIKA-LLRRA  328 (486)
T ss_pred             HHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh--cCHHHHHH-HHHHH
Confidence            111122334667777777777777653   3455666677777777777777777777766655  32321111 33334


Q ss_pred             HHHHhhCCHHHHHHHHHHHHhC
Q 017234          329 RLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       329 ~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .++...++|++|++-|++..+.
T Consensus       329 ~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  329 NCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Confidence            4455567777777777766554

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.00  E-value=0.037  Score=37.27  Aligned_cols=62  Identities=18%  Similarity=0.211  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CcC-HHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGG----GW-KIN-ENMAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                      .+|+.+...|...|++++|...+++..+.    |- .|+ ..++..+..+|...|++++|.+.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34555555566666666666666555432    10 111 3345555666666666666666665543

...

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.98  E-value=0.45  Score=42.95  Aligned_cols=127  Identities=13%  Similarity=0.145  Sum_probs=55.9

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCC-CCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHH-HHHHHHHH
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAG-FSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPI-LEKVLEGL  259 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~  259 (375)
                      |...++.-.+..-++.|..+|-++.+.| +.+++..++++|..++. |+..-|.++|+--...  .||... ....+.-+
T Consensus       400 ~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl~fL  476 (660)
T COG5107         400 FCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHHHHH
Confidence            3444444444444555555555555554 34445555555554432 4444555555443332  223222 22233333


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCcC--HHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          260 CARRKLDRVKSFLKFLLGGGWKIN--ENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       260 ~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      ...++-+.|..+|+...+. +.-+  ...|..+|..-...|++..+..+-+++.+
T Consensus       477 i~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         477 IRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            4455555555555533221 1111  23455555554555555544444444433

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.97  E-value=0.46  Score=43.95  Aligned_cols=154  Identities=11%  Similarity=0.127  Sum_probs=75.5

Q ss_pred             hcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHH
Q 017234           82 QSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVT  161 (375)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  161 (375)
                      .+++++++.+.++  -.++. ..+| ..-.+.++..+-+.|-.+.|+++-..-.            .-.+...+.|+++.
T Consensus       273 ~~~d~~~v~~~i~--~~~ll-~~i~-~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~  336 (443)
T PF04053_consen  273 LRGDFEEVLRMIA--ASNLL-PNIP-KDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDI  336 (443)
T ss_dssp             HTT-HHH-----H--HHHTG-GG---HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHH
T ss_pred             HcCChhhhhhhhh--hhhhc-ccCC-hhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHH
Confidence            6666666655531  11221 1123 4446666666666676666666543211            12344456666666


Q ss_pred             HHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 017234          162 ALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMM  241 (375)
Q Consensus       162 a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  241 (375)
                      |.++.++.       .+...|..|.....+.|+++-|++.|.+..+         |..|+-.|.-.|+.+.-.++.+...
T Consensus       337 A~~~a~~~-------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~  400 (443)
T PF04053_consen  337 ALEIAKEL-------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAE  400 (443)
T ss_dssp             HHHHCCCC-------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHhc-------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHH
Confidence            66553322       3455666666666666666666666655432         4555555666666666555555555


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 017234          242 SLGIIPSIPILEKVLEGLCARRKLDRVKSFLK  273 (375)
Q Consensus       242 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  273 (375)
                      ..|-      ++....++.-.|+.++..+++.
T Consensus       401 ~~~~------~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  401 ERGD------INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HTT-------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             HccC------HHHHHHHHHHcCCHHHHHHHHH
Confidence            5442      4444445555566665555543

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.

>PRK15331 chaperone protein SicA; Provisional

Probab=95.95  E-value=0.3  Score=37.95  Aligned_cols=90  Identities=12%  Similarity=0.080  Sum_probs=63.7

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      ..-+...|++++|..+|.-+...++. +..-|..|..++...+++++|...|...-..+. -|...+-....++...|+.
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCH
Confidence            33456778888888888887776554 566667777777778888888888876655432 2333344566777888888


Q ss_pred             HHHHHHHHHHHh
Q 017234          266 DRVKSFLKFLLG  277 (375)
Q Consensus       266 ~~a~~~~~~~~~  277 (375)
                      +.|...|....+
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            888888887776

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.95  E-value=0.59  Score=36.64  Aligned_cols=135  Identities=13%  Similarity=0.128  Sum_probs=78.7

Q ss_pred             HHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC
Q 017234          129 HVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAA  208 (375)
Q Consensus       129 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  208 (375)
                      +.++.+.+.|++|+...+..+++.+.+.|++.....+    .. .++-+|+......+-.+...  ...+.++=-+|..+
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~ql----lq-~~Vi~DSk~lA~~LLs~~~~--~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQL----LQ-YHVIPDSKPLACQLLSLGNQ--YPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH----Hh-hcccCCcHHHHHHHHHhHcc--ChHHHHHHHHHHHH
Confidence            4455566778888888888888888888876554444    33 55566665555544333332  22333333333332


Q ss_pred             CCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 017234          209 GFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG  278 (375)
Q Consensus       209 ~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  278 (375)
                          =...+..+++.+...|++-+|.++.+.....+    ......++.+..+.+|...-..+++-..+.
T Consensus        88 ----L~~~~~~iievLL~~g~vl~ALr~ar~~~~~~----~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   88 ----LGTAYEEIIEVLLSKGQVLEALRYARQYHKVD----SVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             ----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCcc----cCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                00136667777888888888888777653221    112345666666667666666666655543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.95  E-value=0.2  Score=44.39  Aligned_cols=97  Identities=10%  Similarity=0.012  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIR  329 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~  329 (375)
                      .++..+.-++.+.+++..|.+.-...++.+ ++|....-.=..+|...|+++.|+..|+.+.+  +.|+.... -+.|+.
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~-~~el~~  333 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAA-RAELIK  333 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHH-HHHHHH
Confidence            457778888889999999988888888876 66777777778888899999999999999988  45665553 344554


Q ss_pred             HHHhhCCH-HHHHHHHHHHHhC
Q 017234          330 LYALSDRL-DDVEYSVGRMGKQ  350 (375)
Q Consensus       330 ~~~~~g~~-~~A~~~~~~m~~~  350 (375)
                      .--+.... +...++|..|...
T Consensus       334 l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  334 LKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhc
Confidence            44444444 3446788888654

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.92  E-value=0.47  Score=35.25  Aligned_cols=62  Identities=23%  Similarity=0.289  Sum_probs=28.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC
Q 017234          253 EKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQ  315 (375)
Q Consensus       253 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  315 (375)
                      ...+......|+-++..+++..+.+.+ .+++...-.+..+|.+.|+..++.+++.+.-+.|+
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            334444455555555555555554432 44555555555555555555555555555555443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.92  E-value=1.3  Score=40.21  Aligned_cols=135  Identities=10%  Similarity=0.113  Sum_probs=104.2

Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHH
Q 017234          213 NVQTYESLIHGSLKARDFDSVDRFYEEMMSLG-IIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLV  291 (375)
Q Consensus       213 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  291 (375)
                      =..+|...++.-.+..-++.|..+|-+..+.| +.+++..+++++..++ .|+...|..+|+--... +..++.-.+-.+
T Consensus       396 ~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f~d~~~y~~kyl  473 (660)
T COG5107         396 LTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-FPDSTLYKEKYL  473 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-CCCchHHHHHHH
Confidence            45678888998888889999999999999988 6788899999998776 67788899999765543 333344456677


Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          292 KCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       292 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ..+...++-+.|..+|+...++ +..+....+|..+|.-=..-|+...+..+=++|.+.
T Consensus       474 ~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         474 LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH
Confidence            8888999999999999965443 111111223899999888899999999888888764

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.89  E-value=0.41  Score=36.48  Aligned_cols=86  Identities=10%  Similarity=-0.038  Sum_probs=51.1

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA  261 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  261 (375)
                      ...++..+...+.......+++.+...+. .+...++.++..|++.+ .++..+.++.      .++......++..|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHH
Confidence            44566666666777777777777776653 46667777777777653 2333333331      1222334446666666


Q ss_pred             cCCHHHHHHHHHHH
Q 017234          262 RRKLDRVKSFLKFL  275 (375)
Q Consensus       262 ~g~~~~a~~~~~~~  275 (375)
                      .+.++++..++..+
T Consensus        82 ~~l~~~~~~l~~k~   95 (140)
T smart00299       82 AKLYEEAVELYKKD   95 (140)
T ss_pred             cCcHHHHHHHHHhh
Confidence            66666666666554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.86  E-value=1.1  Score=39.04  Aligned_cols=130  Identities=12%  Similarity=0.193  Sum_probs=63.7

Q ss_pred             hHHHHHHHHHHHCCCCcCHhHHHHHHHHHHc--CC----ChHHHHHHHHHHHhCCCC--CCChhcHHHHHHHHHcCCC--
Q 017234          125 PFAMHVFTSMEAQGIKPDSAVFNSLICACLC--SG----DVVTALSLFEIMVSSEEY--KPNSKTYDAFISGFSSLGN--  194 (375)
Q Consensus       125 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~--~g----~~~~a~~~~~~m~~~~~~--~~~~~~~~~ll~~~~~~~~--  194 (375)
                      ++...+++.|.+.|+.-+..+|-+..-....  ..    ...+|.++|+.|++...+  .++..++..++..  ..++  
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            3455566666666666666555553333222  11    245666777777663222  2333444444433  2233  


Q ss_pred             --HHHHHHHHHHHHHCCCCcCH--HhHHHHHHHHHccCC--hHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 017234          195 --VDAMNKWYAANIAAGFSVNV--QTYESLIHGSLKARD--FDSVDRFYEEMMSLGIIPSIPILEKVL  256 (375)
Q Consensus       195 --~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~~g~--~~~a~~~~~~m~~~~~~p~~~~~~~li  256 (375)
                        .+.++.+|+.+.+.|+..+-  .....++..+....+  ...+.++++.+++.|+++....|..+.
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence              24455666666665554422  222222222222111  335666666677666666665555443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.85  E-value=1.9  Score=41.61  Aligned_cols=292  Identities=10%  Similarity=0.059  Sum_probs=159.6

Q ss_pred             chHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcC--ChHHHHHHHHHHHHHhhcCCCCCHHHHHHH
Q 017234           39 SSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSS--SPKKAQLVLEWRLDKMLKGNESCLDEYACL  114 (375)
Q Consensus        39 ~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~--~~~~a~~~~~~~~~~m~~~~~~~~~~~~~l  114 (375)
                      .-..+|..+...+.. .+.++-..+...-..- ...|...... .++.  .-+++++-+   -+++ +....+..+|..+
T Consensus       439 ~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I---~~kl-s~~~~~~iSy~~i  513 (829)
T KOG2280|consen  439 SEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKI---DEKL-SAKLTPGISYAAI  513 (829)
T ss_pred             chhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHH---HHHh-cccCCCceeHHHH
Confidence            445566777666655 3333333332111111 3344444444 3332  223444442   2222 2223456678888


Q ss_pred             HHHHhccCChhHHHHHHHHHHHCCCC----cCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCC----------CCCCChh
Q 017234          115 IALSGKVQNVPFAMHVFTSMEAQGIK----PDSAVFNSLICACLCSGDVVTALSLFEIMVSSE----------EYKPNSK  180 (375)
Q Consensus       115 i~~~~~~~~~~~a~~~~~~m~~~g~~----p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~----------~~~~~~~  180 (375)
                      .......|+.+.|..+++.=...+-.    .+..-+...+.-..++|+.+-...++-++..+.          ..+....
T Consensus       514 A~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~  593 (829)
T KOG2280|consen  514 ARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALS  593 (829)
T ss_pred             HHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhH
Confidence            88888999999999988753332211    133345666677778888888777777776520          0111111


Q ss_pred             cHHHHHH--------HHHcCCCHHHHHHHHH--HHHHC-CCCcCHHhHHHHHHHHHccCChHH----------HHHHHHH
Q 017234          181 TYDAFIS--------GFSSLGNVDAMNKWYA--ANIAA-GFSVNVQTYESLIHGSLKARDFDS----------VDRFYEE  239 (375)
Q Consensus       181 ~~~~ll~--------~~~~~~~~~~a~~~~~--~m~~~-~~~~~~~~~~~ll~~~~~~g~~~~----------a~~~~~~  239 (375)
                      .|.-+++        .+.+.++...+...|.  ..... -+.+-........+.+.+.....-          -+++.+.
T Consensus       594 lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~  673 (829)
T KOG2280|consen  594 LYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQMKLLKLQRT  673 (829)
T ss_pred             HHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            2222221        1111222222222111  10000 011112223333444544443111          1122222


Q ss_pred             HHH-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCc
Q 017234          240 MMS-LGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPE  318 (375)
Q Consensus       240 m~~-~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  318 (375)
                      +.. .|......+.+--+.-+...|+..+|.++-.+..    .||-..|..=+.+++..++|++-+++-+..+.    |-
T Consensus       674 Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks----PI  745 (829)
T KOG2280|consen  674 LEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS----PI  745 (829)
T ss_pred             HHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC----CC
Confidence            222 2334445566777778888999999999877664    58999999999999999999988887665542    32


Q ss_pred             hHHHHHHHHHHHHHhhCCHHHHHHHHHHH
Q 017234          319 VLLHFFSGIIRLYALSDRLDDVEYSVGRM  347 (375)
Q Consensus       319 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m  347 (375)
                      -    |.-.+.+|.+.|+.++|.+++.+.
T Consensus       746 G----y~PFVe~c~~~~n~~EA~KYiprv  770 (829)
T KOG2280|consen  746 G----YLPFVEACLKQGNKDEAKKYIPRV  770 (829)
T ss_pred             C----chhHHHHHHhcccHHHHhhhhhcc
Confidence            1    777889999999999999998765

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.84  E-value=0.3  Score=44.37  Aligned_cols=65  Identities=12%  Similarity=0.069  Sum_probs=53.5

Q ss_pred             CCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCH----hHHHHHHHHHHcCCChHHHHHHHHHHHh
Q 017234          105 ESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDS----AVFNSLICACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus       105 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      +.+...++.+..+|.+.|++++|+..|++..+.  .|+.    .+|..+..+|.+.|+.++|+..+++..+
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            356888888888888899999999999888876  4553    3588888888899999999998888887

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.77  E-value=0.62  Score=35.48  Aligned_cols=43  Identities=14%  Similarity=-0.009  Sum_probs=21.9

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcC
Q 017234          113 CLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCS  156 (375)
Q Consensus       113 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  156 (375)
                      .++..+.+.+........++.+...+ ..+...++.++..|++.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            34444444555555555555555444 23445555555555543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.68  E-value=1.6  Score=40.98  Aligned_cols=164  Identities=12%  Similarity=0.063  Sum_probs=111.4

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCC-CCc-----CHHhHHHHHHHHHc----cCChHHHHHHHHHHHHCCCCCCHHH
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAG-FSV-----NVQTYESLIHGSLK----ARDFDSVDRFYEEMMSLGIIPSIPI  251 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~-----~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~  251 (375)
                      +..+++..+=.|+-+.+++.+.+..+.+ +.-     -.-.|+..+..++.    ..+.+.|.++++.+...  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            4566777778899999999988866542 221     12345555555554    34678899999999986  577766


Q ss_pred             HHHHH-HHHHhcCCHHHHHHHHHHHHhCC--C-CcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHH
Q 017234          252 LEKVL-EGLCARRKLDRVKSFLKFLLGGG--W-KINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGI  327 (375)
Q Consensus       252 ~~~li-~~~~~~g~~~~a~~~~~~~~~~~--~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  327 (375)
                      |...- ..+...|++++|.+.++......  . +.....+--+...+.-.++|++|...|..+.+..- .+...+.| ..
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~-WSka~Y~Y-~~  346 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESK-WSKAFYAY-LA  346 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccc-cHHHHHHH-HH
Confidence            65444 34567899999999999765421  1 22344566678888999999999999999987532 23333222 22


Q ss_pred             HHHHHhhCCH-------HHHHHHHHHHHh
Q 017234          328 IRLYALSDRL-------DDVEYSVGRMGK  349 (375)
Q Consensus       328 i~~~~~~g~~-------~~A~~~~~~m~~  349 (375)
                      ..++...|+.       ++|.++|.+...
T Consensus       347 a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  347 AACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            3345566777       888888877654

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.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.64  E-value=0.85  Score=42.73  Aligned_cols=164  Identities=15%  Similarity=0.091  Sum_probs=107.3

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh-----hcHHHHHHHHHc----CCCHHHHHHHHHHHHHCCCCcCHHh
Q 017234          146 FNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS-----KTYDAFISGFSS----LGNVDAMNKWYAANIAAGFSVNVQT  216 (375)
Q Consensus       146 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~  216 (375)
                      +..++....-.|+-+.+++.+.+..+..++.-..     ..|..++..++.    ....+.|.++++.+.+.  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            4445555666788899998888877644443322     235555554444    34678899999999886  356555


Q ss_pred             HHHH-HHHHHccCChHHHHHHHHHHHHCC--C-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHH-
Q 017234          217 YESL-IHGSLKARDFDSVDRFYEEMMSLG--I-IPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLV-  291 (375)
Q Consensus       217 ~~~l-l~~~~~~g~~~~a~~~~~~m~~~~--~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li-  291 (375)
                      |... .+.+...|++++|.+.|++.....  . ......+--+...+.-.++|++|...+..+.+.. .-+..+|.-+. 
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHH
Confidence            5443 345667899999999998765321  1 1223445566677788899999999999998754 23334444333 


Q ss_pred             HHHHHcCCh-------HHHHHHHHHHHh
Q 017234          292 KCYCELGRV-------DELEEQLETLTK  312 (375)
Q Consensus       292 ~~~~~~g~~-------~~a~~~~~~~~~  312 (375)
                      .++...|+.       ++|.++|.+...
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            345567777       888888887643

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.60  E-value=1.6  Score=38.91  Aligned_cols=295  Identities=11%  Similarity=0.045  Sum_probs=176.7

Q ss_pred             cchHHHHHHhhcCCcchHHHHHHHh---hhccCCCCcccHHHHHHH---HhcCChHHHHHHHHHHHHHhhcCCCCCHHHH
Q 017234           38 SSSNPLISRLLQVPVSQIKTTLDSV---DIFAFNSSQFSWDALITS---LQSSSPKKAQLVLEWRLDKMLKGNESCLDEY  111 (375)
Q Consensus        38 ~~~~~ll~~l~~~~~~~~~~~~~~m---~~~~~~p~~~~~~~li~~---~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~  111 (375)
                      .-|..|-.+++..+..++ .+-..|   .+.-+..|....-.++.+   ...|+.+.|.+-    |+.|.....--.--.
T Consensus        83 rgyqALStGliAagAGda-~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~k----feAMl~dPEtRllGL  157 (531)
T COG3898          83 RGYQALSTGLIAAGAGDA-SLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKK----FEAMLDDPETRLLGL  157 (531)
T ss_pred             hHHHHHhhhhhhhccCch-HHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHH----HHHHhcChHHHHHhH
Confidence            457777777777664422 122223   222356666666677776   488899999888    566653222222223


Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcH--HHHHHHH
Q 017234          112 ACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTY--DAFISGF  189 (375)
Q Consensus       112 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~--~~ll~~~  189 (375)
                      ..|.-.--+.|+.+.|...-+..-+.- +--...+...+...+..|+|+.|+++.+.-++..-+.++..--  ..|+.+-
T Consensus       158 RgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAk  236 (531)
T COG3898         158 RGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAK  236 (531)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHH
Confidence            344444456788888877777665542 2235678888899999999999999998877644455554321  1233221


Q ss_pred             H---cCCCHHHHHHHHHHHHHCCCCcCHHh-HHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          190 S---SLGNVDAMNKWYAANIAAGFSVNVQT-YESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       190 ~---~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      .   -..+...|...-.+..+  +.||..- --.-..++.+.|+..++-.+++.+-+....|+.  .  .+..+.+.|+ 
T Consensus       237 A~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i--a--~lY~~ar~gd-  309 (531)
T COG3898         237 AMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI--A--LLYVRARSGD-  309 (531)
T ss_pred             HHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH--H--HHHHHhcCCC-
Confidence            1   11234445544444333  4455332 223356788899999999999999887555542  2  2233445664 


Q ss_pred             HHHHHHHHHHHhC-CCCc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhh-CCHHHHHH
Q 017234          266 DRVKSFLKFLLGG-GWKI-NENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALS-DRLDDVEY  342 (375)
Q Consensus       266 ~~a~~~~~~~~~~-~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~  342 (375)
                       .+..-+++.... .++| +....-.+..+-...|++..|..--+....  ..|....  |-.|.+.-... |+-.++..
T Consensus       310 -ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~--~lLlAdIeeAetGDqg~vR~  384 (531)
T COG3898         310 -TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESA--YLLLADIEEAETGDQGKVRQ  384 (531)
T ss_pred             -cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhH--HHHHHHHHhhccCchHHHHH
Confidence             333333333221 2344 445566677888888998888776666655  4465555  65555554443 88888888


Q ss_pred             HHHHHHhC
Q 017234          343 SVGRMGKQ  350 (375)
Q Consensus       343 ~~~~m~~~  350 (375)
                      .+-+..+.
T Consensus       385 wlAqav~A  392 (531)
T COG3898         385 WLAQAVKA  392 (531)
T ss_pred             HHHHHhcC
Confidence            88777654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.58  E-value=0.11  Score=46.97  Aligned_cols=101  Identities=12%  Similarity=-0.001  Sum_probs=74.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH----HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHH
Q 017234          246 IPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINE----NMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLL  321 (375)
Q Consensus       246 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  321 (375)
                      +.+...++.+..+|.+.|++++|...+++.++.  .|+.    .+|..+..+|...|+.++|...+++..+.+ .+   .
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---~  145 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---K  145 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---h
Confidence            345688999999999999999999999998885  4553    358999999999999999999999998852 12   1


Q ss_pred             HHHHHHHH--HHHhhCCHHHHHHHHHHHHhCCCCc
Q 017234          322 HFFSGIIR--LYALSDRLDDVEYSVGRMGKQGLSF  354 (375)
Q Consensus       322 ~~~~~li~--~~~~~g~~~~A~~~~~~m~~~~~~~  354 (375)
                        |..+..  .+....+..+..++++.+.+-|...
T Consensus       146 --f~~i~~DpdL~plR~~pef~eLlee~rk~G~~~  178 (453)
T PLN03098        146 --FSTILNDPDLAPFRASPEFKELQEEARKGGEDI  178 (453)
T ss_pred             --HHHHHhCcchhhhcccHHHHHHHHHHHHhCCcc
Confidence              332111  1112233457777888888877643

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.45  E-value=0.91  Score=43.34  Aligned_cols=94  Identities=12%  Similarity=-0.001  Sum_probs=48.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHH-----
Q 017234          248 SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLH-----  322 (375)
Q Consensus       248 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-----  322 (375)
                      +....-.+...+.+.|.-++|.+.+-+.   + .|-     .-+..|...++|.+|.++-+...-..+..-....     
T Consensus       851 ~s~llp~~a~mf~svGMC~qAV~a~Lr~---s-~pk-----aAv~tCv~LnQW~~avelaq~~~l~qv~tliak~aaqll  921 (1189)
T KOG2041|consen  851 DSELLPVMADMFTSVGMCDQAVEAYLRR---S-LPK-----AAVHTCVELNQWGEAVELAQRFQLPQVQTLIAKQAAQLL  921 (1189)
T ss_pred             ccchHHHHHHHHHhhchHHHHHHHHHhc---c-CcH-----HHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHH
Confidence            3444556666777777777766655322   1 121     2344556666666666665543211110000000     


Q ss_pred             ---HHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          323 ---FFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       323 ---~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                         -.---|..+.+.|+.-+|-+++.+|.++
T Consensus       922 ~~~~~~eaIe~~Rka~~~~daarll~qmae~  952 (1189)
T KOG2041|consen  922 ADANHMEAIEKDRKAGRHLDAARLLSQMAER  952 (1189)
T ss_pred             hhcchHHHHHHhhhcccchhHHHHHHHHhHH
Confidence               0122355677778877788888777654

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.42  E-value=0.59  Score=40.57  Aligned_cols=152  Identities=8%  Similarity=-0.043  Sum_probs=87.3

Q ss_pred             ccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHH----HHHHHHHcCCCH
Q 017234          120 KVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYD----AFISGFSSLGNV  195 (375)
Q Consensus       120 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~----~ll~~~~~~~~~  195 (375)
                      -.|+..+|-..++++.+. .+.|...++-.=+++.-.|+.+.-...+++....  ..||...|.    .+.-++...|-+
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            446666666677776654 3556666776677777777777777777766642  234443332    233344566777


Q ss_pred             HHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHH
Q 017234          196 DAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGII---PSIPILEKVLEGLCARRKLDRVKSFL  272 (375)
Q Consensus       196 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~---p~~~~~~~li~~~~~~g~~~~a~~~~  272 (375)
                      ++|++.-++..+.+.. |.-+-.++...+--.|+..++.++..+-...=-.   .-..-|=...-.+...+.++.|+++|
T Consensus       192 ~dAEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  192 DDAEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             hhHHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            7777777776665533 5666666666667777777777665554332100   00111212222334556777777777


Q ss_pred             HHH
Q 017234          273 KFL  275 (375)
Q Consensus       273 ~~~  275 (375)
                      +.=
T Consensus       271 D~e  273 (491)
T KOG2610|consen  271 DRE  273 (491)
T ss_pred             HHH
Confidence            653

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.36  E-value=0.35  Score=40.72  Aligned_cols=90  Identities=7%  Similarity=-0.051  Sum_probs=39.4

Q ss_pred             hcCCHHHHHHHHHHHHhCC--CCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHH
Q 017234          261 ARRKLDRVKSFLKFLLGGG--WKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLD  338 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  338 (375)
                      +.|++..|...|...++..  -.-....+-.|..++...|++++|..+|..+.+.-.+........--|.....+.|+.+
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            3444555555555554432  01112233445555555555555555555544332211111111333444455555555


Q ss_pred             HHHHHHHHHHhC
Q 017234          339 DVEYSVGRMGKQ  350 (375)
Q Consensus       339 ~A~~~~~~m~~~  350 (375)
                      +|..+|++..++
T Consensus       233 ~A~atl~qv~k~  244 (262)
T COG1729         233 EACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.28  E-value=1.7  Score=37.24  Aligned_cols=194  Identities=12%  Similarity=0.049  Sum_probs=121.8

Q ss_pred             CCCcccHHH--HHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhH
Q 017234           68 NSSQFSWDA--LITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAV  145 (375)
Q Consensus        68 ~p~~~~~~~--li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  145 (375)
                      -|+++.|.-  -+..+....++..++-|   +++....  +....+ .-.......|++.+|..+|.......-. +...
T Consensus        98 IPtV~af~dGqpVdgF~G~qPesqlr~~---ld~~~~~--~~e~~~-~~~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~  170 (304)
T COG3118          98 IPTVYAFKDGQPVDGFQGAQPESQLRQF---LDKVLPA--EEEEAL-AEAKELIEAEDFGEAAPLLKQALQAAPE-NSEA  170 (304)
T ss_pred             CCeEEEeeCCcCccccCCCCcHHHHHHH---HHHhcCh--HHHHHH-HHhhhhhhccchhhHHHHHHHHHHhCcc-cchH
Confidence            366665532  33446777788777665   5555432  233333 3344566889999999999988876422 4667


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCc-CHHhHHHHHHHH
Q 017234          146 FNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSV-NVQTYESLIHGS  224 (375)
Q Consensus       146 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~  224 (375)
                      --.+..+|...|+.+.|..++..+..+ --.........-|..+.+.....+...+-.+.-.   .| |...--.+...+
T Consensus       171 ~~~la~~~l~~g~~e~A~~iL~~lP~~-~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aa---dPdd~~aa~~lA~~~  246 (304)
T COG3118         171 KLLLAECLLAAGDVEAAQAILAALPLQ-AQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAA---DPDDVEAALALADQL  246 (304)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHhCccc-chhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHh---CCCCHHHHHHHHHHH
Confidence            778889999999999999999988762 1111122222334444555554444444444444   24 777777888889


Q ss_pred             HccCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 017234          225 LKARDFDSVDRFYEEMMSLGI-IPSIPILEKVLEGLCARRKLDRVKSFL  272 (375)
Q Consensus       225 ~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~a~~~~  272 (375)
                      ...|+.++|.+.+-.+.+.+. .-|...-..++..+.-.|..+.+...+
T Consensus       247 ~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~~~  295 (304)
T COG3118         247 HLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVLAY  295 (304)
T ss_pred             HHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHHHH
Confidence            999999999887777665421 345566677777777666444443333

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.23  E-value=0.97  Score=34.28  Aligned_cols=56  Identities=13%  Similarity=0.101  Sum_probs=27.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhCC--CCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          259 LCARRKLDRVKSFLKFLLGGG--WKINENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       259 ~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      ..+.|++++|.+.|+.+...-  -+-...+--.|+.+|.+.|++++|...+++.++..
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            334555555555555554431  01122334445555555555555555555555543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.05  E-value=0.59  Score=39.40  Aligned_cols=96  Identities=13%  Similarity=0.116  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChh---cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC--cCHHhHHH
Q 017234          145 VFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSK---TYDAFISGFSSLGNVDAMNKWYAANIAAGFS--VNVQTYES  219 (375)
Q Consensus       145 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~---~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~  219 (375)
                      .|+.-+..+ ++|++.+|..-|....+  +.+-+..   .+--|..++...|++++|-.+|..+.+.-.+  .-+.++--
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~--~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIK--KYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHH--cCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            455555433 55556666666666665  2222222   2334566666666666666666666554221  12344555


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHC
Q 017234          220 LIHGSLKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       220 ll~~~~~~g~~~~a~~~~~~m~~~  243 (375)
                      |..+..+.|+.++|..+|++..+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            555566666666666666666554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.98  E-value=2.3  Score=37.15  Aligned_cols=20  Identities=30%  Similarity=0.230  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHhCCCCcCHHH
Q 017234          267 RVKSFLKFLLGGGWKINENM  286 (375)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~~~  286 (375)
                      ++..+++.+.+.|+++....
T Consensus       200 r~~~l~~~l~~~~~kik~~~  219 (297)
T PF13170_consen  200 RVIELYNALKKNGVKIKYMH  219 (297)
T ss_pred             HHHHHHHHHHHcCCcccccc
Confidence            44444444444444444443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=94.95  E-value=2.5  Score=37.63  Aligned_cols=247  Identities=11%  Similarity=0.006  Sum_probs=161.8

Q ss_pred             chHHHHHHHhhhccCCCCcccHH---HHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHH
Q 017234           53 SQIKTTLDSVDIFAFNSSQFSWD---ALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMH  129 (375)
Q Consensus        53 ~~~~~~~~~m~~~~~~p~~~~~~---~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~  129 (375)
                      ..+.+-|+.|..   .|......   .+|.+-+.|..+.|...-+    .-...-+.-...+...+...+..|+++.|++
T Consensus       137 ~~Ar~kfeAMl~---dPEtRllGLRgLyleAqr~GareaAr~yAe----~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~Alk  209 (531)
T COG3898         137 EDARKKFEAMLD---DPETRLLGLRGLYLEAQRLGAREAARHYAE----RAAEKAPQLPWAARATLEARCAAGDWDGALK  209 (531)
T ss_pred             HHHHHHHHHHhc---ChHHHHHhHHHHHHHHHhcccHHHHHHHHH----HHHhhccCCchHHHHHHHHHHhcCChHHHHH
Confidence            377999999973   34433322   2333357888888888743    3333334456788899999999999999999


Q ss_pred             HHHHHHHCC-CCcCHh--HHHHHHHHHHc---CCChHHHHHHHHHHHhCCCCCCChhcHH-HHHHHHHcCCCHHHHHHHH
Q 017234          130 VFTSMEAQG-IKPDSA--VFNSLICACLC---SGDVVTALSLFEIMVSSEEYKPNSKTYD-AFISGFSSLGNVDAMNKWY  202 (375)
Q Consensus       130 ~~~~m~~~g-~~p~~~--~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~  202 (375)
                      +.+.-++.. +.++..  .-..|+.+-..   ..+...|...-.+..+   +.||..--. .-..++.+.|+..++-.++
T Consensus       210 Lvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K---L~pdlvPaav~AAralf~d~~~rKg~~il  286 (531)
T COG3898         210 LVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK---LAPDLVPAAVVAARALFRDGNLRKGSKIL  286 (531)
T ss_pred             HHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh---cCCccchHHHHHHHHHHhccchhhhhhHH
Confidence            999876543 344433  22333433222   2356666666555544   467654333 3457789999999999999


Q ss_pred             HHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 017234          203 AANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL-GIIP-SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGW  280 (375)
Q Consensus       203 ~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  280 (375)
                      +.+-+..+.|+.  +.  +..+.+.|+.  +..-++..+.. .++| +...-..+..+....|++..|..--+....  .
T Consensus       287 E~aWK~ePHP~i--a~--lY~~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~  358 (531)
T COG3898         287 ETAWKAEPHPDI--AL--LYVRARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--E  358 (531)
T ss_pred             HHHHhcCCChHH--HH--HHHHhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--h
Confidence            999998766654  22  2334455553  33333333221 2234 456677788888899999998887766655  4


Q ss_pred             CcCHHHHHHHHHHHHH-cCChHHHHHHHHHHHhCCCCC
Q 017234          281 KINENMAQKLVKCYCE-LGRVDELEEQLETLTKCNQSP  317 (375)
Q Consensus       281 ~~~~~~~~~li~~~~~-~g~~~~a~~~~~~~~~~~~~~  317 (375)
                      .|....|..|.+.-.. .||-.++...+-+..+....|
T Consensus       359 ~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         359 APRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             CchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            6888889888877554 499999999998877654333

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.86  E-value=3.2  Score=38.31  Aligned_cols=167  Identities=13%  Similarity=0.142  Sum_probs=91.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHH
Q 017234           74 WDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICAC  153 (375)
Q Consensus        74 ~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  153 (375)
                      +..+-.+.+..++.+-++.-    .+...-.+.....|..|.  --.+..+.+|++++++..+.|-    ..+       
T Consensus       172 q~IMq~AWRERnp~aRIkaA----~eALei~pdCAdAYILLA--EEeA~Ti~Eae~l~rqAvkAgE----~~l-------  234 (539)
T PF04184_consen  172 QEIMQKAWRERNPQARIKAA----KEALEINPDCADAYILLA--EEEASTIVEAEELLRQAVKAGE----ASL-------  234 (539)
T ss_pred             HHHHHHHHhcCCHHHHHHHH----HHHHHhhhhhhHHHhhcc--cccccCHHHHHHHHHHHHHHHH----Hhh-------
Confidence            44444446777777666663    222222222233332222  2234567888888888776531    111       


Q ss_pred             HcCCChHHH-HHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-cCHHhHHHHHHHHHccCChH
Q 017234          154 LCSGDVVTA-LSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFS-VNVQTYESLIHGSLKARDFD  231 (375)
Q Consensus       154 ~~~g~~~~a-~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~g~~~  231 (375)
                       +.....+. -..++.... ....|-..+-..+..++-+.|+.++|.+.|.+|.+.... -+......|+.++...+.+.
T Consensus       235 -g~s~~~~~~g~~~e~~~~-Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Ya  312 (539)
T PF04184_consen  235 -GKSQFLQHHGHFWEAWHR-RDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYA  312 (539)
T ss_pred             -chhhhhhcccchhhhhhc-cccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHH
Confidence             11000000 011122222 222233333445666777889999999999998765322 24557788899999999999


Q ss_pred             HHHHHHHHHHHCCCCCC--HHHHHHHHHHHH
Q 017234          232 SVDRFYEEMMSLGIIPS--IPILEKVLEGLC  260 (375)
Q Consensus       232 ~a~~~~~~m~~~~~~p~--~~~~~~li~~~~  260 (375)
                      ++..++.+-.+... |.  ..+|+..+-.+.
T Consensus       313 d~q~lL~kYdDi~l-pkSAti~YTaALLkaR  342 (539)
T PF04184_consen  313 DVQALLAKYDDISL-PKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHhccccC-CchHHHHHHHHHHHHH
Confidence            99998888654332 33  356666554433

The molecular function of this protein is uncertain.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.85  E-value=2.2  Score=36.49  Aligned_cols=145  Identities=13%  Similarity=0.053  Sum_probs=73.8

Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 017234          188 GFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDR  267 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  267 (375)
                      .....|+..+|...|+...+.... +...--.+..+|...|+.+.|..++..+...--.........-|..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            345566677777777766665433 3445556666777777777777777666443211111222222333334444444


Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCC
Q 017234          268 VKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDR  336 (375)
Q Consensus       268 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  336 (375)
                      ...+-++.-..  +-|...-..+...+...|+.+.|.+.+-.+..++..-..... -..++..+.--|.
T Consensus       222 ~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~-Rk~lle~f~~~g~  287 (304)
T COG3118         222 IQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEA-RKTLLELFEAFGP  287 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHH-HHHHHHHHHhcCC
Confidence            44444443332  225555566666677777777776666555444322211111 3445555555553

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.72  E-value=2.2  Score=35.78  Aligned_cols=190  Identities=13%  Similarity=0.151  Sum_probs=98.2

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHH
Q 017234          144 AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKP-NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIH  222 (375)
Q Consensus       144 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  222 (375)
                      ..|+.-+. -.+.|++++|.+.|+.+..+....| ...+.-.++-++.+.+++++|...+++.....+.....-|-.-|.
T Consensus        36 ~LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Ylk  114 (254)
T COG4105          36 ELYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLK  114 (254)
T ss_pred             HHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHH
Confidence            34444443 3467888888888888876433222 223444566677788888888888888776644433344555555


Q ss_pred             HHHcc-------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 017234          223 GSLKA-------RDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYC  295 (375)
Q Consensus       223 ~~~~~-------g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  295 (375)
                      +++..       .|...+.+-|..+.+            ++.-|=.+.-...|..-+..+...   . ..-=-.+.+.|.
T Consensus       115 gLs~~~~i~~~~rDq~~~~~A~~~f~~------------~i~ryPnS~Ya~dA~~~i~~~~d~---L-A~~Em~IaryY~  178 (254)
T COG4105         115 GLSYFFQIDDVTRDQSAARAAFAAFKE------------LVQRYPNSRYAPDAKARIVKLNDA---L-AGHEMAIARYYL  178 (254)
T ss_pred             HHHHhccCCccccCHHHHHHHHHHHHH------------HHHHCCCCcchhhHHHHHHHHHHH---H-HHHHHHHHHHHH
Confidence            55422       233333333333321            111111222222222222222110   0 000112456677


Q ss_pred             HcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          296 ELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       296 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      +.|.+..|..-+++|.+.-......-...-.+..+|...|-.++|.+.-.-+...
T Consensus       179 kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         179 KRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            7777777777777777653222222222555667777777777777766555443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.72  E-value=3.5  Score=38.08  Aligned_cols=82  Identities=12%  Similarity=0.087  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHH
Q 017234          249 IPILEKVLEGLCARRKLDRVKSFLKFLLGGG-WKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGI  327 (375)
Q Consensus       249 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  327 (375)
                      ..+-..+..++-+.|+.++|.+.+++|.+.. ...+..+...|+.++...+.+.++..++.+-.+-. -|...+..|+..
T Consensus       259 ~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~-lpkSAti~YTaA  337 (539)
T PF04184_consen  259 VYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDIS-LPKSATICYTAA  337 (539)
T ss_pred             hhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcccc-CCchHHHHHHHH
Confidence            3333445556667777777777777776432 11234456667777777777777777777664321 233344336655


Q ss_pred             HHHH
Q 017234          328 IRLY  331 (375)
Q Consensus       328 i~~~  331 (375)
                      +-.+
T Consensus       338 LLka  341 (539)
T PF04184_consen  338 LLKA  341 (539)
T ss_pred             HHHH
Confidence            5433

The molecular function of this protein is uncertain.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.48  E-value=0.51  Score=40.34  Aligned_cols=78  Identities=19%  Similarity=0.185  Sum_probs=55.3

Q ss_pred             hcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHH-----CCCCCCHHHHHH
Q 017234          180 KTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMS-----LGIIPSIPILEK  254 (375)
Q Consensus       180 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~~~~  254 (375)
                      .++..++..+...|+.+.+.+.++++....+. +...|..++.+|.+.|+...|++.|+.+..     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            35666777777777888888888887777654 777788888888888888888877777765     366666555554


Q ss_pred             HHHH
Q 017234          255 VLEG  258 (375)
Q Consensus       255 li~~  258 (375)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4444

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.44  E-value=1.5  Score=33.28  Aligned_cols=74  Identities=12%  Similarity=0.102  Sum_probs=39.9

Q ss_pred             HHcCCChHHHHHHHHHHHhCCCCCCC-hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHc
Q 017234          153 CLCSGDVVTALSLFEIMVSSEEYKPN-SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLK  226 (375)
Q Consensus       153 ~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  226 (375)
                      ..+.|++++|.+.|+.+..+....|- ..+--.++.+|.+.+++++|...+++..+.++.---.-|-..+.+++.
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            34566677777776666653222221 123335566666677777777777666665543333344444444443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.34  E-value=1.3  Score=39.55  Aligned_cols=97  Identities=13%  Similarity=0.108  Sum_probs=73.0

Q ss_pred             HHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 017234          214 VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKC  293 (375)
Q Consensus       214 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  293 (375)
                      ..+++.+.-+|.+.+++.+|++.-+..++.+ ++|.-..-.=..+|...|+++.|+..|+.+++.. +-|-.+-+.|+.+
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~-P~Nka~~~el~~l  334 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLE-PSNKAARAELIKL  334 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            4567888889999999999999999988877 6777777778889999999999999999998853 3344445556665


Q ss_pred             HHHcCChHH-HHHHHHHHHh
Q 017234          294 YCELGRVDE-LEEQLETLTK  312 (375)
Q Consensus       294 ~~~~g~~~~-a~~~~~~~~~  312 (375)
                      -.+.....+ ..++|..|-.
T Consensus       335 ~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            555555444 3667777654

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=94.32  E-value=4  Score=38.89  Aligned_cols=218  Identities=8%  Similarity=0.009  Sum_probs=117.7

Q ss_pred             chHHHHHHhhcCCcchH---HHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC-----CCHH
Q 017234           39 SSNPLISRLLQVPVSQI---KTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE-----SCLD  109 (375)
Q Consensus        39 ~~~~ll~~l~~~~~~~~---~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~-----~~~~  109 (375)
                      .++..=.++.+-++.+.   ..-+++|+++|-.|+....   ... +-+|.+.+|.++|    .+.-..+.     .|..
T Consensus       600 ~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklF----k~~G~enRAlEmyTDlR  672 (1081)
T KOG1538|consen  600 DFETARKAYIRVRDLRYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLF----KRSGHENRALEMYTDLR  672 (1081)
T ss_pred             hhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHH----HHcCchhhHHHHHHHHH
Confidence            34444455555555433   3445666778888876432   122 4778888888884    32211110     1122


Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHH------HHhCCCC---CCChh
Q 017234          110 EYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEI------MVSSEEY---KPNSK  180 (375)
Q Consensus       110 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~------m~~~~~~---~~~~~  180 (375)
                      .|. ...-+...|+.++-..+.++-.+.  ..+..--.+....+...|+.++|..+.-+      +.+ -+-   ..+..
T Consensus       673 MFD-~aQE~~~~g~~~eKKmL~RKRA~W--Ar~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lid-I~rkld~~ere  748 (1081)
T KOG1538|consen  673 MFD-YAQEFLGSGDPKEKKMLIRKRADW--ARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLID-IARKLDKAERE  748 (1081)
T ss_pred             HHH-HHHHHhhcCChHHHHHHHHHHHHH--hhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHH-HHhhcchhhhh
Confidence            121 223344444444443333322211  11111112233444556666666554311      111 111   23344


Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHH----------
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIP----------  250 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~----------  250 (375)
                      +...+...+.+...+..|-++|..|-+         ...++......++|.+|..+-+...+-  .||+.          
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~  817 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAEN  817 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhh
Confidence            555555566677778888888887754         245677888999999999988776553  34432          


Q ss_pred             -HHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 017234          251 -ILEKVLEGLCARRKLDRVKSFLKFLLGG  278 (375)
Q Consensus       251 -~~~~li~~~~~~g~~~~a~~~~~~~~~~  278 (375)
                       -|...-++|-+.|+-.+|.++++++...
T Consensus       818 DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  818 DRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence             2444456777888888888888887544

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.26  E-value=2.5  Score=34.52  Aligned_cols=29  Identities=24%  Similarity=0.281  Sum_probs=15.9

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHHHh
Q 017234          143 SAVFNSLICACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus       143 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      +.+||-+.--+...|+++.|.+.|+...+
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~E  127 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLE  127 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhc
Confidence            34555555555555666666666555554

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.17  E-value=3.2  Score=36.26  Aligned_cols=157  Identities=9%  Similarity=-0.013  Sum_probs=112.2

Q ss_pred             HHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC---CCCcCHHhHHHHHHHHHccCC
Q 017234          153 CLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAA---GFSVNVQTYESLIHGSLKARD  229 (375)
Q Consensus       153 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~g~  229 (375)
                      ..-.|++.+|-..++++.+  ..+.|...++-.=.+|.-.|+.+.-...+++....   +++.....-....-++...|-
T Consensus       113 ~~~~g~~h~a~~~wdklL~--d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  113 LWGRGKHHEAAIEWDKLLD--DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             hhccccccHHHHHHHHHHH--hCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhcc
Confidence            3467888888888888886  46778888888889999999999888888887654   222223333344445567899


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCcCHHHHHHHHHHHHHcCChHHHHHH
Q 017234          230 FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG---GWKINENMAQKLVKCYCELGRVDELEEQ  306 (375)
Q Consensus       230 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a~~~  306 (375)
                      +++|++.-++..+-+ +.|...-.++...+-..|++.++.+++.+-...   +.-.-..-|-...-.+...+.++.|+.+
T Consensus       191 y~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  191 YDDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEI  269 (491)
T ss_pred             chhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHH
Confidence            999999888888766 567777778888888889999999887765432   1111122344455566777899999999


Q ss_pred             HHHHHh
Q 017234          307 LETLTK  312 (375)
Q Consensus       307 ~~~~~~  312 (375)
                      |+.=.-
T Consensus       270 yD~ei~  275 (491)
T KOG2610|consen  270 YDREIW  275 (491)
T ss_pred             HHHHHH
Confidence            976443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.16  E-value=2.2  Score=33.48  Aligned_cols=153  Identities=14%  Similarity=0.116  Sum_probs=98.8

Q ss_pred             CChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCH-HhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHH-HHHH
Q 017234          177 PNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNV-QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIP-ILEK  254 (375)
Q Consensus       177 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~  254 (375)
                      .+...|..-++ ..+.+..++|+.-|.++.+.|...=+ -.-.-........|+...|...|++.-.....|-.. -...
T Consensus        57 ~sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~AR  135 (221)
T COG4649          57 KSGDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLAR  135 (221)
T ss_pred             cchHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHH
Confidence            44556666655 35667888899999988887654211 112223345667888899999999887765445432 2222


Q ss_pred             HHH--HHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHH
Q 017234          255 VLE--GLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRL  330 (375)
Q Consensus       255 li~--~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~  330 (375)
                      |=.  .+...|-++.+..-.+.+-..+-+.-...-..|--+-.+.|++.+|.+.|+.+......|......-+.+++.
T Consensus       136 lraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~aprnirqRAq~mldl  213 (221)
T COG4649         136 LRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPRNIRQRAQIMLDL  213 (221)
T ss_pred             HHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcHHHHHHHHHHHHH
Confidence            322  3457788888888777776655444455566777777788999999999988887666665544333444443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.14  E-value=2.6  Score=34.25  Aligned_cols=64  Identities=14%  Similarity=-0.003  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHC-CCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHh
Q 017234          108 LDEYACLIALSGKVQNVPFAMHVFTSMEAQ-GIKPDSAVFNSLICACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus       108 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      ...+......+...+++..+...+...... ........+......+...+++..+.+.+.....
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALA  123 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            344444444555555555555555444431 1122333444444444444445555555554443

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.08  E-value=3.2  Score=35.07  Aligned_cols=48  Identities=8%  Similarity=0.086  Sum_probs=21.8

Q ss_pred             ChhHHHHHHHHHHHCCCCcCHh---HHHHHHHHHHcCCChHHHHHHHHHHH
Q 017234          123 NVPFAMHVFTSMEAQGIKPDSA---VFNSLICACLCSGDVVTALSLFEIMV  170 (375)
Q Consensus       123 ~~~~a~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g~~~~a~~~~~~m~  170 (375)
                      .+++|+.-|.+..+..-.....   ..-.+|....+.|++++....|.++.
T Consensus        42 ~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlL   92 (440)
T KOG1464|consen   42 EPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLL   92 (440)
T ss_pred             CHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            4555555555554432111111   22334455555555555555555543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=93.99  E-value=6.2  Score=38.05  Aligned_cols=203  Identities=13%  Similarity=0.122  Sum_probs=124.1

Q ss_pred             CCCHHHHHHHHHHHhccCChhHHHHHHHHHHHC-CCCc--------CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCC
Q 017234          105 ESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQ-GIKP--------DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEY  175 (375)
Q Consensus       105 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p--------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  175 (375)
                      .|.+..|..+.......-.++.|+..|-+.... |++.        +...-.+=+.  +--|++++|.++|-+|.+ .  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~--~~~g~feeaek~yld~dr-r--  763 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAEKLYLDADR-R--  763 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhhhhhhccch-h--
Confidence            477778888887777777777777777554432 2221        1111111122  224889999999988876 1  


Q ss_pred             CCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcC----HHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHH
Q 017234          176 KPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVN----VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPI  251 (375)
Q Consensus       176 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  251 (375)
                             ...+..+.+.|+|-.+.++++   ..|-..|    ...|+.+...+.....|++|.+.|..-..         
T Consensus       764 -------DLAielr~klgDwfrV~qL~r---~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~---------  824 (1189)
T KOG2041|consen  764 -------DLAIELRKKLGDWFRVYQLIR---NGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD---------  824 (1189)
T ss_pred             -------hhhHHHHHhhhhHHHHHHHHH---ccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---------
Confidence                   245667778888877666653   2222222    46788899999999999999988865432         


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHH
Q 017234          252 LEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLY  331 (375)
Q Consensus       252 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~  331 (375)
                      -...+.++.+..++++.+.+...+     +-|....-.+.+++.+.|.-++|.+.+-+-.    .|       .+.+++|
T Consensus       825 ~e~~~ecly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~p-------kaAv~tC  888 (1189)
T KOG2041|consen  825 TENQIECLYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRRS----LP-------KAAVHTC  888 (1189)
T ss_pred             hHhHHHHHHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhcc----Cc-------HHHHHHH
Confidence            124566777777777666555443     3344555566677777777777766653321    12       2235556


Q ss_pred             HhhCCHHHHHHHHHHH
Q 017234          332 ALSDRLDDVEYSVGRM  347 (375)
Q Consensus       332 ~~~g~~~~A~~~~~~m  347 (375)
                      ....+|.+|.++-++.
T Consensus       889 v~LnQW~~avelaq~~  904 (1189)
T KOG2041|consen  889 VELNQWGEAVELAQRF  904 (1189)
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            6666666666655443

>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=93.88  E-value=2  Score=32.03  Aligned_cols=139  Identities=17%  Similarity=0.172  Sum_probs=69.5

Q ss_pred             cCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 017234          191 SLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKS  270 (375)
Q Consensus       191 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  270 (375)
                      -.|..++..++..+....   .+..-||-+|.-....-+-+-..++++.+-+   -.|..          ..|++..+..
T Consensus        14 ldG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGk---iFDis----------~C~NlKrVi~   77 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGK---IFDIS----------KCGNLKRVIE   77 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGG---GS-GG----------G-S-THHHHH
T ss_pred             HhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCch----------hhcchHHHHH
Confidence            346666666666666553   2444455555544444444444444444432   12211          1222333222


Q ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          271 FLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .+..+   |  .+......-+..+...|+-+.-.++..++.+.+ .++...  .-.+..+|.+.|+..++.+++++..++
T Consensus        78 C~~~~---n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~--L~kia~Ay~klg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   78 CYAKR---N--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEF--LVKIANAYKKLGNTREANELLKEACEK  149 (161)
T ss_dssp             HHHHT---T-----HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHH--HHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             HHHHh---c--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHH--HHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            22211   1  133445555677777888888888888776422 233333  456778888888888888888888888


Q ss_pred             CCC
Q 017234          351 GLS  353 (375)
Q Consensus       351 ~~~  353 (375)
                      |+.
T Consensus       150 G~k  152 (161)
T PF09205_consen  150 GLK  152 (161)
T ss_dssp             T-H
T ss_pred             chH
Confidence            875

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.87  E-value=4.6  Score=38.85  Aligned_cols=184  Identities=14%  Similarity=0.164  Sum_probs=111.8

Q ss_pred             hHHHHHHHHHHHhCCCCCCChhcHHHHHHH-HHcCCCHHHHHHHHHHHHH-------CCCCcCHHhHHHHHHHHHccC--
Q 017234          159 VVTALSLFEIMVSSEEYKPNSKTYDAFISG-FSSLGNVDAMNKWYAANIA-------AGFSVNVQTYESLIHGSLKAR--  228 (375)
Q Consensus       159 ~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~m~~-------~~~~~~~~~~~~ll~~~~~~g--  228 (375)
                      ...|.++++...+...+.+-...=.....+ +....+.+.|+.+|+...+       .|   +.....-+..+|.+-.  
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            467888888887732211111111222333 4566789999999988766       44   3345666667776643  


Q ss_pred             ---ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH----HcCCh
Q 017234          229 ---DFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA-RRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYC----ELGRV  300 (375)
Q Consensus       229 ---~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~----~~g~~  300 (375)
                         +.+.|..+|...-+.| .|+....-..+.-... ..+...|.++|....+.|.. +..  -.+..+|.    ...+.
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 EKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAI--YRLALCYELGLGVERNL  380 (552)
T ss_pred             ccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHH--HHHHHHHHhCCCcCCCH
Confidence               6677999998888888 4665544444333333 35678999999999888832 222  22333322    34467


Q ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCC
Q 017234          301 DELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLS  353 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  353 (375)
                      +.|...+++..+.|.......   -..+..+.. ++++.+.-.+..+.+.|..
T Consensus       381 ~~A~~~~k~aA~~g~~~A~~~---~~~~~~~g~-~~~~~~~~~~~~~a~~g~~  429 (552)
T KOG1550|consen  381 ELAFAYYKKAAEKGNPSAAYL---LGAFYEYGV-GRYDTALALYLYLAELGYE  429 (552)
T ss_pred             HHHHHHHHHHHHccChhhHHH---HHHHHHHcc-ccccHHHHHHHHHHHhhhh
Confidence            788899988888873221222   222333344 7777777777777776654

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=93.84  E-value=4  Score=35.33  Aligned_cols=123  Identities=11%  Similarity=0.094  Sum_probs=66.4

Q ss_pred             hccCChhHHHHHHHHHHHCC--CCcCHh------HHHHHHHHHHcCC-ChHHHHHHHHHHHhC----C---CCCCCh---
Q 017234          119 GKVQNVPFAMHVFTSMEAQG--IKPDSA------VFNSLICACLCSG-DVVTALSLFEIMVSS----E---EYKPNS---  179 (375)
Q Consensus       119 ~~~~~~~~a~~~~~~m~~~g--~~p~~~------~~~~li~~~~~~g-~~~~a~~~~~~m~~~----~---~~~~~~---  179 (375)
                      .+.|+.+.|..++.+.....  ..|+..      .||.-... .+.+ +++.|..++++..+-    .   ...|+.   
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l-~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSL-LSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHH-HHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            46778888888887776532  233321      23333333 3344 777777777766552    0   111221   


Q ss_pred             --hcHHHHHHHHHcCCCHH---HHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC
Q 017234          180 --KTYDAFISGFSSLGNVD---AMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       180 --~~~~~ll~~~~~~~~~~---~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  243 (375)
                        .++..++.+|...+..+   +|.++++.+...... .+.++-.-+..+.+.++.+++.+++.+|...
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence              23455666666666543   445555555443322 2444445556666667777777777777665

It is also involved in sporulation [].

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=93.82  E-value=4  Score=35.30  Aligned_cols=164  Identities=10%  Similarity=0.026  Sum_probs=95.3

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCC------HHHHHHHHHHHhccC-ChhHHHHHHHHHHHC--------CCCcC---
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESC------LDEYACLIALSGKVQ-NVPFAMHVFTSMEAQ--------GIKPD---  142 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~------~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~--------g~~p~---  142 (375)
                      .++|+.+.|...+.++ +.+.....|+      ...|+.-...+ +.+ +++.|...+++..+.        ...|+   
T Consensus         4 ~~~~~~~~A~~~~~K~-~~~~~~~~~~~~~~La~~~yn~G~~l~-~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~e   81 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKA-KDLLNSLDPDMAEELARVCYNIGKSLL-SKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSE   81 (278)
T ss_pred             hhhCCHHHHHHHHHHh-hhHHhcCCcHHHHHHHHHHHHHHHHHH-HcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHH
Confidence            4778888888885432 2222122232      22333333333 445 777777666654432        12233   


Q ss_pred             --HhHHHHHHHHHHcCCCh---HHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhH
Q 017234          143 --SAVFNSLICACLCSGDV---VTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTY  217 (375)
Q Consensus       143 --~~~~~~li~~~~~~g~~---~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  217 (375)
                        ..++..++.+|...+..   ++|..+++.+....+  -...++-.-+..+.+.++.+.+.+++.+|...-. -....+
T Consensus        82 lr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~--~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~-~~e~~~  158 (278)
T PF08631_consen   82 LRLSILRLLANAYLEWDTYESVEKALNALRLLESEYG--NKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVD-HSESNF  158 (278)
T ss_pred             HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCC--CCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcc-cccchH
Confidence              24677788888887764   456777777766332  2244555666777778999999999999988632 134455


Q ss_pred             HHHHHHHHcc--CChHHHHHHHHHHHHCCCCCCH
Q 017234          218 ESLIHGSLKA--RDFDSVDRFYEEMMSLGIIPSI  249 (375)
Q Consensus       218 ~~ll~~~~~~--g~~~~a~~~~~~m~~~~~~p~~  249 (375)
                      ..++..+...  .....|...++.+....+.|..
T Consensus       159 ~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  159 DSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence            5555555222  2345666666666655445544

It is also involved in sporulation [].

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.79  E-value=0.27  Score=28.82  Aligned_cols=22  Identities=18%  Similarity=0.370  Sum_probs=8.5

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIA  207 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~  207 (375)
                      ...|.+.|++++|.++|++..+
T Consensus         8 a~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    8 ARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            3333333333333333333333

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=93.74  E-value=2.9  Score=35.80  Aligned_cols=148  Identities=10%  Similarity=0.142  Sum_probs=94.5

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHc-CC-CHHHHHHHHHHHHHC-CCCcCHHhHHHHHH
Q 017234          146 FNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSS-LG-NVDAMNKWYAANIAA-GFSVNVQTYESLIH  222 (375)
Q Consensus       146 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~-~~-~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~  222 (375)
                      |..++.   ++.-+.+|+++|+....++.+--|..+...+++.... .+ ....-.++.+-+... |-.++..+...+++
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            555553   4455677778887544323455677777777766655 22 233334444444432 34567777788888


Q ss_pred             HHHccCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-----HHhCCCCcCHHHHHHHHHHHHH
Q 017234          223 GSLKARDFDSVDRFYEEMMSL-GIIPSIPILEKVLEGLCARRKLDRVKSFLKF-----LLGGGWKINENMAQKLVKCYCE  296 (375)
Q Consensus       223 ~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~-----~~~~~~~~~~~~~~~li~~~~~  296 (375)
                      .++..++|..-.++++.-... +..-|..-|..+|..-...|+..-...+..+     +.+.|+..+...-..+-+.+.+
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~  290 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKK  290 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHh
Confidence            888888888888888776654 4455667788888888888888777777765     2445666666666666555543

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.62  E-value=2.2  Score=31.77  Aligned_cols=92  Identities=13%  Similarity=0.071  Sum_probs=51.5

Q ss_pred             HHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHH---HHHHHHHHHHcCC
Q 017234          223 GSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENM---AQKLVKCYCELGR  299 (375)
Q Consensus       223 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~~g~  299 (375)
                      ++...|+.+.|++.|.+....- +-....||.-.+++.-.|+.++|.+=+.+..+..-.-....   |..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            4556667777777666665432 23456677777777667777777666666655421112221   2222234555666


Q ss_pred             hHHHHHHHHHHHhCCC
Q 017234          300 VDELEEQLETLTKCNQ  315 (375)
Q Consensus       300 ~~~a~~~~~~~~~~~~  315 (375)
                      .+.|..=|+...+.|.
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            6666666666666553

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=93.61  E-value=0.49  Score=42.17  Aligned_cols=231  Identities=15%  Similarity=0.083  Sum_probs=136.3

Q ss_pred             HHHhccCChhHHHHHHHHHHHCCCCcCH----hHHHHHHHHHHcCCChHHHHHHHHHHHhC---CCCC-CChhcHHHHHH
Q 017234          116 ALSGKVQNVPFAMHVFTSMEAQGIKPDS----AVFNSLICACLCSGDVVTALSLFEIMVSS---EEYK-PNSKTYDAFIS  187 (375)
Q Consensus       116 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~-~~~~~~~~ll~  187 (375)
                      .-+|+.|+......+|+...+.|.. |.    .+|.-|..+|.-.+++++|+++...=...   -|-+ -...+...|.+
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            3478999999999999999998844 43    45667777888888999998875421110   0000 01111222333


Q ss_pred             HHHcCCCHHHHHHHHHH----HHHCCCC-cCHHhHHHHHHHHHccCC--------------------hHHHHHHHHHH--
Q 017234          188 GFSSLGNVDAMNKWYAA----NIAAGFS-VNVQTYESLIHGSLKARD--------------------FDSVDRFYEEM--  240 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~----m~~~~~~-~~~~~~~~ll~~~~~~g~--------------------~~~a~~~~~~m--  240 (375)
                      .+--.|.+++|.-.-.+    ..+.|-. .-...+..+.+.|...|+                    ++.|.++|.+=  
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            33444555555433221    1122111 123445556666665542                    33344444332  


Q ss_pred             --HHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH----hCCCC-cCHHHHHHHHHHHHHcCChHHHHHHHHHHH-
Q 017234          241 --MSLGI-IPSIPILEKVLEGLCARRKLDRVKSFLKFLL----GGGWK-INENMAQKLVKCYCELGRVDELEEQLETLT-  311 (375)
Q Consensus       241 --~~~~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~----~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-  311 (375)
                        .+.|- ..-...|..|-+.|.-.|+++.|....+.=+    +-|-. .....+..|.+++.-.|+++.|.+.++... 
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              22221 1122457777778888899999998876532    22311 234568889999999999999998887643 


Q ss_pred             ---hCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          312 ---KCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       312 ---~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                         +.|-..... ...-+|..+|.-...+++|+.++.+-.
T Consensus       264 LAielg~r~vEA-QscYSLgNtytll~e~~kAI~Yh~rHL  302 (639)
T KOG1130|consen  264 LAIELGNRTVEA-QSCYSLGNTYTLLKEVQKAITYHQRHL  302 (639)
T ss_pred             HHHHhcchhHHH-HHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence               222222111 125567888888888999999887654

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.55  E-value=3.9  Score=34.32  Aligned_cols=56  Identities=20%  Similarity=0.074  Sum_probs=28.2

Q ss_pred             HHHHHccCChHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 017234          221 IHGSLKARDFDSVDRFYEEMMSLG--IIPSIPILEKVLEGLCARRKLDRVKSFLKFLL  276 (375)
Q Consensus       221 l~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  276 (375)
                      .+.|.+.|.+..|..-+++|.+.-  -.-....+-.+..+|...|..++|...-+-+.
T Consensus       174 aryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~  231 (254)
T COG4105         174 ARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLG  231 (254)
T ss_pred             HHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            445556666666666666665541  01112334445555556666555555544443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.28  E-value=2.6  Score=31.40  Aligned_cols=90  Identities=9%  Similarity=0.020  Sum_probs=59.8

Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC-CCCCCHH---HHHHHHHHHHhcC
Q 017234          188 GFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL-GIIPSIP---ILEKVLEGLCARR  263 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~---~~~~li~~~~~~g  263 (375)
                      +....|+.+.|++.|.+....-++ ....||.-..++.-.|+.++|++=+++..+. |-. +..   .|..-...|...|
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 ALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhC
Confidence            456778888888888777665433 6777888888888888888887777776654 322 222   2223333455677


Q ss_pred             CHHHHHHHHHHHHhCC
Q 017234          264 KLDRVKSFLKFLLGGG  279 (375)
Q Consensus       264 ~~~~a~~~~~~~~~~~  279 (375)
                      +.+.|..=|+...+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            7788887777776665

>PRK11906 transcriptional regulator; Provisional

Probab=93.26  E-value=6.7  Score=36.08  Aligned_cols=158  Identities=5%  Similarity=-0.045  Sum_probs=88.9

Q ss_pred             hHH--HHHHHHHHcCC-----ChHHHHHHHHHHHhCCCCCCChh-cHHHHHHHHH---------cCCCHHHHHHHHHHHH
Q 017234          144 AVF--NSLICACLCSG-----DVVTALSLFEIMVSSEEYKPNSK-TYDAFISGFS---------SLGNVDAMNKWYAANI  206 (375)
Q Consensus       144 ~~~--~~li~~~~~~g-----~~~~a~~~~~~m~~~~~~~~~~~-~~~~ll~~~~---------~~~~~~~a~~~~~~m~  206 (375)
                      ..|  ...+.+.....     ..+.|+.+|.+......+.|+-. .|..+..++.         ...+..+|.+.-++..
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            455  55555554421     35678888888874334555532 2332222221         1223455666666666


Q ss_pred             HCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC--
Q 017234          207 AAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPS-IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN--  283 (375)
Q Consensus       207 ~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--  283 (375)
                      +.+.. |..+...+..+....++++.|...|++....+  || ..+|......+.-.|+.++|.+.+++..+.  .|.  
T Consensus       332 eld~~-Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~--Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~  406 (458)
T PRK11906        332 DITTV-DGKILAIMGLITGLSGQAKVSHILFEQAKIHS--TDIASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRR  406 (458)
T ss_pred             hcCCC-CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC--CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--Cchhh
Confidence            66644 67777777776677777777887787777653  43 345555555566677778877777775543  232  


Q ss_pred             -HHHHHHHHHHHHHcCChHHHHHHH
Q 017234          284 -ENMAQKLVKCYCELGRVDELEEQL  307 (375)
Q Consensus       284 -~~~~~~li~~~~~~g~~~~a~~~~  307 (375)
                       ..+....++.|+..+ ++.|.+++
T Consensus       407 ~~~~~~~~~~~~~~~~-~~~~~~~~  430 (458)
T PRK11906        407 KAVVIKECVDMYVPNP-LKNNIKLY  430 (458)
T ss_pred             HHHHHHHHHHHHcCCc-hhhhHHHH
Confidence             222333334554443 55555554

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.25  E-value=1.4  Score=37.68  Aligned_cols=79  Identities=11%  Similarity=0.108  Sum_probs=60.5

Q ss_pred             HHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCcCHHHHH
Q 017234          214 VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG-----GGWKINENMAQ  288 (375)
Q Consensus       214 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~  288 (375)
                      ..++..++..+...|+++.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            3456777888888888888888888888765 45777888888888888888888888887744     57777777766


Q ss_pred             HHHHH
Q 017234          289 KLVKC  293 (375)
Q Consensus       289 ~li~~  293 (375)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            65555

>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=93.24  E-value=0.64  Score=37.43  Aligned_cols=78  Identities=8%  Similarity=-0.043  Sum_probs=54.8

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCC-CCHHHHHHHHHHHhccCChhHHHHHHHHHHHC---CCCcCHhHHHHHHHHHHcC
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNE-SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQ---GIKPDSAVFNSLICACLCS  156 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~~~~~~~li~~~~~~  156 (375)
                      ..+..-+.|...    |-++...+. .++.....|...|. ..+.+++..++.+..+.   +-.+|+..+..|...+.+.
T Consensus       117 Wsr~~d~~A~~~----fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~  191 (203)
T PF11207_consen  117 WSRFGDQEALRR----FLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKL  191 (203)
T ss_pred             hhccCcHHHHHH----HHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHh
Confidence            445445677777    455555555 55555555555554 67888898888877643   3367889999999999999


Q ss_pred             CChHHHH
Q 017234          157 GDVVTAL  163 (375)
Q Consensus       157 g~~~~a~  163 (375)
                      |+++.|-
T Consensus       192 ~~~e~AY  198 (203)
T PF11207_consen  192 KNYEQAY  198 (203)
T ss_pred             cchhhhh
Confidence            9988874

>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=93.17  E-value=2.1  Score=34.12  Aligned_cols=98  Identities=8%  Similarity=-0.044  Sum_probs=68.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH--HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHH---HHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINE--NMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLL---HFF  324 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~---~~~  324 (375)
                      ..+..+...|++.|+.+.|.+.+.++.+....+..  ..+-.+|+.....|++..+...+.+....--.+..+.   ..-
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            56778889999999999999999998887555443  3467788888999999999988887765433322222   111


Q ss_pred             HHHHHHHHhhCCHHHHHHHHHHH
Q 017234          325 SGIIRLYALSDRLDDVEYSVGRM  347 (375)
Q Consensus       325 ~~li~~~~~~g~~~~A~~~~~~m  347 (375)
                      -.-.-.+...+++.+|-+.|-+.
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHcc
Confidence            11222335567888888888665

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.

>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=93.12  E-value=1.9  Score=34.43  Aligned_cols=97  Identities=13%  Similarity=0.058  Sum_probs=62.8

Q ss_pred             HhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCcCHHHHHH
Q 017234          215 QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPS--IPILEKVLEGLCARRKLDRVKSFLKFLLGG---GWKINENMAQK  289 (375)
Q Consensus       215 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~  289 (375)
                      ..+..+...|.+.|+.++|.+.|.++.+....+.  ...+-.+|....-.+++..+...+.+....   |-.++...--.
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            5677788888888888888888888877654443  345667777788888888888887776443   21122111111


Q ss_pred             HH--HHHHHcCChHHHHHHHHHHH
Q 017234          290 LV--KCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       290 li--~~~~~~g~~~~a~~~~~~~~  311 (375)
                      ..  -.+...|++..|-+.|-+..
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            11  12345788888888876654

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.08  E-value=1.8  Score=37.27  Aligned_cols=104  Identities=16%  Similarity=0.122  Sum_probs=59.0

Q ss_pred             CCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCC--CCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHH
Q 017234          138 GIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEE--YKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQ  215 (375)
Q Consensus       138 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~  215 (375)
                      |.+.+..+...++..-....+++.++.++-+++....  ..|+. +-.+.+..+ -.-++++++.++..=.+.|+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            4444555555555555556667777776666665110  11111 111222222 2235566777666666777777777


Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHC
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~  243 (375)
                      +++.+|+.+.+.+++.+|.++.-.|...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            7777777777777777776666655543

>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=92.98  E-value=3.5  Score=32.03  Aligned_cols=18  Identities=22%  Similarity=0.185  Sum_probs=8.9

Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 017234          260 CARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       260 ~~~g~~~~a~~~~~~~~~  277 (375)
                      ...|+|.+|.++++++.+
T Consensus        55 i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   55 IVRGDWDDALRLLRELEE   72 (160)
T ss_pred             HHhCCHHHHHHHHHHHhc
Confidence            344555555555555443

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=92.92  E-value=3.7  Score=32.24  Aligned_cols=135  Identities=13%  Similarity=0.113  Sum_probs=78.7

Q ss_pred             HHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHH
Q 017234           56 KTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSM  134 (375)
Q Consensus        56 ~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  134 (375)
                      .+.+......++.|+...|..++.. ...|++.....++       ...-.+|.......+-.+..  ....+.++=-.|
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qll-------q~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDM   84 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLL-------QYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDM   84 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH-------hhcccCCcHHHHHHHHHhHc--cChHHHHHHHHH
Confidence            4555566677888888888888888 6777766655553       12223555544444433322  233333333333


Q ss_pred             HHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC
Q 017234          135 EAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAA  208 (375)
Q Consensus       135 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  208 (375)
                      .++    =...+..+++.+...|++-+|+++.+....     .+......++.+..+.+|...-..+|+-..+.
T Consensus        85 LkR----L~~~~~~iievLL~~g~vl~ALr~ar~~~~-----~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   85 LKR----LGTAYEEIIEVLLSKGQVLEALRYARQYHK-----VDSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             HHH----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCC-----cccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            322    111355667777888888888888776533     22223356677777777766666666655554

>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=92.76  E-value=3.7  Score=31.85  Aligned_cols=51  Identities=16%  Similarity=0.180  Sum_probs=22.4

Q ss_pred             cCCCHHHHHHHHHHHHHCCCC-cCHHhHHHHHHHHHccCChHHHHHHHHHHHHC
Q 017234          191 SLGNVDAMNKWYAANIAAGFS-VNVQTYESLIHGSLKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       191 ~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  243 (375)
                      +.++.+++..++..+....+. |...++..  ..+...|+|.+|.++|+++.+.
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~--~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDLFDG--WLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHHHHH--HHHHHhCCHHHHHHHHHHHhcc
Confidence            444555555555555543221 01112222  2234455555555555555443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.66  E-value=0.3  Score=27.12  Aligned_cols=25  Identities=8%  Similarity=0.072  Sum_probs=20.5

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          324 FSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       324 ~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      |+.|...|.+.|++++|+.+|++..
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            6788888999999999999998855

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=92.53  E-value=7.4  Score=34.75  Aligned_cols=65  Identities=15%  Similarity=0.090  Sum_probs=39.4

Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          213 NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIP---SIPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       213 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      ...+|..+...+.+.|.++.|...+..+...+..+   +......-+...-..|+.++|...++...+
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            45566677777777777777777777776543111   223333344455566777777777766655

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.52  E-value=4.3  Score=31.95  Aligned_cols=130  Identities=12%  Similarity=0.095  Sum_probs=53.6

Q ss_pred             cHHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHH--HHHHHHHhccCChhHHHHHHHHHHHCCCCcCHh-HHH--
Q 017234           73 SWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEY--ACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSA-VFN--  147 (375)
Q Consensus        73 ~~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~--~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~--  147 (375)
                      .|..-++..+.+..++|+.-    |..+.+.|..+-.+.  -.......+.|+...|...|++.-...-.|-.. -..  
T Consensus        61 ~flaAL~lA~~~k~d~Alaa----f~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          61 AFLAALKLAQENKTDDALAA----FTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             HHHHHHHHHHcCCchHHHHH----HHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            34444444455555555555    344444443221111  122223445555555555555554432222111 000  


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 017234          148 SLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIA  207 (375)
Q Consensus       148 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  207 (375)
                      .-.-.+...|.+++.....+-+-. .+-+.-...-..|.-+-.+.|++.+|.++|..+..
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~-d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAG-DGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccC-CCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            001123344555555555444443 22222222233444444555555555555555443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=92.24  E-value=0.6  Score=27.28  Aligned_cols=27  Identities=15%  Similarity=0.281  Sum_probs=14.0

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHC
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~  243 (375)
                      +..+...|...|++++|.++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444455555555555555555555544

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=91.81  E-value=8.9  Score=34.03  Aligned_cols=228  Identities=11%  Similarity=0.034  Sum_probs=123.1

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHH----HHHHHCC-CCcCHhHHHHHHHHHHc
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVF----TSMEAQG-IKPDSAVFNSLICACLC  155 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~----~~m~~~g-~~p~~~~~~~li~~~~~  155 (375)
                      +.+.+.++++..+...+++... ...--.+|..+..+.++.|.+++++..-    +...+.. -..-...|..+-+++-+
T Consensus        17 y~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   17 YQSNQTEKALQVWTKVLEKLSD-LMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             hcCchHHHHHHHHHHHHHHHHH-HHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4666777777775433333211 1133456677777777777776654322    2221110 01123355556666656


Q ss_pred             CCChHHHHHHHHHHHhCCCCCCCh---hcHHHHHHHHHcCCCHHHHHHHHHHHHHCC-----CCcCHHhHHHHHHHHHcc
Q 017234          156 SGDVVTALSLFEIMVSSEEYKPNS---KTYDAFISGFSSLGNVDAMNKWYAANIAAG-----FSVNVQTYESLIHGSLKA  227 (375)
Q Consensus       156 ~g~~~~a~~~~~~m~~~~~~~~~~---~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~~~~~~~~~ll~~~~~~  227 (375)
                      ..++.+++.+-..-....|..|..   ...-++..++...+.++++++.|+...+.-     ......+|-.|-..|.+.
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            566666666655554434444421   122345566667777888888887654321     111245677777888888


Q ss_pred             CChHHHHHHHHHHHH----CCCCCCHHHHHH-----HHHHHHhcCCHHHHHHHHHHH----HhCCCCc-CHHHHHHHHHH
Q 017234          228 RDFDSVDRFYEEMMS----LGIIPSIPILEK-----VLEGLCARRKLDRVKSFLKFL----LGGGWKI-NENMAQKLVKC  293 (375)
Q Consensus       228 g~~~~a~~~~~~m~~----~~~~p~~~~~~~-----li~~~~~~g~~~~a~~~~~~~----~~~~~~~-~~~~~~~li~~  293 (375)
                      .|+++|.-+..+..+    .++..-..-|..     |.-++...|.+..|.+.-++.    ++.|-.+ -......+.+.
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            888887765544432    232221222332     233455667766666665554    3334221 22334456677


Q ss_pred             HHHcCChHHHHHHHHH
Q 017234          294 YCELGRVDELEEQLET  309 (375)
Q Consensus       294 ~~~~g~~~~a~~~~~~  309 (375)
                      |...|+.+.|+.-++.
T Consensus       256 yR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQ  271 (518)
T ss_pred             HHhcccHhHHHHHHHH
Confidence            7888888877776665

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=91.67  E-value=6.2  Score=31.94  Aligned_cols=225  Identities=14%  Similarity=0.064  Sum_probs=127.2

Q ss_pred             cCChhHHHHHHHHHHHCCCC-cCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHH
Q 017234          121 VQNVPFAMHVFTSMEAQGIK-PDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMN  199 (375)
Q Consensus       121 ~~~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  199 (375)
                      .+....+...+......... .....+......+...+++..+...+...............+......+...+....+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            34445555555555443211 13456666667777777777777777666531012344455556666666667777777


Q ss_pred             HHHHHHHHCCCCcCHHhHHHHHH-HHHccCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 017234          200 KWYAANIAAGFSVNVQTYESLIH-GSLKARDFDSVDRFYEEMMSLGI--IPSIPILEKVLEGLCARRKLDRVKSFLKFLL  276 (375)
Q Consensus       200 ~~~~~m~~~~~~~~~~~~~~ll~-~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  276 (375)
                      +.+.........+ ......... .+...|+++.|...+.+......  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            7777776654332 122222222 56777777777777777654221  1123334444444566777777777777776


Q ss_pred             hCCCCc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          277 GGGWKI-NENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       277 ~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ... .. ....+..+...+...++++.|...+......... ....  +..+...+...|..+++...+.+....
T Consensus       195 ~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         195 KLN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEA--LYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             hhC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHH--HhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            643 22 3566666777777777777777777777664322 1111  333333344556677777776666543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.52  E-value=0.45  Score=26.42  Aligned_cols=23  Identities=26%  Similarity=0.275  Sum_probs=10.9

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHH
Q 017234          146 FNSLICACLCSGDVVTALSLFEI  168 (375)
Q Consensus       146 ~~~li~~~~~~g~~~~a~~~~~~  168 (375)
                      |+.|...|.+.|++++|+++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            34444455555555555555544

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.47  E-value=6.3  Score=38.75  Aligned_cols=177  Identities=17%  Similarity=0.177  Sum_probs=119.3

Q ss_pred             HHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHH----HHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHH
Q 017234          109 DEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNS----LICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDA  184 (375)
Q Consensus       109 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~----li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~  184 (375)
                      .....-+....+...++.|..+-..   .+.  +..+...    ..+-+.+.|++++|...|-+-..  -+.|.     .
T Consensus       335 k~le~kL~iL~kK~ly~~Ai~LAk~---~~~--d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~--~le~s-----~  402 (933)
T KOG2114|consen  335 KDLETKLDILFKKNLYKVAINLAKS---QHL--DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIG--FLEPS-----E  402 (933)
T ss_pred             ccHHHHHHHHHHhhhHHHHHHHHHh---cCC--CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcc--cCChH-----H
Confidence            3455677788888888888776543   222  3333333    34445678999999988877764  23332     3


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcC
Q 017234          185 FISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGII-PSIPILEKVLEGLCARR  263 (375)
Q Consensus       185 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~g  263 (375)
                      ++.-|....+..+-..+++.+.+.|+. +...-..|+.+|.+.++.++-.++.+.-. .|.. .|   ....+..|.+.+
T Consensus       403 Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~~fd---~e~al~Ilr~sn  477 (933)
T KOG2114|consen  403 VIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEWFFD---VETALEILRKSN  477 (933)
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccceeee---HHHHHHHHHHhC
Confidence            455556667778888889999999986 77788899999999999998777766554 3322 23   445666677777


Q ss_pred             CHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 017234          264 KLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETL  310 (375)
Q Consensus       264 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  310 (375)
                      -.++|..+-.....     +......++   -..|++++|.+.+..+
T Consensus       478 yl~~a~~LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  478 YLDEAELLATKFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             hHHHHHHHHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            77777766554432     344444444   4568899999988765

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.35  E-value=7.7  Score=32.43  Aligned_cols=55  Identities=9%  Similarity=0.075  Sum_probs=31.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCcCHHHHHHHHHHHHHcCChHHHHHHH
Q 017234          252 LEKVLEGLCARRKLDRVKSFLKFLLGGG---WKINENMAQKLVKCYCELGRVDELEEQL  307 (375)
Q Consensus       252 ~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~  307 (375)
                      |...|-.+.-..++..|...++.--+.+   -.-+..+...|+.+| ..|+.+++.+++
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            4444445555667777777776643321   123455666677666 346666665554

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.34  E-value=3.2  Score=40.67  Aligned_cols=138  Identities=9%  Similarity=0.026  Sum_probs=88.6

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVV  160 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  160 (375)
                      +..|++++|...+   ++.+. .-.|     ..+|.-|....++..--..++.+.+.|+. +...-..|+.+|.+.++.+
T Consensus       379 y~Kgdf~~A~~qY---I~tI~-~le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~  448 (933)
T KOG2114|consen  379 YGKGDFDEATDQY---IETIG-FLEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVE  448 (933)
T ss_pred             HhcCCHHHHHHHH---HHHcc-cCCh-----HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchH
Confidence            4889999998885   33322 1112     24677778888888888889999998876 6777788999999999988


Q ss_pred             HHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 017234          161 TALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       161 ~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      +-.++.+.-.+  |..  ..-....+..+.+.+-.++|.-+-.....     +......++.   ..|++++|++.+..+
T Consensus       449 kL~efI~~~~~--g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~ille---~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  449 KLTEFISKCDK--GEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDILLE---DLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHhcCCC--cce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHHHH---HhcCHHHHHHHHhcC
Confidence            87777665542  111  11234556666666666666555433322     3333444443   556677777766544

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=91.16  E-value=20  Score=36.95  Aligned_cols=110  Identities=18%  Similarity=0.123  Sum_probs=65.8

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHH--HHHHHHHH
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENM--AQKLVKCY  294 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--~~~li~~~  294 (375)
                      |.+....+...+.+++|.-.|+..-+         ....+.+|...|+|.+|..+..++...   -|...  -..|+.-+
T Consensus       942 ~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L 1009 (1265)
T KOG1920|consen  942 YEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRL 1009 (1265)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHH
Confidence            33344444556777777666654321         234566777888888888887776432   12222  25567777


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          295 CELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       295 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      ...++.-+|-++..+....          ..-.+..|++...|++|.++...-.
T Consensus      1010 ~e~~kh~eAa~il~e~~sd----------~~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1010 VEQRKHYEAAKILLEYLSD----------PEEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHcccchhHHHHHHHHhcC----------HHHHHHHHhhHhHHHHHHHHHHhcc
Confidence            7788888777777665431          2233455667777777776665443

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.00  E-value=8.9  Score=32.53  Aligned_cols=206  Identities=13%  Similarity=0.108  Sum_probs=117.4

Q ss_pred             hccCCCCcccHHHHHHH--HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHH---CC
Q 017234           64 IFAFNSSQFSWDALITS--LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEA---QG  138 (375)
Q Consensus        64 ~~~~~p~~~~~~~li~~--~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~g  138 (375)
                      ..+..||+..=|..-++  .+..++++|+..|+.+++.--..|.-.-.+.-.+|....+.+++++...-+.++..   ..
T Consensus        19 ds~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSA   98 (440)
T KOG1464|consen   19 DSNSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSA   98 (440)
T ss_pred             ccCCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHH
Confidence            45677888777766666  57778888888865444322222223344556678888888888888877777652   11


Q ss_pred             CC--cCHhHHHHHHHHHHcCCChHHHHHHHHHHHh----CCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCC--
Q 017234          139 IK--PDSAVFNSLICACLCSGDVVTALSLFEIMVS----SEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGF--  210 (375)
Q Consensus       139 ~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--  210 (375)
                      +.  -+..+.|++++-...+.+.+-...+|+.-.+    ..+-+.--.|-+-|...|...+++.+..++++++.+.--  
T Consensus        99 VTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~e  178 (440)
T KOG1464|consen   99 VTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTE  178 (440)
T ss_pred             HhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccc
Confidence            21  2455677777766666555444444432221    000111122334667777777887777777777754311  


Q ss_pred             --C-------cCHHhHHHHHHHHHccCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHH-----hcCCHHHHHH
Q 017234          211 --S-------VNVQTYESLIHGSLKARDFDSVDRFYEEMMSL-GIIPSIPILEKVLEGLC-----ARRKLDRVKS  270 (375)
Q Consensus       211 --~-------~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~-----~~g~~~~a~~  270 (375)
                        .       .-...|..=|..|...++-.....+|+....- ..-|.+.... +|.-|.     +.|++++|-.
T Consensus       179 dGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhT  252 (440)
T KOG1464|consen  179 DGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHT  252 (440)
T ss_pred             cCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHh
Confidence              0       12345666677777777766666777665432 2234444333 333332     5567776643

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=90.51  E-value=2.7  Score=29.66  Aligned_cols=49  Identities=10%  Similarity=0.019  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          265 LDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       265 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      .-+..+-+..+....+.|++.+..+.+++|.+.+++..|.++|+.++.+
T Consensus        26 ~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   26 GWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3456666667777777888888888888888888888888888877754

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.47  E-value=3  Score=29.15  Aligned_cols=49  Identities=10%  Similarity=0.047  Sum_probs=35.8

Q ss_pred             CHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          264 KLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       264 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      +.-++.+-+..+....+.|++.+..+-+++|.+.+++..|.++|+.++.
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4555666666666667777777777777888788888888877777664

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.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=90.24  E-value=11  Score=32.38  Aligned_cols=130  Identities=12%  Similarity=0.097  Sum_probs=91.2

Q ss_pred             CCCHHHHHHHHHHHHH-CCCCcCHHhHHHHHHHHHc-cC-ChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHH
Q 017234          192 LGNVDAMNKWYAANIA-AGFSVNVQTYESLIHGSLK-AR-DFDSVDRFYEEMMSL-GIIPSIPILEKVLEGLCARRKLDR  267 (375)
Q Consensus       192 ~~~~~~a~~~~~~m~~-~~~~~~~~~~~~ll~~~~~-~g-~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~  267 (375)
                      +..+.+|+.+|+.... ..+--|..+...+++.... .+ ....-.++.+-+... +-.++..+...++..++..+++.+
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            3445677777773322 2233477777777777665 22 233334444444433 457888899999999999999999


Q ss_pred             HHHHHHHHHhC-CCCcCHHHHHHHHHHHHHcCChHHHHHHHHH-----HHhCCCCCchHH
Q 017234          268 VKSFLKFLLGG-GWKINENMAQKLVKCYCELGRVDELEEQLET-----LTKCNQSPEVLL  321 (375)
Q Consensus       268 a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~-----~~~~~~~~~~~~  321 (375)
                      ..++|...... +..-|...|..+|+.....|+..-..++.++     ++..++..+...
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L  280 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDEL  280 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHH
Confidence            99999988766 5567888999999999999999888888776     344455554443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=90.23  E-value=6.9  Score=29.96  Aligned_cols=19  Identities=21%  Similarity=0.496  Sum_probs=9.1

Q ss_pred             HccCChHHHHHHHHHHHHC
Q 017234          225 LKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       225 ~~~g~~~~a~~~~~~m~~~  243 (375)
                      ...|+|++|.++|++..+.
T Consensus        55 i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        55 IARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHcCCHHHHHHHHHhhhcc
Confidence            3444555555555554443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.73  E-value=2.8  Score=36.21  Aligned_cols=106  Identities=18%  Similarity=0.075  Sum_probs=76.3

Q ss_pred             HhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCC----CCCHHHHHHHHHHHhccCChhHHHHHHHHHH
Q 017234           61 SVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGN----ESCLDEYACLIALSGKVQNVPFAMHVFTSME  135 (375)
Q Consensus        61 ~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  135 (375)
                      .-...|...+..+-..++.. -...+++.+...+    -++....    .|+... .++++.+.+ -+++.++.++..=.
T Consensus        54 kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~L----yKlRhs~~a~~~~~~~~-~~~irlllk-y~pq~~i~~l~npI  127 (418)
T KOG4570|consen   54 KKFERGLPVSSLTVDRLVDVISSREEIDDAEYYL----YKLRHSPNAWYLRNWTI-HTWIRLLLK-YDPQKAIYTLVNPI  127 (418)
T ss_pred             hhhhcCCCcceeehhhhhhccccccchhHHHHHH----HHHhcCcchhhhccccH-HHHHHHHHc-cChHHHHHHHhCcc
Confidence            33456677777777777776 4677888888884    3333222    133222 234444433 46778999999889


Q ss_pred             HCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhC
Q 017234          136 AQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSS  172 (375)
Q Consensus       136 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  172 (375)
                      ..|+-||.++++.+|+.+.+.+++.+|.++.-.|..+
T Consensus       128 qYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  128 QYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999988888763

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=89.47  E-value=13  Score=33.12  Aligned_cols=227  Identities=12%  Similarity=0.048  Sum_probs=132.5

Q ss_pred             ccCChhHHHHHHHHHHHCC--CCcCHhHHHHHHHHHHcCCChHHHHHHHHH----HHhCCCCCCChhcHHHHHHHHHcCC
Q 017234          120 KVQNVPFAMHVFTSMEAQG--IKPDSAVFNSLICACLCSGDVVTALSLFEI----MVSSEEYKPNSKTYDAFISGFSSLG  193 (375)
Q Consensus       120 ~~~~~~~a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~----m~~~~~~~~~~~~~~~ll~~~~~~~  193 (375)
                      ...+.++|+..|.+-..+-  ..-.-.+|..+..+.++.|.+++++..--.    ..+...-..-...|..+-.++-+.-
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            4566677777776554320  111234677788888888888877654321    1110000111234445555555555


Q ss_pred             CHHHHHHHHHHHHHC-CCCc---CHHhHHHHHHHHHccCChHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHhcCC
Q 017234          194 NVDAMNKWYAANIAA-GFSV---NVQTYESLIHGSLKARDFDSVDRFYEEMMSLG-----IIPSIPILEKVLEGLCARRK  264 (375)
Q Consensus       194 ~~~~a~~~~~~m~~~-~~~~---~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----~~p~~~~~~~li~~~~~~g~  264 (375)
                      ++.+++.+-..-... |..|   .-...-++-.++.-.+.++.+++-|+...+--     .......|..|-..|.+..|
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            555555555443322 2222   12334456677777788999999988776521     11223568888889999999


Q ss_pred             HHHHHHHHHHHHh----CCCCcCHHHH-----HHHHHHHHHcCChHHHHHHHHHHHh----CCCCCchHHHHHHHHHHHH
Q 017234          265 LDRVKSFLKFLLG----GGWKINENMA-----QKLVKCYCELGRVDELEEQLETLTK----CNQSPEVLLHFFSGIIRLY  331 (375)
Q Consensus       265 ~~~a~~~~~~~~~----~~~~~~~~~~-----~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~~~~~li~~~  331 (375)
                      +++|.-+.....+    -++..-..-|     ..+.-++...|..-+|.+.-++..+    .|-.+. .+.-.-.+.+.|
T Consensus       178 ~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~-~arc~~~~aDIy  256 (518)
T KOG1941|consen  178 YEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL-QARCLLCFADIY  256 (518)
T ss_pred             hhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH-HHHHHHHHHHHH
Confidence            9999887776543    2322212223     2344567778888888887776543    333332 222256677888


Q ss_pred             HhhCCHHHHHHHHHHH
Q 017234          332 ALSDRLDDVEYSVGRM  347 (375)
Q Consensus       332 ~~~g~~~~A~~~~~~m  347 (375)
                      ...|+.+.|+.-|++.
T Consensus       257 R~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQA  272 (518)
T ss_pred             HhcccHhHHHHHHHHH
Confidence            9999999888777654

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.20  E-value=2.8  Score=29.31  Aligned_cols=44  Identities=16%  Similarity=0.287  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHH
Q 017234          127 AMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMV  170 (375)
Q Consensus       127 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  170 (375)
                      +.+-++.+...++.|++.+..+.+++|-+.+++..|..+++-.+
T Consensus        26 ~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          26 LRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            34444444444455555555555555555555555555555444

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.19  E-value=12  Score=31.32  Aligned_cols=209  Identities=9%  Similarity=0.025  Sum_probs=113.0

Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHH
Q 017234          108 LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFIS  187 (375)
Q Consensus       108 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~  187 (375)
                      ...|.-...+|...+++++|...+.+..+. ..-+...|+       -...++.|.-+.+++.+   ++.-...|+--..
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfh-------AAKayEqaamLake~~k---lsEvvdl~eKAs~   99 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFH-------AAKAYEQAAMLAKELSK---LSEVVDLYEKASE   99 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHH-------HHHHHHHHHHHHHHHHH---hHHHHHHHHHHHH
Confidence            344666667777778888877766655421 011211111       12345566666666655   1233344566666


Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC---C--CCCCHHHHHHHHHHHHhc
Q 017234          188 GFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL---G--IIPSIPILEKVLEGLCAR  262 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~---~--~~p~~~~~~~li~~~~~~  262 (375)
                      .|..+|.++.|-..+++.-+.                ....++++|+++|.+-..-   +  ..--...+..+-..+.+.
T Consensus       100 lY~E~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl  163 (308)
T KOG1585|consen  100 LYVECGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRL  163 (308)
T ss_pred             HHHHhCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhh
Confidence            777777777666555543221                1233455555555443321   1  011122344555566677


Q ss_pred             CCHHHHHHHHHHHHhC----CCCcCH-HHHHHHHHHHHHcCChHHHHHHHHHHHhC-CCCCchHHHHHHHHHHHHHhhCC
Q 017234          263 RKLDRVKSFLKFLLGG----GWKINE-NMAQKLVKCYCELGRVDELEEQLETLTKC-NQSPEVLLHFFSGIIRLYALSDR  336 (375)
Q Consensus       263 g~~~~a~~~~~~~~~~----~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~~li~~~~~~g~  336 (375)
                      .++++|-..+..-...    .--++. ..|-..|-.|.-..++..|++.++.--+. ++..+....+...|+.+| ..|+
T Consensus       164 ~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD  242 (308)
T KOG1585|consen  164 EKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGD  242 (308)
T ss_pred             HHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCC
Confidence            7777766555443211    111222 34556666777788999999999884332 122222233378888887 6688


Q ss_pred             HHHHHHHH
Q 017234          337 LDDVEYSV  344 (375)
Q Consensus       337 ~~~A~~~~  344 (375)
                      .+++.+++
T Consensus       243 ~E~~~kvl  250 (308)
T KOG1585|consen  243 IEEIKKVL  250 (308)
T ss_pred             HHHHHHHH
Confidence            88887765

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=89.16  E-value=0.14  Score=39.15  Aligned_cols=53  Identities=13%  Similarity=0.126  Sum_probs=23.1

Q ss_pred             HHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 017234          221 IHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLK  273 (375)
Q Consensus       221 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  273 (375)
                      +..+.+.+.++....+++.+...+...+....+.++..|++.+..++...+++
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            33444444444444444444444333334444444455554444444444443

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.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=89.11  E-value=0.64  Score=25.45  Aligned_cols=21  Identities=24%  Similarity=0.482  Sum_probs=11.2

Q ss_pred             CHHhHHHHHHHHHccCChHHH
Q 017234          213 NVQTYESLIHGSLKARDFDSV  233 (375)
Q Consensus       213 ~~~~~~~ll~~~~~~g~~~~a  233 (375)
                      |..+|+.+...|...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            455555555555555555554

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=88.45  E-value=2.2  Score=28.57  Aligned_cols=49  Identities=4%  Similarity=-0.061  Sum_probs=33.3

Q ss_pred             HcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHH
Q 017234          296 ELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSV  344 (375)
Q Consensus       296 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  344 (375)
                      ..++.++|...+....+.-..+.....++..++.+|+..|+++++++.-
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566677777777776665555555555777777777777777766554

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

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=88.28  E-value=2.8  Score=29.57  Aligned_cols=44  Identities=14%  Similarity=0.270  Sum_probs=19.0

Q ss_pred             HHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHh
Q 017234          128 MHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus       128 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      .+-++.+...++.|++.+..+.+++|-+.+++..|+.+++-.+.
T Consensus        30 rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   30 RRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            33334444444445555555555555555555555555554443

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 ....

>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=88.00  E-value=7.1  Score=31.61  Aligned_cols=71  Identities=11%  Similarity=0.097  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCcCHHHHHHHHHHHHHcCChHHH
Q 017234          232 SVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG---GWKINENMAQKLVKCYCELGRVDEL  303 (375)
Q Consensus       232 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a  303 (375)
                      +|.+.|-.+...+.--++.....|...|. ..+.+++..++-+.++.   +-.+|+..+.+|+..|-+.|+++.|
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            44444444444443333333333322222 44445555554444332   1134455555555555555555444

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=87.93  E-value=22  Score=32.72  Aligned_cols=304  Identities=10%  Similarity=0.067  Sum_probs=160.4

Q ss_pred             cchHHHHHHhhcCCcchHHHHHHHhhh-ccCCCCcccHHHHHHH---HhcCChHHHHHHHHHHHHHhhcCCCC-------
Q 017234           38 SSSNPLISRLLQVPVSQIKTTLDSVDI-FAFNSSQFSWDALITS---LQSSSPKKAQLVLEWRLDKMLKGNES-------  106 (375)
Q Consensus        38 ~~~~~ll~~l~~~~~~~~~~~~~~m~~-~~~~p~~~~~~~li~~---~~~~~~~~a~~~~~~~~~~m~~~~~~-------  106 (375)
                      ...+.+|+++....-......+.+..+ .|    ...|-.+..+   ++.+.+.+|.+.+-.-.++......|       
T Consensus        47 vl~grilnAffl~nld~Me~~l~~l~~~~~----~s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~  122 (549)
T PF07079_consen   47 VLGGRILNAFFLNNLDLMEKQLMELRQQFG----KSAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQ  122 (549)
T ss_pred             HHhhHHHHHHHHhhHHHHHHHHHHHHHhcC----CchHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHH
Confidence            356677888887776655555555533 33    3345555555   59999999999865434443333322       


Q ss_pred             ----CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCC----cCHhHHHHHHHHHHcCC--------C-------hHHHH
Q 017234          107 ----CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIK----PDSAVFNSLICACLCSG--------D-------VVTAL  163 (375)
Q Consensus       107 ----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~----p~~~~~~~li~~~~~~g--------~-------~~~a~  163 (375)
                          |-..=++.+..+...|++.++..+++++...=++    -+..+||.++-.+.++-        .       ++-+.
T Consensus       123 ~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemil  202 (549)
T PF07079_consen  123 QLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMIL  202 (549)
T ss_pred             HHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHH
Confidence                2333366778889999999999999988765333    68889998776665531        1       12222


Q ss_pred             HHHHHHHhC-----CCCCCChhcHHHHHHHHHcCC--CHHHHHHHHHHHHHCCCCcCH-HhHHHHHHHHHccCChHHHHH
Q 017234          164 SLFEIMVSS-----EEYKPNSKTYDAFISGFSSLG--NVDAMNKWYAANIAAGFSVNV-QTYESLIHGSLKARDFDSVDR  235 (375)
Q Consensus       164 ~~~~~m~~~-----~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~g~~~~a~~  235 (375)
                      -+.++|...     ..+-|-...+..++....-..  +..--.++++.-...-+.|+- -+...++..+..  +.+++..
T Consensus       203 fY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~  280 (549)
T PF07079_consen  203 FYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGH  280 (549)
T ss_pred             HHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHH
Confidence            222222220     012233333333333322211  111222233322333334442 233444444444  5556555


Q ss_pred             HHHHHHHCCCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHH-------HHHHHHH----HcCCh
Q 017234          236 FYEEMMSLGIIP----SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQ-------KLVKCYC----ELGRV  300 (375)
Q Consensus       236 ~~~~m~~~~~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-------~li~~~~----~~g~~  300 (375)
                      +-+.+....+.+    -..+|..++....+.++...|.+.+.-+.-.  .|+...-.       .+.+..+    ..-+.
T Consensus       281 ~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tkl  358 (549)
T PF07079_consen  281 FCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKL  358 (549)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHH
Confidence            554443322111    2357888888888999999999888877542  34333221       1222222    11123


Q ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCC-HHHHHHHHHHHHh
Q 017234          301 DELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDR-LDDVEYSVGRMGK  349 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~  349 (375)
                      .+-..++++....++....-....-.-..-+.+.|. -+.|+.+++..+.
T Consensus       359 r~yL~lwe~~qs~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~  408 (549)
T PF07079_consen  359 RDYLNLWEEIQSYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQ  408 (549)
T ss_pred             HHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            344555666666554433222111112233455555 6778888877765

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK11906 transcriptional regulator; Provisional

Probab=87.69  E-value=23  Score=32.73  Aligned_cols=161  Identities=7%  Similarity=-0.002  Sum_probs=105.1

Q ss_pred             hcH--HHHHHHHHcCC-----CHHHHHHHHHHHHHC-CCCcC-HHhHHHHHHHHHc---------cCChHHHHHHHHHHH
Q 017234          180 KTY--DAFISGFSSLG-----NVDAMNKWYAANIAA-GFSVN-VQTYESLIHGSLK---------ARDFDSVDRFYEEMM  241 (375)
Q Consensus       180 ~~~--~~ll~~~~~~~-----~~~~a~~~~~~m~~~-~~~~~-~~~~~~ll~~~~~---------~g~~~~a~~~~~~m~  241 (375)
                      ..|  ...+.+.....     ..+.|..+|.+.... ..+|+ ...|..+..++..         ..+..+|.+.-+...
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            456  55666654422     356788899998822 23444 3344433333221         234556778888888


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchH
Q 017234          242 SLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN-ENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVL  320 (375)
Q Consensus       242 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  320 (375)
                      +.+ +-|......+..+..-.++++.+...|++....+  || ..+|........-.|+.++|.+.+++..+.  .|...
T Consensus       332 eld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~--Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~  406 (458)
T PRK11906        332 DIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS--TDIASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRR  406 (458)
T ss_pred             hcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC--CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--Cchhh
Confidence            877 5677888888887788888999999999998754  54 455666666677799999999999997764  45433


Q ss_pred             HHH-HHHHHHHHHhhCCHHHHHHHHHH
Q 017234          321 LHF-FSGIIRLYALSDRLDDVEYSVGR  346 (375)
Q Consensus       321 ~~~-~~~li~~~~~~g~~~~A~~~~~~  346 (375)
                      ... ....++.|+.. ..++|++++-+
T Consensus       407 ~~~~~~~~~~~~~~~-~~~~~~~~~~~  432 (458)
T PRK11906        407 KAVVIKECVDMYVPN-PLKNNIKLYYK  432 (458)
T ss_pred             HHHHHHHHHHHHcCC-chhhhHHHHhh
Confidence            211 33334456554 46778877744

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=87.54  E-value=22  Score=32.28  Aligned_cols=153  Identities=8%  Similarity=-0.010  Sum_probs=96.4

Q ss_pred             HHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHH--HHHcCCChHHHHHHHHHHHhCCCCCCChhcHH-----------
Q 017234          117 LSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLIC--ACLCSGDVVTALSLFEIMVSSEEYKPNSKTYD-----------  183 (375)
Q Consensus       117 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~--~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-----------  183 (375)
                      .+.-.|+.++|.++--..++..   ....+...++  ++.-.++.+.|...|++...   ..|+...-.           
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~~~~~k~le~  251 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSASMMPKKLEV  251 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhHhhhHHHHHH
Confidence            4456677777777776666543   1222333333  33445677888888887765   345543321           


Q ss_pred             --HHHHHHHcCCCHHHHHHHHHHHHHC---CCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHH---HHHHH
Q 017234          184 --AFISGFSSLGNVDAMNKWYAANIAA---GFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIP---ILEKV  255 (375)
Q Consensus       184 --~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~---~~~~l  255 (375)
                        .=.+-..+.|.+.+|.+.|.+.+..   +.+|+...|.....+..+.|+.++|+.--++...    .|..   .|..-
T Consensus       252 ~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~----iD~syikall~r  327 (486)
T KOG0550|consen  252 KKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK----IDSSYIKALLRR  327 (486)
T ss_pred             HHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh----cCHHHHHHHHHH
Confidence              2223346788888898888887764   3445667777777888888999988887776664    3322   22233


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCC
Q 017234          256 LEGLCARRKLDRVKSFLKFLLGGG  279 (375)
Q Consensus       256 i~~~~~~g~~~~a~~~~~~~~~~~  279 (375)
                      ..++...++|++|.+-++...+..
T Consensus       328 a~c~l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  328 ANCHLALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhc
Confidence            344556678888888888776643

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=87.49  E-value=6.3  Score=32.30  Aligned_cols=77  Identities=10%  Similarity=0.141  Sum_probs=59.1

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCcCHHHHHHHHHH
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG--GWKINENMAQKLVKC  293 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~  293 (375)
                      |.+..++.+.+.+...+++...++-.+.. +.|..+-..+++.+|-.|+|++|..-++-.-+.  ...+...+|..+|++
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            44566778888999999999988877764 456677888899999999999999888776543  234556678777765

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=87.33  E-value=31  Score=33.80  Aligned_cols=83  Identities=18%  Similarity=0.089  Sum_probs=33.2

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCC-CCcCHhHHHHHHHHHHcC---
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQG-IKPDSAVFNSLICACLCS---  156 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~---  156 (375)
                      +-.|+++.|++.+   ++  ......|...+.+.+..|.-.+-.....   ..+.... -.|...-+..||..|.+.   
T Consensus       269 lLtgqFE~AI~~L---~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~~  340 (613)
T PF04097_consen  269 LLTGQFEAAIEFL---YR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFEI  340 (613)
T ss_dssp             HHTT-HHHHHHHH---HT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTTT
T ss_pred             HHHhhHHHHHHHH---Hh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHhc
Confidence            4677777777774   22  1122245555555555443322222211   2222111 011124566677777663   


Q ss_pred             CChHHHHHHHHHHHh
Q 017234          157 GDVVTALSLFEIMVS  171 (375)
Q Consensus       157 g~~~~a~~~~~~m~~  171 (375)
                      .+..+|.++|--+..
T Consensus       341 td~~~Al~Y~~li~~  355 (613)
T PF04097_consen  341 TDPREALQYLYLICL  355 (613)
T ss_dssp             T-HHHHHHHHHGGGG
T ss_pred             cCHHHHHHHHHHHHH
Confidence            466777777776665

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=87.17  E-value=1.5  Score=23.58  Aligned_cols=25  Identities=24%  Similarity=0.295  Sum_probs=10.6

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHH
Q 017234          146 FNSLICACLCSGDVVTALSLFEIMV  170 (375)
Q Consensus       146 ~~~li~~~~~~g~~~~a~~~~~~m~  170 (375)
                      |..+..++...|++++|+..|++..
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al   28 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRAL   28 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHH
Confidence            3444444444444444444444443

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 ....

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=87.08  E-value=7.2  Score=27.26  Aligned_cols=60  Identities=17%  Similarity=0.118  Sum_probs=37.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHHhhcCCCCC-----HHHHHHHHHHHhccCChhHHHHHHHHHH
Q 017234           76 ALITSLQSSSPKKAQLVLEWRLDKMLKGNESC-----LDEYACLIALSGKVQNVPFAMHVFTSME  135 (375)
Q Consensus        76 ~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~  135 (375)
                      ..+.+.+.+++..|.+.+.+.++.....+.+.     ....-.+.......|++++|...+++..
T Consensus         4 ~~~~~~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi   68 (94)
T PF12862_consen    4 RYLNALRSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAI   68 (94)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            34555788888888888877777766655543     1222233444556677777777776654

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=87.04  E-value=35  Score=34.17  Aligned_cols=221  Identities=11%  Similarity=0.029  Sum_probs=126.4

Q ss_pred             hHHHHHHHhhhccCCCCcc-------cHHHHHHH--HhcCChHHHHHHHHHHHHHhhcCCC-CCHHHHHHHHHHHhccCC
Q 017234           54 QIKTTLDSVDIFAFNSSQF-------SWDALITS--LQSSSPKKAQLVLEWRLDKMLKGNE-SCLDEYACLIALSGKVQN  123 (375)
Q Consensus        54 ~~~~~~~~m~~~~~~p~~~-------~~~~li~~--~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~~~~~li~~~~~~~~  123 (375)
                      ++..++.+....-..|+..       .|+.+-..  ...|+++++.++.+....+....-. +....+..+..+..-.|+
T Consensus       433 ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~  512 (894)
T COG2909         433 EAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGE  512 (894)
T ss_pred             HHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhch
Confidence            6666666665444444322       45555444  4889999999997766665554443 678888899999999999


Q ss_pred             hhHHHHHHHHHHHCCCCcCHhHH---HHH--HHHHHcCCC--hHHHHHHHHHHHhCCCC-C----CChhcHHHHHHHHHc
Q 017234          124 VPFAMHVFTSMEAQGIKPDSAVF---NSL--ICACLCSGD--VVTALSLFEIMVSSEEY-K----PNSKTYDAFISGFSS  191 (375)
Q Consensus       124 ~~~a~~~~~~m~~~g~~p~~~~~---~~l--i~~~~~~g~--~~~a~~~~~~m~~~~~~-~----~~~~~~~~ll~~~~~  191 (375)
                      +++|..+..+..+..-.-+...+   ..+  ...+...|+  ..+....|.....+... +    +-..+...++.++.+
T Consensus       513 ~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~ll~~~~r  592 (894)
T COG2909         513 LTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQLLRAWLR  592 (894)
T ss_pred             HHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHHHHHHHH
Confidence            99999998777654222233322   222  223455673  34444445444432111 1    122344555555555


Q ss_pred             C-CCHHHHHHHHHHHHHCCCCcCHHhH--HHHHHHHHccCChHHHHHHHHHHHHCCCCC----CHHHHHHHHHH--HHhc
Q 017234          192 L-GNVDAMNKWYAANIAAGFSVNVQTY--ESLIHGSLKARDFDSVDRFYEEMMSLGIIP----SIPILEKVLEG--LCAR  262 (375)
Q Consensus       192 ~-~~~~~a~~~~~~m~~~~~~~~~~~~--~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p----~~~~~~~li~~--~~~~  262 (375)
                      . +...++..-++--......|-...+  ..|+......|+.++|...++++......+    +-.+-...++.  ....
T Consensus       593 ~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v~~~lwl~q  672 (894)
T COG2909         593 LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKVKLILWLAQ  672 (894)
T ss_pred             HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHhhHHHhccc
Confidence            2 1222333333333333333333323  367888889999999999999987643222    32232333332  2366


Q ss_pred             CCHHHHHHHHHH
Q 017234          263 RKLDRVKSFLKF  274 (375)
Q Consensus       263 g~~~~a~~~~~~  274 (375)
                      |+.+.+.....+
T Consensus       673 g~~~~a~~~l~~  684 (894)
T COG2909         673 GDKELAAEWLLK  684 (894)
T ss_pred             CCHHHHHHHHHh
Confidence            888777776655

>KOG2297 consensus Predicted translation factor, contains W2 domain [Translation, ribosomal structure and biogenesis]

Probab=87.00  E-value=19  Score=31.16  Aligned_cols=19  Identities=16%  Similarity=0.389  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHcCChHHH
Q 017234          285 NMAQKLVKCYCELGRVDEL  303 (375)
Q Consensus       285 ~~~~~li~~~~~~g~~~~a  303 (375)
                      ..|..|+.+++..|+.+-.
T Consensus       322 K~yaPLL~af~s~g~sEL~  340 (412)
T KOG2297|consen  322 KQYAPLLAAFCSQGQSELE  340 (412)
T ss_pred             HhhhHHHHHHhcCChHHHH
Confidence            3466677777777766543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=86.78  E-value=0.9  Score=24.84  Aligned_cols=25  Identities=20%  Similarity=0.137  Sum_probs=15.1

Q ss_pred             CCCCHHHHHHHHHHHhccCChhHHH
Q 017234          104 NESCLDEYACLIALSGKVQNVPFAM  128 (375)
Q Consensus       104 ~~~~~~~~~~li~~~~~~~~~~~a~  128 (375)
                      .+.|..+|+.+...+...|++++|+
T Consensus         9 ~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    9 NPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            4455666666666666666666554

>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=86.66  E-value=0.49  Score=36.16  Aligned_cols=84  Identities=7%  Similarity=0.037  Sum_probs=52.1

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcC
Q 017234          113 CLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSL  192 (375)
Q Consensus       113 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~  192 (375)
                      .++..+.+.+.+......++.+...+..-+....+.++..|++.++.++..++++..   .+     .-...++..|.+.
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~---~~-----yd~~~~~~~c~~~   83 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS---NN-----YDLDKALRLCEKH   83 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS---SS-----S-CTHHHHHHHTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc---cc-----cCHHHHHHHHHhc
Confidence            356667777777777777777776655556777788888888877767776666611   11     2223455556666


Q ss_pred             CCHHHHHHHHHH
Q 017234          193 GNVDAMNKWYAA  204 (375)
Q Consensus       193 ~~~~~a~~~~~~  204 (375)
                      |.++++.-++.+
T Consensus        84 ~l~~~a~~Ly~~   95 (143)
T PF00637_consen   84 GLYEEAVYLYSK   95 (143)
T ss_dssp             TSHHHHHHHHHC
T ss_pred             chHHHHHHHHHH
Confidence            666666655544

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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=86.56  E-value=27  Score=32.37  Aligned_cols=125  Identities=11%  Similarity=0.066  Sum_probs=83.2

Q ss_pred             HHHHhccCChhHH-HHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCC
Q 017234          115 IALSGKVQNVPFA-MHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLG  193 (375)
Q Consensus       115 i~~~~~~~~~~~a-~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~  193 (375)
                      |.--...|++..| .++++.+....-.|+.....+.|  +...|+++.+...+.....  -+..+..+...++....+.|
T Consensus       296 i~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i--~~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~  371 (831)
T PRK15180        296 ITKQLADGDIIAASQQLFAALRNQQQDPVLIQLRSVI--FSHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLA  371 (831)
T ss_pred             HHHHhhccCHHHHHHHHHHHHHhCCCCchhhHHHHHH--HHHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchh
Confidence            3334455666554 45666666554455554444433  4567888888888877764  34556677888888888899


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCC
Q 017234          194 NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLG  244 (375)
Q Consensus       194 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~  244 (375)
                      ++++|...-+-|....++ ++.....-....-..|-++++.-.|++....+
T Consensus       372 r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        372 RWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             hHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            999999888888877776 55444444444445567888888888876554

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=86.20  E-value=28  Score=32.11  Aligned_cols=112  Identities=13%  Similarity=0.129  Sum_probs=61.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHH--HHhccCChhHHHHHHHHHHHC--CCCc--------
Q 017234           74 WDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIA--LSGKVQNVPFAMHVFTSMEAQ--GIKP--------  141 (375)
Q Consensus        74 ~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~--g~~p--------  141 (375)
                      -+.+|+++-.++.+.....    +....+....+  .|-.+..  .+.+.+++..|.+.+....+.  +-.|        
T Consensus        49 ~grilnAffl~nld~Me~~----l~~l~~~~~~s--~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~  122 (549)
T PF07079_consen   49 GGRILNAFFLNNLDLMEKQ----LMELRQQFGKS--AYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQ  122 (549)
T ss_pred             hhHHHHHHHHhhHHHHHHH----HHHHHHhcCCc--hHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHH
Confidence            4456666555555554444    33333333222  2333333  345677788888877766554  2222        


Q ss_pred             ----CHhHHHHHHHHHHcCCChHHHHHHHHHHHhC---CCCCCChhcHHHHHHHHHc
Q 017234          142 ----DSAVFNSLICACLCSGDVVTALSLFEIMVSS---EEYKPNSKTYDAFISGFSS  191 (375)
Q Consensus       142 ----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~~~~~~ll~~~~~  191 (375)
                          |-..=+..++++.+.|++.++..+++++...   ....-+..+|+.++-.+++
T Consensus       123 ~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsr  179 (549)
T PF07079_consen  123 QLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSR  179 (549)
T ss_pred             HHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhH
Confidence                1122245667777888888888888877762   1122466777776555554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.17  E-value=1.9  Score=24.38  Aligned_cols=26  Identities=31%  Similarity=0.340  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHH
Q 017234          145 VFNSLICACLCSGDVVTALSLFEIMV  170 (375)
Q Consensus       145 ~~~~li~~~~~~g~~~~a~~~~~~m~  170 (375)
                      +++.+...|...|++++|..++++..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            34444444444455554444444443

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=85.59  E-value=14  Score=28.22  Aligned_cols=82  Identities=4%  Similarity=-0.038  Sum_probs=44.2

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCC-----CcCHHhHHHHHHHHHccCC-hHHHHHHHHHHHHCCCCCCHHHHHHH
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAGF-----SVNVQTYESLIHGSLKARD-FDSVDRFYEEMMSLGIIPSIPILEKV  255 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-----~~~~~~~~~ll~~~~~~g~-~~~a~~~~~~m~~~~~~p~~~~~~~l  255 (375)
                      .++++.-....+.......+++.+.....     ..+..+|.+++.+.+...- ---+..+|.-|++.+.+++..-|..+
T Consensus        42 iN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~l  121 (145)
T PF13762_consen   42 INCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCL  121 (145)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            44555555555555555555555522110     1244556666666654444 33455666666665566666666666


Q ss_pred             HHHHHhcC
Q 017234          256 LEGLCARR  263 (375)
Q Consensus       256 i~~~~~~g  263 (375)
                      |.++.+..
T Consensus       122 i~~~l~g~  129 (145)
T PF13762_consen  122 IKAALRGY  129 (145)
T ss_pred             HHHHHcCC
Confidence            66665543

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=85.58  E-value=7.4  Score=26.66  Aligned_cols=66  Identities=12%  Similarity=0.146  Sum_probs=44.5

Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHH
Q 017234          268 VKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVE  341 (375)
Q Consensus       268 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  341 (375)
                      +.++++.+.+.|+ .+......+-.+-...|+.+.|.+++..+. +|...      |..++.++...|.-+-|.
T Consensus        21 ~~~v~d~ll~~~i-lT~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg~~a------F~~Fl~aLreT~~~~LA~   86 (88)
T cd08819          21 TRDVCDKCLEQGL-LTEEDRNRIEAATENHGNESGARELLKRIV-QKEGW------FSKFLQALRETEHHELAR   86 (88)
T ss_pred             HHHHHHHHHhcCC-CCHHHHHHHHHhccccCcHHHHHHHHHHhc-cCCcH------HHHHHHHHHHcCchhhhh
Confidence            4567777777773 444445554444446688888888888887 65443      778888888888765554

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.37  E-value=2.5  Score=23.79  Aligned_cols=25  Identities=12%  Similarity=0.185  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHH
Q 017234          251 ILEKVLEGLCARRKLDRVKSFLKFL  275 (375)
Q Consensus       251 ~~~~li~~~~~~g~~~~a~~~~~~~  275 (375)
                      +++.+...|...|++++|..++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHH
Confidence            3344444444444444444444443

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.31  E-value=18  Score=29.18  Aligned_cols=130  Identities=14%  Similarity=0.139  Sum_probs=80.5

Q ss_pred             CCcccHHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCH-HHH--HHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhH
Q 017234           69 SSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCL-DEY--ACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAV  145 (375)
Q Consensus        69 p~~~~~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~-~~~--~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  145 (375)
                      --...|..++.....+.++.. ..    .+++...+..+. .++  -.+...+...|+++.|..-++.....   |....
T Consensus        52 ~AS~~Y~~~i~~~~ak~~~~~-~~----~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~  123 (207)
T COG2976          52 EASAQYQNAIKAVQAKKPKSI-AA----AEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ---TKDEN  123 (207)
T ss_pred             HHHHHHHHHHHHHhcCCchhH-HH----HHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---chhHH
Confidence            334567777777666666333 33    344444443222 222  23455678888888888888877653   22223


Q ss_pred             HH-----HHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCC
Q 017234          146 FN-----SLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAG  209 (375)
Q Consensus       146 ~~-----~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  209 (375)
                      +.     .|.+.....|.+|+|+..++...+ .+.  .......-.+.+...|+-++|..-|+...+.+
T Consensus       124 lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~-~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         124 LKALAALRLARVQLQQKKADAALKTLDTIKE-ESW--AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHhcccc-ccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            32     344566777888888888887765 222  22334455677888888888888888877765

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.96  E-value=19  Score=29.08  Aligned_cols=133  Identities=13%  Similarity=0.069  Sum_probs=83.3

Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHHhCCCCcC--HHHHH
Q 017234          213 NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILE--KVLEGLCARRKLDRVKSFLKFLLGGGWKIN--ENMAQ  288 (375)
Q Consensus       213 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~  288 (375)
                      -...|..++.... .+.. +.....+.+...+-...-.++.  .+...+...+++++|..-++..+..-..-+  ..+--
T Consensus        53 AS~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~l  130 (207)
T COG2976          53 ASAQYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAAL  130 (207)
T ss_pred             HHHHHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHH
Confidence            4455666666654 3344 4455555665532111111222  234566788899999888887764321111  12223


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          289 KLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       289 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                      .|.+.....|.+|+|..+++...+.+..+..    ...-.+.+...|+-++|..-|++.++.+
T Consensus       131 RLArvq~q~~k~D~AL~~L~t~~~~~w~~~~----~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         131 RLARVQLQQKKADAALKTLDTIKEESWAAIV----AELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHhhhHHHHHHHHhccccccHHHHH----HHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            4566777889999999999887765544321    4456678889999999999999988876

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=84.83  E-value=33  Score=31.83  Aligned_cols=123  Identities=13%  Similarity=0.093  Sum_probs=84.8

Q ss_pred             HHhcCChHHHHHHHHHHHHHhhcC-CCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCC
Q 017234           80 SLQSSSPKKAQLVLEWRLDKMLKG-NESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGD  158 (375)
Q Consensus        80 ~~~~~~~~~a~~~~~~~~~~m~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  158 (375)
                      +...|+.-.|-+.+   ++.+... +.|+....-  ...+...|+++.+.+.+....+. +.....+...+++...+.|+
T Consensus       299 ~~~~gd~~aas~~~---~~~lr~~~~~p~~i~l~--~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r  372 (831)
T PRK15180        299 QLADGDIIAASQQL---FAALRNQQQDPVLIQLR--SVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLAR  372 (831)
T ss_pred             HhhccCHHHHHHHH---HHHHHhCCCCchhhHHH--HHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhh
Confidence            37888888777764   4444322 236554443  34456789999999988776543 34466788899999999999


Q ss_pred             hHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCC
Q 017234          159 VVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGF  210 (375)
Q Consensus       159 ~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  210 (375)
                      +++|..+-..|.. ..+ .+....+......-..|-++++.-.|+++.....
T Consensus       373 ~~~a~s~a~~~l~-~ei-e~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~  422 (831)
T PRK15180        373 WREALSTAEMMLS-NEI-EDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNP  422 (831)
T ss_pred             HHHHHHHHHHHhc-ccc-CChhheeeecccHHHHhHHHHHHHHHHHHhccCC
Confidence            9999999999986 322 3333333333344566788999999998876654

>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]

Probab=84.56  E-value=27  Score=30.61  Aligned_cols=135  Identities=10%  Similarity=0.000  Sum_probs=63.9

Q ss_pred             CCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC-CCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHH----CCCCCC
Q 017234          174 EYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAA-GFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMS----LGIIPS  248 (375)
Q Consensus       174 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~----~~~~p~  248 (375)
                      .+..|...++.|..+  +..+.++-.+..++..++ |-.--...+-....-||+.||-+.|++.+++..+    .|.+.|
T Consensus        65 ~i~~D~~~l~~m~~~--neeki~eld~~iedaeenlGE~ev~ea~~~kaeYycqigDkena~~~~~~t~~ktvs~g~kiD  142 (393)
T KOG0687|consen   65 VIKLDQDLLNSMKKA--NEEKIKELDEKIEDAEENLGESEVREAMLRKAEYYCQIGDKENALEALRKTYEKTVSLGHKID  142 (393)
T ss_pred             ceeccHHHHHHHHHh--hHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhhcccchh
Confidence            344444444444432  222333333334443333 2111234455566677777777777776655543    355666


Q ss_pred             HHHHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCcCH----HHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          249 IPILEKVLEG-LCARRKLDRVKSFLKFLLGGGWKINE----NMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       249 ~~~~~~li~~-~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      +..+.+-+.. |....-+.+-.+..+.+.+.|...+.    .+|..+-  +....++.+|-.+|-+...
T Consensus       143 Vvf~~iRlglfy~D~~lV~~~iekak~liE~GgDWeRrNRlKvY~Gly--~msvR~Fk~Aa~Lfld~vs  209 (393)
T KOG0687|consen  143 VVFYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDWERRNRLKVYQGLY--CMSVRNFKEAADLFLDSVS  209 (393)
T ss_pred             hHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCChhhhhhHHHHHHHH--HHHHHhHHHHHHHHHHHcc
Confidence            5544433332 23333344444444445555543322    2333222  2345567777777665543

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.03  E-value=3.5  Score=22.09  Aligned_cols=25  Identities=8%  Similarity=-0.021  Sum_probs=10.9

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          324 FSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       324 ~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      |..+...|...|++++|+..|++.+
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al   28 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRAL   28 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHH
Confidence            3444444444444444444444443

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 ....

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=83.81  E-value=8.7  Score=31.54  Aligned_cols=77  Identities=10%  Similarity=0.004  Sum_probs=59.2

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCC--CCCCHHHHHHHHHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLG--IIPSIPILEKVLEG  258 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~  258 (375)
                      |.+..++.+.+.+...+++....+-++..+. |..+-..++..+|-.|+|++|..-++-.-...  ..+...+|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            4556677888899999999999988887654 77888899999999999999987776655432  23445667777655

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=83.57  E-value=24  Score=30.27  Aligned_cols=87  Identities=15%  Similarity=0.103  Sum_probs=55.2

Q ss_pred             HHHHHHHccCChHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH-
Q 017234          219 SLIHGSLKARDFDSVDRFYEEMMSL--GIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYC-  295 (375)
Q Consensus       219 ~ll~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-  295 (375)
                      .=|.+++..++|.+++...-.--+.  .++|.  ..-.-|-.|.+.|....+.++-..-+...-.-+..-|..++..|. 
T Consensus        88 vGIQALAEmnrWreVLsWvlqyYq~pEklPpk--IleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   88 VGIQALAEMNRWREVLSWVLQYYQVPEKLPPK--ILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcCcccCCHH--HHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHH
Confidence            3477888888888877655443322  23443  344445567888888888888777665422223334666665554 


Q ss_pred             ----HcCChHHHHHHH
Q 017234          296 ----ELGRVDELEEQL  307 (375)
Q Consensus       296 ----~~g~~~~a~~~~  307 (375)
                          =.|.+++|+++.
T Consensus       166 ~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHhccccHHHHHHHH
Confidence                478888888877

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

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.54  E-value=18  Score=34.45  Aligned_cols=133  Identities=9%  Similarity=0.002  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHH
Q 017234          108 LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFIS  187 (375)
Q Consensus       108 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~  187 (375)
                      ....+.++.-+.+.|-.++|+++         .+|+..-   .....+.|+++.|.++..+..       +..-|..|.+
T Consensus       614 k~~rt~va~Fle~~g~~e~AL~~---------s~D~d~r---Felal~lgrl~iA~~la~e~~-------s~~Kw~~Lg~  674 (794)
T KOG0276|consen  614 KEIRTKVAHFLESQGMKEQALEL---------STDPDQR---FELALKLGRLDIAFDLAVEAN-------SEVKWRQLGD  674 (794)
T ss_pred             hhhhhhHHhHhhhccchHhhhhc---------CCChhhh---hhhhhhcCcHHHHHHHHHhhc-------chHHHHHHHH
Confidence            33455666666666666666554         2232211   233346777777777765543       2445778888


Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 017234          188 GFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDR  267 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  267 (375)
                      +..+.+++..|.+.|.+...         |..|+-.+...|+-+....+-...++.| ..+.     ...+|...|++++
T Consensus       675 ~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g-~~N~-----AF~~~~l~g~~~~  739 (794)
T KOG0276|consen  675 AALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQG-KNNL-----AFLAYFLSGDYEE  739 (794)
T ss_pred             HHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhc-ccch-----HHHHHHHcCCHHH
Confidence            88888888887777765443         5556666667777666655556666655 3332     2234556777777


Q ss_pred             HHHHHHH
Q 017234          268 VKSFLKF  274 (375)
Q Consensus       268 a~~~~~~  274 (375)
                      +.+++..
T Consensus       740 C~~lLi~  746 (794)
T KOG0276|consen  740 CLELLIS  746 (794)
T ss_pred             HHHHHHh
Confidence            7766654

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=83.51  E-value=2.9  Score=22.30  Aligned_cols=23  Identities=26%  Similarity=0.195  Sum_probs=9.3

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHH
Q 017234          148 SLICACLCSGDVVTALSLFEIMV  170 (375)
Q Consensus       148 ~li~~~~~~g~~~~a~~~~~~m~  170 (375)
                      .+...+.+.|++++|.+.|++..
T Consensus         6 ~lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    6 YLGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHH
Confidence            33344444444444444444443

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 ....

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=83.44  E-value=14  Score=31.62  Aligned_cols=88  Identities=16%  Similarity=0.077  Sum_probs=55.6

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHh-CCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHc
Q 017234          148 SLICACLCSGDVVTALSLFEIMVS-SEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLK  226 (375)
Q Consensus       148 ~li~~~~~~g~~~~a~~~~~~m~~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  226 (375)
                      .=|.+++..++|.+++...-+--+ -..++|.  ....-|-.|++.+.+..+.++-..-.+.--.-+...|.++++.|..
T Consensus        88 vGIQALAEmnrWreVLsWvlqyYq~pEklPpk--IleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   88 VGIQALAEMNRWREVLSWVLQYYQVPEKLPPK--ILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcCcccCCHH--HHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHH
Confidence            346778888888887765544433 1223333  3444455678888888888777766654333345557777666554


Q ss_pred             -----cCChHHHHHHH
Q 017234          227 -----ARDFDSVDRFY  237 (375)
Q Consensus       227 -----~g~~~~a~~~~  237 (375)
                           .|.+++|+++.
T Consensus       166 ~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHhccccHHHHHHHH
Confidence                 58888888776

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=83.30  E-value=18  Score=27.70  Aligned_cols=53  Identities=13%  Similarity=0.175  Sum_probs=30.4

Q ss_pred             cCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCC
Q 017234          155 CSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAG  209 (375)
Q Consensus       155 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  209 (375)
                      ..++++++..++..|.-...-.+...+|...  .+...|+|++|..+|+++.+.+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGW--LLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHH--HHHHcCCHHHHHHHHHhhhccC
Confidence            3667777777777776522112222333333  3456777777777777776654

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.54  E-value=23  Score=33.83  Aligned_cols=97  Identities=16%  Similarity=0.135  Sum_probs=56.7

Q ss_pred             cCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 017234          191 SLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKS  270 (375)
Q Consensus       191 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  270 (375)
                      +.|+++.|.++..+.      .+..-|..|-++....|++..|.+.|.....         |..|+-.+...|+.+....
T Consensus       649 ~lgrl~iA~~la~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~  713 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEA------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAV  713 (794)
T ss_pred             hcCcHHHHHHHHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHH
Confidence            456666665554321      2566677777777777777777776655442         4456666666676666555


Q ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHH
Q 017234          271 FLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLE  308 (375)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  308 (375)
                      +-....+.| +.|.     -..+|...|+++++.+++.
T Consensus       714 la~~~~~~g-~~N~-----AF~~~~l~g~~~~C~~lLi  745 (794)
T KOG0276|consen  714 LASLAKKQG-KNNL-----AFLAYFLSGDYEECLELLI  745 (794)
T ss_pred             HHHHHHhhc-ccch-----HHHHHHHcCCHHHHHHHHH
Confidence            555555555 2222     2334556677777666654

>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=81.90  E-value=4.4  Score=21.62  Aligned_cols=26  Identities=4%  Similarity=0.098  Sum_probs=20.7

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          324 FSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       324 ~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      |..+...|...|++++|...|++..+
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            66777788888888888888887765

...

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=81.58  E-value=72  Score=33.30  Aligned_cols=92  Identities=12%  Similarity=0.033  Sum_probs=55.5

Q ss_pred             CCCHHHHHHHHHHH----HhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHH
Q 017234          246 IPSIPILEKVLEGL----CARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLL  321 (375)
Q Consensus       246 ~p~~~~~~~li~~~----~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  321 (375)
                      .|+...+..+..+|    ...+.+++|.-.|+..-+         ..--+.+|..+|+|.+|..+..++...   -+...
T Consensus       932 ~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~  999 (1265)
T KOG1920|consen  932 KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEG---KDELV  999 (1265)
T ss_pred             ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCC---HHHHH
Confidence            46665555544444    456777777777665422         122467788888888888887766431   12222


Q ss_pred             HHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          322 HFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       322 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      .+-..|+..+...++.-+|-++..+...
T Consensus      1000 ~~a~~L~s~L~e~~kh~eAa~il~e~~s 1027 (1265)
T KOG1920|consen 1000 ILAEELVSRLVEQRKHYEAAKILLEYLS 1027 (1265)
T ss_pred             HHHHHHHHHHHHcccchhHHHHHHHHhc
Confidence            1135667777777777777777666543

>PHA02875 ankyrin repeat protein; Provisional

Probab=81.56  E-value=33  Score=31.53  Aligned_cols=213  Identities=7%  Similarity=0.007  Sum_probs=100.7

Q ss_pred             HHHhhcCCcchHHHHHHHhhhccCCCCccc---HHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHH--HHHHHHHHH
Q 017234           44 ISRLLQVPVSQIKTTLDSVDIFAFNSSQFS---WDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLD--EYACLIALS  118 (375)
Q Consensus        44 l~~l~~~~~~~~~~~~~~m~~~~~~p~~~~---~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~--~~~~li~~~  118 (375)
                      +...++.|..+   ++..+.+.|..|+...   ++.|-.++..|+.+-+.-+    ++   .+..|+..  ...+.+...
T Consensus         6 L~~A~~~g~~~---iv~~Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~~v~~L----l~---~ga~~~~~~~~~~t~L~~A   75 (413)
T PHA02875          6 LCDAILFGELD---IARRLLDIGINPNFEIYDGISPIKLAMKFRDSEAIKLL----MK---HGAIPDVKYPDIESELHDA   75 (413)
T ss_pred             HHHHHHhCCHH---HHHHHHHCCCCCCccCCCCCCHHHHHHHcCCHHHHHHH----Hh---CCCCccccCCCcccHHHHH
Confidence            33344445543   3444445677776533   4444444677776544333    22   12223211  122345566


Q ss_pred             hccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcH--HHHHHHHHcCCCHH
Q 017234          119 GKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTY--DAFISGFSSLGNVD  196 (375)
Q Consensus       119 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~--~~ll~~~~~~~~~~  196 (375)
                      +..|+.+.+..+++.-....-..+..- ...+...+..|+.+    +++.+.+ .|..|+....  .+.+...+..|+.+
T Consensus        76 ~~~g~~~~v~~Ll~~~~~~~~~~~~~g-~tpL~~A~~~~~~~----iv~~Ll~-~gad~~~~~~~g~tpLh~A~~~~~~~  149 (413)
T PHA02875         76 VEEGDVKAVEELLDLGKFADDVFYKDG-MTPLHLATILKKLD----IMKLLIA-RGADPDIPNTDKFSPLHLAVMMGDIK  149 (413)
T ss_pred             HHCCCHHHHHHHHHcCCcccccccCCC-CCHHHHHHHhCCHH----HHHHHHh-CCCCCCCCCCCCCCHHHHHHHcCCHH
Confidence            678888776655543211100111111 23344455667664    3344444 4555543221  12333445667765


Q ss_pred             HHHHHHHHHHHCCCCcC---HHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHhcCCHHHHHH
Q 017234          197 AMNKWYAANIAAGFSVN---VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPI---LEKVLEGLCARRKLDRVKS  270 (375)
Q Consensus       197 ~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~---~~~li~~~~~~g~~~~a~~  270 (375)
                      -+    +.+.+.|..++   ....+.+ ...+..|+.+    +.+.+.+.|..++...   ..+.+...+..|+.+-   
T Consensus       150 ~v----~~Ll~~g~~~~~~d~~g~TpL-~~A~~~g~~e----iv~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~i---  217 (413)
T PHA02875        150 GI----ELLIDHKACLDIEDCCGCTPL-IIAMAKGDIA----ICKMLLDSGANIDYFGKNGCVAALCYAIENNKIDI---  217 (413)
T ss_pred             HH----HHHHhcCCCCCCCCCCCCCHH-HHHHHcCCHH----HHHHHHhCCCCCCcCCCCCCchHHHHHHHcCCHHH---
Confidence            43    34445555443   2233333 3344556654    3445566666665422   1244444456676654   


Q ss_pred             HHHHHHhCCCCcCHH
Q 017234          271 FLKFLLGGGWKINEN  285 (375)
Q Consensus       271 ~~~~~~~~~~~~~~~  285 (375)
                       .+.+.+.|..++..
T Consensus       218 -v~~Ll~~gad~n~~  231 (413)
T PHA02875        218 -VRLFIKRGADCNIM  231 (413)
T ss_pred             -HHHHHHCCcCcchH
Confidence             44555677666653

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=81.48  E-value=5  Score=21.31  Aligned_cols=24  Identities=4%  Similarity=-0.135  Sum_probs=10.5

Q ss_pred             HHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          325 SGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       325 ~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      ..+...+...|++++|++.|++..
T Consensus         5 ~~lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    5 YYLGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHH
Confidence            334444444444444444444443

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 ....

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=81.09  E-value=4.2  Score=23.81  Aligned_cols=23  Identities=30%  Similarity=0.602  Sum_probs=11.7

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHh
Q 017234          290 LVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       290 li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      |..+|...|+.+.|.++++++..
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            34455555555555555555543

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.94  E-value=32  Score=28.77  Aligned_cols=25  Identities=8%  Similarity=0.127  Sum_probs=15.8

Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCC
Q 017234          293 CYCELGRVDELEEQLETLTKCNQSP  317 (375)
Q Consensus       293 ~~~~~g~~~~a~~~~~~~~~~~~~~  317 (375)
                      .-...+++.+|.++|+++.......
T Consensus       163 yaa~leqY~~Ai~iyeqva~~s~~n  187 (288)
T KOG1586|consen  163 YAAQLEQYSKAIDIYEQVARSSLDN  187 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccc
Confidence            3345677777777777776654433

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=80.87  E-value=50  Score=31.04  Aligned_cols=180  Identities=12%  Similarity=0.086  Sum_probs=119.0

Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          106 SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       106 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      .|-...-+++..+++....+-++.+..+|...|  -+-..|..++.+|..+ ..++-..+|+++.+ .  .-+......-
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve-~--dfnDvv~~Re  137 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVE-Y--DFNDVVIGRE  137 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHH-h--cchhHHHHHH
Confidence            456667788889998888888999999998875  4677888889998888 66778888888887 3  3334444444


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCc--C---HHhHHHHHHHHHccCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSV--N---VQTYESLIHGSLKARDFDSVDRFYEEMMSL-GIIPSIPILEKVLEGL  259 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~--~---~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~  259 (375)
                      +.-+...++...+...|.+...+-++.  +   ...|.-+...-  -.+.+..+++..++... |..--...+.-+-.-|
T Consensus       138 La~~yEkik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         138 LADKYEKIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHHHhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            444444477788888887776543321  1   12455544421  34566777777666653 4333445566666777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 017234          260 CARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCY  294 (375)
Q Consensus       260 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  294 (375)
                      ....++++|.+++..+++.. .-|...-..++.-+
T Consensus       216 s~~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~l  249 (711)
T COG1747         216 SENENWTEAIRILKHILEHD-EKDVWARKEIIENL  249 (711)
T ss_pred             ccccCHHHHHHHHHHHhhhc-chhhhHHHHHHHHH
Confidence            78888888888888877765 33555544455443

>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.76  E-value=41  Score=30.00  Aligned_cols=98  Identities=17%  Similarity=0.195  Sum_probs=52.6

Q ss_pred             HHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHH-HC-C----CCcCHhHH
Q 017234           74 WDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSME-AQ-G----IKPDSAVF  146 (375)
Q Consensus        74 ~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-~~-g----~~p~~~~~  146 (375)
                      .+.+-.+ .+.+.+......+..++++|....-.-......++..|.+.+++..++..++.-. +. +    .+|.....
T Consensus       105 c~~l~~~~~~~~~p~~gi~ii~~av~k~~~~~~qlT~~H~~l~~~~L~ak~y~~~~p~ld~divei~~~n~h~~~k~fL~  184 (422)
T KOG2582|consen  105 CHDLTEAVVKKNKPLRGIRIIMQAVDKMQPSNGQLTSIHADLLQLCLEAKDYASVLPYLDDDIVEICKANPHLDPKYFLL  184 (422)
T ss_pred             HHHHHHHHHhcCCccccchHHHHHHHHhccCccchhhhHHHHHHHHHHhhcccccCCccchhHHHHhccCCCCCHHHHHH
Confidence            3445555 4667777777776666777765443333444556677777777766665554221 11 1    12211110


Q ss_pred             HHHH--HHHHcCCChHHHHHHHHHHHh
Q 017234          147 NSLI--CACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus       147 ~~li--~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      -..=  ..|...+++++|+-+|.....
T Consensus       185 Y~yYgg~iciglk~fe~Al~~~e~~v~  211 (422)
T KOG2582|consen  185 YLYYGGMICIGLKRFERALYLLEICVT  211 (422)
T ss_pred             HHHhcceeeeccccHHHHHHHHHHHHh
Confidence            0000  112345678888888888775

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=80.47  E-value=3.5  Score=24.14  Aligned_cols=27  Identities=15%  Similarity=0.183  Sum_probs=23.5

Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHHhCCC
Q 017234          326 GIIRLYALSDRLDDVEYSVGRMGKQGL  352 (375)
Q Consensus       326 ~li~~~~~~g~~~~A~~~~~~m~~~~~  352 (375)
                      .+..+|...|+.+.|.+++++....|-
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~~~   30 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEEGD   30 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCC
Confidence            367899999999999999999997653

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.

---

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	375
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-05
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-05

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 46.8 bits (110), Expect = 8e-06
 Identities = 50/354 (14%), Positives = 94/354 (26%), Gaps = 129/354 (36%)

Query: 8   LSVAK--SSRYLLMPL-----RFDRLLCNTNTNSTSVS----SSNPLISRLLQVPVSQ-- 54
           L++    S   +L  L     + D    + + +S+++     S    + RLL+    +  
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246

Query: 55  --IKTTLDSV----DIFAFNSSQFSWDALITSLQSS--SPKKAQLVLEWRLDKMLKGNES 106
             +   L +V       AFN    S   L+T+          A       LD        
Sbjct: 247 LLV---LLNVQNAKAWNAFN---LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300

Query: 107 CLDEYACLIA--LSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALS 164
             DE   L+   L  + Q++P         E     P                     LS
Sbjct: 301 --DEVKSLLLKYLDCRPQDLP--------REVLTTNP-------------------RRLS 331

Query: 165 LFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGS 224
           +      +E  +    T+D                 W          VN     ++I  S
Sbjct: 332 II-----AESIRDGLATWD----------------NWK--------HVNCDKLTTIIESS 362

Query: 225 LKARDFDSVDRFYEEMMSLGIIP-SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN 283
           L   +     + ++    L + P S  I   +L  +                    W   
Sbjct: 363 LNVLEPAEYRKMFDR---LSVFPPSAHIPTILLSLI--------------------W--- 396

Query: 284 ENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRL 337
            ++                  + +  + K ++   V        I + ++   L
Sbjct: 397 FDV---------------IKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL 435

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 46.0 bits (107), Expect = 1e-05
 Identities = 24/254 (9%), Positives = 65/254 (25%), Gaps = 19/254 (7%)

Query: 71  QFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHV 130
           + +    +  L++      Q      L + L+     L +                A  +
Sbjct: 34  KRTQQMRMQRLKAKLQMPFQSGEFKALTRRLQVEPRLLSK--------------QMAGCL 79

Query: 131 FTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFS 190
                     P       L+        +    +      S  +     +   AF     
Sbjct: 80  EDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQH-SQAQLSGQQQRLLAFFKCCL 138

Query: 191 SLGNVDAMNKW---YAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIP 247
               +   +     +         + +  Y +++ G  +   F  +      +   G+ P
Sbjct: 139 LTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP 198

Query: 248 SIPILEKVLEGLC-ARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQ 306
            +      L+ +    +    ++  L+ +   G K+       L+        +  + + 
Sbjct: 199 DLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV 258

Query: 307 LETLTKCNQSPEVL 320
             T +   Q P  +
Sbjct: 259 KPTFSLPPQLPPPV 272

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 45.2 bits (105), Expect = 3e-05
 Identities = 27/216 (12%), Positives = 60/216 (27%), Gaps = 6/216 (2%)

Query: 32  TNSTSVSSSNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDA------LITSLQSSS 85
           T     S     ++RLLQ    ++   ++       + +Q S             L +  
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 86  PKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAV 145
              A  +L     +  K     LD Y  ++    +       ++V   ++  G+ PD   
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 146 FNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAAN 205
           + + +            +      +S E  K  +      +S       + A++K     
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF 262

Query: 206 IAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMM 241
                         L+          S  + +  + 
Sbjct: 263 SLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLK 298

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	375
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.96
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.92
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.85
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.84
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.83
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.82
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.82
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.82
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.82
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.82
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.81
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.81
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.79
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.78
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.74
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.74
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.72
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.7
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.69
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.69
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.67
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.67
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.66
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.66
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.66
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.65
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.65
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.65
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.65
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.63
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.62
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.61
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.61
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.6
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.59
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.59
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.57
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.55
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.54
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.54
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.52
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.52
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.51
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.51
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.51
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.5
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.5
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.48
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.48
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.48
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.47
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.47
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.43
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.42
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.41
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.4
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.38
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.37
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.37
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.37
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.34
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.34
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.33
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.32
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.32
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.32
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.3
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.3
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.29
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.26
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.2
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.19
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.18
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.17
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.14
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.12
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.11
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.1
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.1
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.09
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.08
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.07
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.06
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.02
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.02
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.01
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.0
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.99
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.97
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.97
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.95
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.93
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.93
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.93
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.93
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.93
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.92
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.91
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.91
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.9
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.9
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.88
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.87
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.86
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.86
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.84
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.79
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.76
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.76
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.75
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.74
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.74
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.73
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.72
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.71
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.69
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.66
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.65
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.64
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.63
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.63
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.61
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.61
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.61
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.6
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.6
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.59
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.59
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.56
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.56
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.54
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.54
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.54
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.54
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.52
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.52
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.51
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.49
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.45
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.45
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.44
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.43
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.4
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.4
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.4
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.37
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.35
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.35
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.34
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.33
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.32
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.31
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.3
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.3
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.29
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.29
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.29
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.27
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.27
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.27
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.27
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.25
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.25
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.24
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.16
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.14
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.13
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.12
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.12
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.11
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.08
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.08
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.08
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.07
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.03
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.03
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.01
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.98
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.95
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.94
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.92
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.87
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.87
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.84
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.8
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.69
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.69
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.67
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.67
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.6
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.56
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.54
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.52
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.49
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.49
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.3
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.14
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.14
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.14
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.13
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.1
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.05
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.03
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.91
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.89
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.88
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.7
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.66
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.41
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.38
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.35
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.26
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.03
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.99
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.96
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.87
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.76
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.76
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.44
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.43
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.94
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.81
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.65
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.22
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.94
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.63
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	92.9
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	92.89
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.81
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	92.72
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.25
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	92.18
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.93
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.62
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.56
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.08
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.94
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	90.08
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	89.64
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.51
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	89.38
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	88.77
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	87.52
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	86.8
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	86.6
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	86.55
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	86.14
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	85.88
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	85.6
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	83.73
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	83.58
2p58_C	116	Putative type III secretion protein YSCG; type III	83.14
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	82.36
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	81.46
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	80.91

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=8.5e-35  Score=269.88  Aligned_cols=200  Identities=15%  Similarity=0.175  Sum_probs=182.0

Q ss_pred             HHHhhcCCC-C-CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCC---------hHHHHHH
Q 017234           97 LDKMLKGNE-S-CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGD---------VVTALSL  165 (375)
Q Consensus        97 ~~~m~~~~~-~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---------~~~a~~~  165 (375)
                      ..++.+.+. + ....++.+|.+|++.|++++|.++|++|.+.|++||..|||.||.+|++.+.         +++|.++
T Consensus        13 ~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~l   92 (501)
T 4g26_A           13 SRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI   92 (501)
T ss_dssp             -----------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHH
T ss_pred             HHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHH
Confidence            455555554 2 3446889999999999999999999999999999999999999999987764         6889999


Q ss_pred             HHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCC
Q 017234          166 FEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGI  245 (375)
Q Consensus       166 ~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  245 (375)
                      |++|.+ .|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+
T Consensus        93 f~~M~~-~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~  171 (501)
T 4g26_A           93 FKQMIV-DKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEV  171 (501)
T ss_dssp             HHHHHH-TTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHH-hCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            999999 8999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHc
Q 017234          246 IPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCEL  297 (375)
Q Consensus       246 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  297 (375)
                      .||..||++||.+|++.|++++|.+++++|.+.|..|+..||+.++..|+..
T Consensus       172 ~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          172 VPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             CCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999999998764

>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=9.4e-35  Score=269.61  Aligned_cols=207  Identities=14%  Similarity=0.172  Sum_probs=183.1

Q ss_pred             hHHHHHHHHHHHCCCCcCHh-HHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCC---------
Q 017234          125 PFAMHVFTSMEAQGIKPDSA-VFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGN---------  194 (375)
Q Consensus       125 ~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~---------  194 (375)
                      ..+..+.+++.+.+..+.+. .++.+|++|++.|++++|+++|++|.+ .|+.||..|||+||.+|++.+.         
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~-~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~   85 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARR-NGVQLSQYHYNVLLYVCSLAEAATESSPNPG   85 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTCCCCHHHHHHHHHHHTTCCCCSSSSCCHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCCHhHHHHHHHHHHhCCchhhhhhcch
Confidence            44667778888887766554 689999999999999999999999999 8999999999999999987665         


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 017234          195 VDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKF  274 (375)
Q Consensus       195 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  274 (375)
                      ++.|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++
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            68899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhh
Q 017234          275 LLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALS  334 (375)
Q Consensus       275 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  334 (375)
                      |.+.|+.||..+|++||.+|++.|++++|.++|++|++.+..|+..|  |+.++..|...
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 MVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKST--FDMIEEWFKSE  223 (501)
T ss_dssp             HHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHH--HHHHHHHHHSH
T ss_pred             HHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHH--HHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999  99999999875

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.96  E-value=6.9e-27  Score=223.54  Aligned_cols=240  Identities=7%  Similarity=-0.044  Sum_probs=163.9

Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          106 SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       106 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      ++..+|+.++..|.+.|++++|.++|+++.+.+ +.+..+++.++.++.+.|++++|.++++++.+.  .+.+..+++.+
T Consensus       303 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l  379 (597)
T 2xpi_A          303 KSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDR--HPEKAVTWLAV  379 (597)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTSHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh--CcccHHHHHHH
Confidence            466667777777777777777777777776554 225556666666666666666666666666541  24456677777


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      +..|.+.|++++|.++|+++.+.... +..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|+.++.+|.+.|++
T Consensus       380 ~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  457 (597)
T 2xpi_A          380 GIYYLCVNKISEARRYFSKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNI  457 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCH
Confidence            77777777777777777777665432 56677777777777777777777777777654 34566777777777777777


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC----CCCCchHHHHHHHHHHHHHhhCCHHHHH
Q 017234          266 DRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKC----NQSPEVLLHFFSGIIRLYALSDRLDDVE  341 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~  341 (375)
                      ++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.    +..|+.....|..++.+|.+.|++++|.
T Consensus       458 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~  536 (597)
T 2xpi_A          458 LLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAI  536 (597)
T ss_dssp             HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHH
Confidence            77777777776643 346677777777777777777777777777654    4456532223777777777777777777


Q ss_pred             HHHHHHHhCC
Q 017234          342 YSVGRMGKQG  351 (375)
Q Consensus       342 ~~~~~m~~~~  351 (375)
                      ++|+++.+.+
T Consensus       537 ~~~~~~~~~~  546 (597)
T 2xpi_A          537 DALNQGLLLS  546 (597)
T ss_dssp             HHHHHHHHHS
T ss_pred             HHHHHHHHhC
Confidence            7777777653

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.96  E-value=6.8e-27  Score=223.56  Aligned_cols=303  Identities=11%  Similarity=-0.007  Sum_probs=263.0

Q ss_pred             hHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 017234           40 SNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIAL  117 (375)
Q Consensus        40 ~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~  117 (375)
                      |+.++..+.+.++. ++.++++.+...  .++..+|+.++.. ++.|++++|.++    ++++...++.+..+++.++..
T Consensus       275 ~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~----~~~~~~~~~~~~~~~~~l~~~  348 (597)
T 2xpi_A          275 YMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAI----TTKILEIDPYNLDVYPLHLAS  348 (597)
T ss_dssp             HHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHH----HHHHHHHCTTCCTTHHHHHHH
T ss_pred             HHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHH----HHHHHHcCcccHHHHHHHHHH
Confidence            34445555566654 778899988655  5899999999999 899999999999    566666667788999999999


Q ss_pred             HhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHH
Q 017234          118 SGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDA  197 (375)
Q Consensus       118 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~  197 (375)
                      +.+.|++++|..+++++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.  .+.+..+|+.++.+|.+.|++++
T Consensus       349 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~  425 (597)
T 2xpi_A          349 LHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTM--DPQFGPAWIGFAHSFAIEGEHDQ  425 (597)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998664 557899999999999999999999999999872  24467899999999999999999


Q ss_pred             HHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          198 MNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       198 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      |.++|+++.+.+. .+..+|+.++.+|.+.|++++|.++|+++.+.. +.+..+|+.++..|.+.|++++|.++++++.+
T Consensus       426 A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  503 (597)
T 2xpi_A          426 AISAYTTAARLFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALL  503 (597)
T ss_dssp             HHHHHHHHHHTTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            9999999998764 388999999999999999999999999999865 45789999999999999999999999999977


Q ss_pred             C----CCCcC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          278 G----GWKIN--ENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       278 ~----~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                      .    +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+. .+...  |..+..+|.+.|++++|.+.|+++.+. 
T Consensus       504 ~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~l~~-  579 (597)
T 2xpi_A          504 LVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLST-NDANV--HTAIALVYLHKKIPGLAITHLHESLAI-  579 (597)
T ss_dssp             HHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-CCHHH--HHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             hhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CChHH--HHHHHHHHHHhCCHHHHHHHHHHHHhc-
Confidence            5    66787  78999999999999999999999999988652 13444  999999999999999999999999975 


Q ss_pred             CCccCch
Q 017234          352 LSFKSAE  358 (375)
Q Consensus       352 ~~~~~~~  358 (375)
                       .|+.+.
T Consensus       580 -~p~~~~  585 (597)
T 2xpi_A          580 -SPNEIM  585 (597)
T ss_dssp             -CTTCHH
T ss_pred             -CCCChH
Confidence             344443

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.92  E-value=1.7e-21  Score=176.27  Aligned_cols=304  Identities=11%  Similarity=0.027  Sum_probs=204.3

Q ss_pred             cchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCC-cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHH
Q 017234           38 SSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSS-QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACL  114 (375)
Q Consensus        38 ~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~-~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~l  114 (375)
                      .++..+...+.+.++. ++.+.++.+..  ..|+ ...|..+... ...|++++|.+.    ++++....+.+...+..+
T Consensus        68 ~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~----~~~al~~~p~~~~~~~~l  141 (388)
T 1w3b_A           68 EAYSNLGNVYKERGQLQEAIEHYRHALR--LKPDFIDGYINLAAALVAAGDMEGAVQA----YVSALQYNPDLYCVRSDL  141 (388)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHSCSSHHHHH----HHHHHHHCTTCTHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH--cCcchHHHHHHHHHHHHHcCCHHHHHHH----HHHHHHhCCCcHHHHHHH
Confidence            3555555666555554 55666665543  2343 2345555555 566666666666    333333444455556666


Q ss_pred             HHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCC
Q 017234          115 IALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGN  194 (375)
Q Consensus       115 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~  194 (375)
                      ...+...|++++|.+.|+++.+.. +-+..+|+.+...+.+.|++++|...|+++.+..  +.+...+..+...+...|+
T Consensus       142 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~  218 (388)
T 1w3b_A          142 GNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD--PNFLDAYINLGNVLKEARI  218 (388)
T ss_dssp             HHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCC
Confidence            666666677777777776666553 2245666667777777777777777777766521  2334556666667777777


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 017234          195 VDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKF  274 (375)
Q Consensus       195 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  274 (375)
                      +++|...|++..+..+. +..++..+..++...|++++|.+.|+++.+.+ +.+..+|..+...+.+.|++++|...+++
T Consensus       219 ~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  296 (388)
T 1w3b_A          219 FDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNT  296 (388)
T ss_dssp             TTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            77777777766665432 57778888888888888888888888888764 33467788888888888888888888888


Q ss_pred             HHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCc
Q 017234          275 LLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSF  354 (375)
Q Consensus       275 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  354 (375)
                      +.+.. +.+..++..+...+.+.|++++|...++++.+.  .|+.... +..+...|.+.|++++|...|+++.+  +.|
T Consensus       297 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~-~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p  370 (388)
T 1w3b_A          297 ALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAA-HSNLASVLQQQGKLQEALMHYKEAIR--ISP  370 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHH-HHHHHHHHHTTTCCHHHHHHHHHHHT--TCT
T ss_pred             HHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCcHHH-HHHHHHHHHHcCCHHHHHHHHHHHHh--hCC
Confidence            87753 557778888888888888888888888888764  3443222 77888888888888888888888875  345


Q ss_pred             cCch
Q 017234          355 KSAE  358 (375)
Q Consensus       355 ~~~~  358 (375)
                      +.++
T Consensus       371 ~~~~  374 (388)
T 1w3b_A          371 TFAD  374 (388)
T ss_dssp             TCHH
T ss_pred             CCHH
Confidence            4443

>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=99.91  E-value=6.1e-21  Score=172.59  Aligned_cols=308  Identities=12%  Similarity=-0.000  Sum_probs=250.7

Q ss_pred             ccccchHHHH-HHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHH
Q 017234           35 TSVSSSNPLI-SRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEY  111 (375)
Q Consensus        35 ~~~~~~~~ll-~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~  111 (375)
                      |+......++ ..+.+.+.. ++...+...... .+.+...|..+... ...|++++|.+.    ++++....+.+..+|
T Consensus        30 p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~----~~~al~~~p~~~~~~  104 (388)
T 1w3b_A           30 PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ-NPLLAEAYSNLGNVYKERGQLQEAIEH----YRHALRLKPDFIDGY  104 (388)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHH----HHHHHHHCTTCHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHCCCHHHHHHH----HHHHHHcCcchHHHH
Confidence            4444333333 455556655 555665555432 34466788888888 799999999999    555555566678889


Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHc
Q 017234          112 ACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSS  191 (375)
Q Consensus       112 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~  191 (375)
                      ..+...+.+.|++++|.+.|+++.+.. +-+...+..+...+...|++++|.+.|+++.+.  .+.+..+|..+...+..
T Consensus       105 ~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~  181 (388)
T 1w3b_A          105 INLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIET--QPNFAVAWSNLGCVFNA  181 (388)
T ss_dssp             HHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            999999999999999999999998874 224567788888999999999999999999873  23456789999999999


Q ss_pred             CCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 017234          192 LGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSF  271 (375)
Q Consensus       192 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  271 (375)
                      .|++++|.+.|+++.+..+. +...|..+...+...|++++|...|++..... +.+..++..+...+...|++++|...
T Consensus       182 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  259 (388)
T 1w3b_A          182 QGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDT  259 (388)
T ss_dssp             TTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999987654 78889999999999999999999999998764 34578899999999999999999999


Q ss_pred             HHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          272 LKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                      ++++.+.+ +.+..++..+..++.+.|++++|...++++.+... .+...  +..+...+.+.|++++|...++++.+. 
T Consensus       260 ~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~--~~~l~~~~~~~g~~~~A~~~~~~al~~-  334 (388)
T 1w3b_A          260 YRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCP-THADS--LNNLANIKREQGNIEEAVRLYRKALEV-  334 (388)
T ss_dssp             HHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCT-TCHHH--HHHHHHHHHTTTCHHHHHHHHHHHTTS-
T ss_pred             HHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHH--HHHHHHHHHHcCCHHHHHHHHHHHHhc-
Confidence            99999864 44678899999999999999999999999988542 22333  889999999999999999999999864 


Q ss_pred             CCccCch
Q 017234          352 LSFKSAE  358 (375)
Q Consensus       352 ~~~~~~~  358 (375)
                       .|+.+.
T Consensus       335 -~p~~~~  340 (388)
T 1w3b_A          335 -FPEFAA  340 (388)
T ss_dssp             -CTTCHH
T ss_pred             -CCCcHH
Confidence             444443

>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=99.90  E-value=2e-20  Score=172.42  Aligned_cols=312  Identities=12%  Similarity=0.036  Sum_probs=254.7

Q ss_pred             ccccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHH
Q 017234           35 TSVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYA  112 (375)
Q Consensus        35 ~~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~  112 (375)
                      .+...+..+...+.+.++. +|...|+.+.... ..+...|..+... ...|++++|...    ++++...++.+..++.
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~----~~~al~~~p~~~~~~~   98 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPD----LTKVIQLKMDFTAARL   98 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH----HHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHH----HHHHHhcCCCcHHHHH
Confidence            3455777788888888876 7889999886542 2356777778777 799999999999    5666666777899999


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHCCCCcCH---hHHHHH------------HHHHHcCCChHHHHHHHHHHHhCCCCCC
Q 017234          113 CLIALSGKVQNVPFAMHVFTSMEAQGIKPDS---AVFNSL------------ICACLCSGDVVTALSLFEIMVSSEEYKP  177 (375)
Q Consensus       113 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~---~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~~~~~~  177 (375)
                      .+...|.+.|++++|...|+++.+.. +.+.   ..+..+            ...+.+.|++++|...|+++.+.  .+.
T Consensus        99 ~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~  175 (450)
T 2y4t_A           99 QRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEV--CVW  175 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence            99999999999999999999999864 2233   566555            44488999999999999999873  245


Q ss_pred             ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHH--
Q 017234          178 NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKV--  255 (375)
Q Consensus       178 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l--  255 (375)
                      +..++..+..+|.+.|++++|.++|+++.+... .+..++..+...|...|++++|...|+++.+.. +.+...+..+  
T Consensus       176 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~  253 (450)
T 2y4t_A          176 DAELRELRAECFIKEGEPRKAISDLKAASKLKN-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQ  253 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHH
Confidence            678899999999999999999999999988754 378999999999999999999999999998764 2344555444  


Q ss_pred             ----------HHHHHhcCCHHHHHHHHHHHHhCCCCcC-----HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCc-h
Q 017234          256 ----------LEGLCARRKLDRVKSFLKFLLGGGWKIN-----ENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPE-V  319 (375)
Q Consensus       256 ----------i~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~  319 (375)
                                ...+.+.|++++|...++++.+..  |+     ...+..+..++.+.|++++|...++++.+..  |+ .
T Consensus       254 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~--p~~~  329 (450)
T 2y4t_A          254 VKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME--PDNV  329 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccH
Confidence                      788999999999999999998743  44     4578889999999999999999999998753  43 3


Q ss_pred             HHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHHHH
Q 017234          320 LLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMES  364 (375)
Q Consensus       320 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~  364 (375)
                      ..  |..+..+|...|++++|...|+++.+  +.|+.+.....+.
T Consensus       330 ~~--~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~  370 (450)
T 2y4t_A          330 NA--LKDRAEAYLIEEMYDEAIQDYETAQE--HNENDQQIREGLE  370 (450)
T ss_dssp             HH--HHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSCHHHHHHHH
T ss_pred             HH--HHHHHHHHHHhcCHHHHHHHHHHHHH--hCcchHHHHHHHH
Confidence            33  89999999999999999999999986  4566665544443

>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=99.87  E-value=2.8e-19  Score=164.70  Aligned_cols=268  Identities=10%  Similarity=-0.008  Sum_probs=226.2

Q ss_pred             CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHH
Q 017234           70 SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNS  148 (375)
Q Consensus        70 ~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  148 (375)
                      +...|..+... +..|++++|...    ++++....+.+..+|..+...+.+.|++++|...|+++.+.+ +.+..++..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~----~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~   99 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQ----FHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQ   99 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHH----HHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHH
Confidence            45667777777 799999999999    556656667789999999999999999999999999999875 346889999


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHhCCCCCCCh----hcHHHH------------HHHHHcCCCHHHHHHHHHHHHHCCCCc
Q 017234          149 LICACLCSGDVVTALSLFEIMVSSEEYKPNS----KTYDAF------------ISGFSSLGNVDAMNKWYAANIAAGFSV  212 (375)
Q Consensus       149 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----~~~~~l------------l~~~~~~~~~~~a~~~~~~m~~~~~~~  212 (375)
                      +..++.+.|++++|.+.|+++.+.   .|+.    ..+..+            ...+...|++++|...|+++.+.... 
T Consensus       100 l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-  175 (450)
T 2y4t_A          100 RGHLLLKQGKLDEAEDDFKKVLKS---NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVW-  175 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc---CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-
Confidence            999999999999999999999872   3543    455555            44489999999999999999987643 


Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHH--
Q 017234          213 NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKL--  290 (375)
Q Consensus       213 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l--  290 (375)
                      +..++..+..+|...|++++|...|+++.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+  
T Consensus       176 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~  253 (450)
T 2y4t_A          176 DAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQ  253 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHH
Confidence            88899999999999999999999999998764 4568899999999999999999999999998753 3345555554  


Q ss_pred             ----------HHHHHHcCChHHHHHHHHHHHhCCCCCchH---HHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          291 ----------VKCYCELGRVDELEEQLETLTKCNQSPEVL---LHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       291 ----------i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                                ...+...|++++|...|+++.+..  |+..   ...|..+...+.+.|++++|...++++.+.
T Consensus       254 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  324 (450)
T 2y4t_A          254 VKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM  324 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence                      889999999999999999998854  4321   223888999999999999999999999875

>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=99.85  E-value=4.4e-18  Score=149.75  Aligned_cols=284  Identities=9%  Similarity=-0.029  Sum_probs=231.7

Q ss_pred             CCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhH
Q 017234           67 FNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAV  145 (375)
Q Consensus        67 ~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  145 (375)
                      ...+...+..+... +..|++++|.+.    ++++....+.+...+..++..+...|++++|...++++.+.. +.+...
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~----~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~   92 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKL----TSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVS   92 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHH----HHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHH----HHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHH
Confidence            34455566666777 788999999999    555556666677788888899999999999999999998864 346788


Q ss_pred             HHHHHHHHHcCC-ChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHH
Q 017234          146 FNSLICACLCSG-DVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGS  224 (375)
Q Consensus       146 ~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~  224 (375)
                      |..+...+...| ++++|...|++..+.  .+.+...+..+...+...|++++|.+.|++..+.... +...+..+...+
T Consensus        93 ~~~l~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~  169 (330)
T 3hym_B           93 WFAVGCYYLMVGHKNEHARRYLSKATTL--EKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEY  169 (330)
T ss_dssp             HHHHHHHHHHSCSCHHHHHHHHHHHHTT--CTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHH
Confidence            999999999999 999999999999872  2445678899999999999999999999999887644 567788899999


Q ss_pred             HccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--------CCcCHHHHHHHHHHHHH
Q 017234          225 LKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGG--------WKINENMAQKLVKCYCE  296 (375)
Q Consensus       225 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--------~~~~~~~~~~li~~~~~  296 (375)
                      ...|++++|...+++..+.. +.+...+..+...+...|++++|...++++.+..        .+.+..++..+..+|..
T Consensus       170 ~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~  248 (330)
T 3hym_B          170 GLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRK  248 (330)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHH
Confidence            99999999999999998875 4567889999999999999999999999987631        13346789999999999


Q ss_pred             cCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHHHH
Q 017234          297 LGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMES  364 (375)
Q Consensus       297 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~  364 (375)
                      .|++++|...+++..+.... +...  +..+...|.+.|++++|...|++..+.  .|+.+.....+.
T Consensus       249 ~g~~~~A~~~~~~a~~~~~~-~~~~--~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~  311 (330)
T 3hym_B          249 LKKYAEALDYHRQALVLIPQ-NAST--YSAIGYIHSLMGNFENAVDYFHTALGL--RRDDTFSVTMLG  311 (330)
T ss_dssp             TTCHHHHHHHHHHHHHHSTT-CSHH--HHHHHHHHHHHTCHHHHHHHHHTTTTT--CSCCHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhhCcc-chHH--HHHHHHHHHHhccHHHHHHHHHHHHcc--CCCchHHHHHHH
Confidence            99999999999999875432 2333  888999999999999999999998754  455554444333

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.84  E-value=4.3e-17  Score=144.91  Aligned_cols=307  Identities=10%  Similarity=0.013  Sum_probs=241.5

Q ss_pred             chHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 017234           39 SSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIA  116 (375)
Q Consensus        39 ~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~  116 (375)
                      .+..+-..+...++. ++.+.+.......+ .+...|..+... ...|++++|...+    ++.....+.+...|..+..
T Consensus         5 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~----~~~~~~~~~~~~~~~~l~~   79 (359)
T 3ieg_A            5 KHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDL----TKVIALKMDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHH----HHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHccCHHHHHHHH----HHHHHhCCCcchHHHHHHH
Confidence            344455666777766 77888888865432 235566666667 7999999999994    5555556667899999999


Q ss_pred             HHhccCChhHHHHHHHHHHHCCCC--cCHhHHHHH------------HHHHHcCCChHHHHHHHHHHHhCCCCCCChhcH
Q 017234          117 LSGKVQNVPFAMHVFTSMEAQGIK--PDSAVFNSL------------ICACLCSGDVVTALSLFEIMVSSEEYKPNSKTY  182 (375)
Q Consensus       117 ~~~~~~~~~~a~~~~~~m~~~g~~--p~~~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  182 (375)
                      .+...|++++|...+++..+....  .+...+..+            ...+...|++++|.+.++++.+.  .+.+...+
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~  157 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV--CVWDAELR  157 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCchHHH
Confidence            999999999999999999887420  244555555            57889999999999999999873  24567888


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHH---------
Q 017234          183 DAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILE---------  253 (375)
Q Consensus       183 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~---------  253 (375)
                      ..+...+...|++++|.+.+++..+..+ .+..++..+...+...|++++|...|++..+.. +.+...+.         
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~  235 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLKS-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLN  235 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCS-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHH
Confidence            8999999999999999999999998764 378999999999999999999999999998764 23334333         


Q ss_pred             ---HHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH----HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHH
Q 017234          254 ---KVLEGLCARRKLDRVKSFLKFLLGGGWKINE----NMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSG  326 (375)
Q Consensus       254 ---~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  326 (375)
                         .+...+.+.|++++|...++++.+.. +.+.    ..+..+..++...|++++|...+++..+..  |+.... +..
T Consensus       236 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~-~~~  311 (359)
T 3ieg_A          236 KLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME--PDNVNA-LKD  311 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH-HHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cccHHH-HHH
Confidence               23666889999999999999998754 2233    235567889999999999999999998854  433222 888


Q ss_pred             HHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhH
Q 017234          327 IIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDV  360 (375)
Q Consensus       327 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  360 (375)
                      +...|...|++++|...|++..+.  .|+.+...
T Consensus       312 ~~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~  343 (359)
T 3ieg_A          312 RAEAYLIEEMYDEAIQDYEAAQEH--NENDQQIR  343 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCCChHHH
Confidence            999999999999999999999865  45555443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.83  E-value=4.8e-21  Score=183.65  Aligned_cols=152  Identities=14%  Similarity=0.179  Sum_probs=124.1

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHHHhC--CCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHH
Q 017234          142 DSAVFNSLICACLCSGDVVTALSLFEIMVSS--EEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYES  219 (375)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  219 (375)
                      -..|||++|++|++.|++++|.++|++|.+.  .|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..|||+
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            4568999999999999999999999887641  47899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCh-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC------HHHHHHHHH
Q 017234          220 LIHGSLKARDF-DSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN------ENMAQKLVK  292 (375)
Q Consensus       220 ll~~~~~~g~~-~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~li~  292 (375)
                      +|.++++.|+. ++|.++|++|.+.|+.||..||+.++.++.+.+    +++..+++ ..++.|+      ..+...|.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~----vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT----VLKAVHKV-KPTFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH----HHHHHGGG-CCCCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH----HHHHHHHh-CcccCCCCCCcccccchHHHHH
Confidence            99999999985 788999999999999999999999987665543    33344444 3455554      445555667


Q ss_pred             HHHHcC
Q 017234          293 CYCELG  298 (375)
Q Consensus       293 ~~~~~g  298 (375)
                      .|.+.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            777655

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.82  E-value=3.6e-18  Score=152.99  Aligned_cols=267  Identities=7%  Similarity=-0.017  Sum_probs=216.5

Q ss_pred             CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHH
Q 017234           70 SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNS  148 (375)
Q Consensus        70 ~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  148 (375)
                      +...|..+... ...|++++|...    +++.....+.+..+|..+...+.+.|++++|...|++..+.. +.+..+|..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~----~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~  138 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILF----MEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMA  138 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHH----HHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHH
Confidence            45557777777 799999999999    556666667789999999999999999999999999998874 346889999


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHhCCCCCCCh-----------hcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCc-CHHh
Q 017234          149 LICACLCSGDVVTALSLFEIMVSSEEYKPNS-----------KTYDAFISGFSSLGNVDAMNKWYAANIAAGFSV-NVQT  216 (375)
Q Consensus       149 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~  216 (375)
                      +..++...|++++|...|+++.+.   .|+.           ..+..+...+...|++++|.+.|+++.+..... +..+
T Consensus       139 l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  215 (365)
T 4eqf_A          139 LAVSYTNTSHQQDACEALKNWIKQ---NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDL  215 (365)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHH
T ss_pred             HHHHHHccccHHHHHHHHHHHHHh---CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHH
Confidence            999999999999999999999872   2332           223345788999999999999999999875432 6889


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCE  296 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  296 (375)
                      +..+...|...|++++|.+.|++..+.. +.+..++..+..+|...|++++|...++++.+.. +.+..++..+..+|..
T Consensus       216 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  293 (365)
T 4eqf_A          216 QTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCIN  293 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHH
Confidence            9999999999999999999999998865 4568899999999999999999999999998864 4458889999999999


Q ss_pred             cCChHHHHHHHHHHHhCCCCC---------chHHHHHHHHHHHHHhhCCHHHHHHHHHH
Q 017234          297 LGRVDELEEQLETLTKCNQSP---------EVLLHFFSGIIRLYALSDRLDDVEYSVGR  346 (375)
Q Consensus       297 ~g~~~~a~~~~~~~~~~~~~~---------~~~~~~~~~li~~~~~~g~~~~A~~~~~~  346 (375)
                      .|++++|...|++..+.....         ......|..+..++...|+.+.+..+.++
T Consensus       294 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          294 LGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999999999987643221         00122389999999999999988887754

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.82  E-value=6.4e-18  Score=148.47  Aligned_cols=269  Identities=13%  Similarity=0.034  Sum_probs=219.6

Q ss_pred             CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHH
Q 017234           70 SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNS  148 (375)
Q Consensus        70 ~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  148 (375)
                      +...|-.+... ...|++++|...    +++.....+.+..++..+...+...|++++|...+++..+.. +.+..++..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~----~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~   94 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALA----FEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAA   94 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHH----HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHH
Confidence            44555556666 799999999999    555555566788999999999999999999999999998874 447889999


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH--------------HH-HHHcCCCHHHHHHHHHHHHHCCCCcC
Q 017234          149 LICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF--------------IS-GFSSLGNVDAMNKWYAANIAAGFSVN  213 (375)
Q Consensus       149 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~m~~~~~~~~  213 (375)
                      +...+...|++++|.+.++++.+..  +.+...+..+              .. .+...|++++|.+.++++.+.... +
T Consensus        95 la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~  171 (327)
T 3cv0_A           95 LAVSHTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-D  171 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTS--TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTT-C
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-C
Confidence            9999999999999999999998732  2233333333              22 377889999999999999887644 7


Q ss_pred             HHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 017234          214 VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKC  293 (375)
Q Consensus       214 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  293 (375)
                      ..++..+...+...|++++|.+.+++..+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus       172 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~  249 (327)
T 3cv0_A          172 AQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVS  249 (327)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHH
Confidence            8899999999999999999999999998864 4567889999999999999999999999998764 4568889999999


Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCC---------chHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          294 YCELGRVDELEEQLETLTKCNQSP---------EVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       294 ~~~~g~~~~a~~~~~~~~~~~~~~---------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      |...|++++|.+.+++..+.....         ......|..+..++.+.|++++|..++++..
T Consensus       250 ~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          250 YSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            999999999999999988754331         0022338999999999999999999987544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.82  E-value=8.1e-17  Score=143.15  Aligned_cols=277  Identities=10%  Similarity=-0.029  Sum_probs=224.6

Q ss_pred             ccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHH
Q 017234           72 FSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLI  150 (375)
Q Consensus        72 ~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li  150 (375)
                      ..|..+... ...|++++|...    +++.....+.+..++..+...+...|++++|...+++..+.. +-+...+..+.
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~----~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   78 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQ----FHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRG   78 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHH----HHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHH
Confidence            345556666 799999999999    555555667788999999999999999999999999998874 33678999999


Q ss_pred             HHHHcCCChHHHHHHHHHHHhCCCCCC----ChhcHHHH------------HHHHHcCCCHHHHHHHHHHHHHCCCCcCH
Q 017234          151 CACLCSGDVVTALSLFEIMVSSEEYKP----NSKTYDAF------------ISGFSSLGNVDAMNKWYAANIAAGFSVNV  214 (375)
Q Consensus       151 ~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~~l------------l~~~~~~~~~~~a~~~~~~m~~~~~~~~~  214 (375)
                      .++...|++++|...|++..+.   .|    +...+..+            ...+...|++++|.+.++++.+..+. +.
T Consensus        79 ~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~  154 (359)
T 3ieg_A           79 HLLLKQGKLDEAEDDFKKVLKS---NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVW-DA  154 (359)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CH
T ss_pred             HHHHHcCChHHHHHHHHHHHhc---CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-ch
Confidence            9999999999999999999872   45    34444444            57889999999999999999887653 78


Q ss_pred             HhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHH------
Q 017234          215 QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQ------  288 (375)
Q Consensus       215 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~------  288 (375)
                      ..+..+...+...|++++|...+++..+.. +.+..++..+...+...|++++|...++...+.. +.+...+.      
T Consensus       155 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~  232 (359)
T 3ieg_A          155 ELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVK  232 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHH
Confidence            899999999999999999999999999875 4578899999999999999999999999998754 33344333      


Q ss_pred             ------HHHHHHHHcCChHHHHHHHHHHHhCCCCCch-HHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHH
Q 017234          289 ------KLVKCYCELGRVDELEEQLETLTKCNQSPEV-LLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVE  361 (375)
Q Consensus       289 ------~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  361 (375)
                            .+...+.+.|++++|...+++..+....... ....+..+...+.+.|++++|...+++..+.  .|+.+....
T Consensus       233 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~  310 (359)
T 3ieg_A          233 KLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM--EPDNVNALK  310 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CcccHHHHH
Confidence                  2366789999999999999999885533211 1122556788999999999999999999886  354544333

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.82  E-value=1.2e-17  Score=149.61  Aligned_cols=268  Identities=9%  Similarity=0.010  Sum_probs=221.0

Q ss_pred             CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHH
Q 017234           70 SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNS  148 (375)
Q Consensus        70 ~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  148 (375)
                      +...|..+... ...|++++|...    +++.....+.+..+|..+...+.+.|++++|...|++..+.. +.+..++..
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~----~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~  137 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLL----FEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMA  137 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHH----HHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHH----HHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHH
Confidence            45667777777 799999999999    566667777889999999999999999999999999998875 447889999


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHH---------------HHHHHHcCCCHHHHHHHHHHHHHCCCCc-
Q 017234          149 LICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDA---------------FISGFSSLGNVDAMNKWYAANIAAGFSV-  212 (375)
Q Consensus       149 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~---------------ll~~~~~~~~~~~a~~~~~~m~~~~~~~-  212 (375)
                      +..++...|++++|...++++.+..  +.+...+..               .+..+...|++++|...|+++.+..... 
T Consensus       138 l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~  215 (368)
T 1fch_A          138 LAVSFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSI  215 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcc
Confidence            9999999999999999999999832  222222221               2334448899999999999998875432 


Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 017234          213 NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVK  292 (375)
Q Consensus       213 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  292 (375)
                      +..++..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+..
T Consensus       216 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~  293 (368)
T 1fch_A          216 DPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGI  293 (368)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            58899999999999999999999999998864 4467899999999999999999999999998764 456888999999


Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCC---c-----hHHHHHHHHHHHHHhhCCHHHHHHHHHH
Q 017234          293 CYCELGRVDELEEQLETLTKCNQSP---E-----VLLHFFSGIIRLYALSDRLDDVEYSVGR  346 (375)
Q Consensus       293 ~~~~~g~~~~a~~~~~~~~~~~~~~---~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~  346 (375)
                      +|.+.|++++|...|++..+.....   .     .....|..+..+|...|++++|..++++
T Consensus       294 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          294 SCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence            9999999999999999987643222   0     0122389999999999999999998864

>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=1.7e-20  Score=179.82  Aligned_cols=127  Identities=9%  Similarity=0.110  Sum_probs=115.0

Q ss_pred             CChhcHHHHHHHHHcCCCHHHHHHHHHHHHH---CCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHH
Q 017234          177 PNSKTYDAFISGFSSLGNVDAMNKWYAANIA---AGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILE  253 (375)
Q Consensus       177 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  253 (375)
                      .-..||+++|++|++.|++++|.++|++|.+   .|+.||+.|||+||.+||+.|++++|.++|++|.+.|+.||..||+
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            3356899999999999999999999988764   5899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCH-HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHH
Q 017234          254 KVLEGLCARRKL-DRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDEL  303 (375)
Q Consensus       254 ~li~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  303 (375)
                      ++|.++++.|+. ++|.+++++|.+.|+.||..+|++++..+.+.+-++..
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~V  255 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV  255 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHH
Confidence            999999999984 78999999999999999999999999776665433333

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.81  E-value=3.3e-17  Score=153.20  Aligned_cols=296  Identities=7%  Similarity=-0.099  Sum_probs=241.8

Q ss_pred             HHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHh
Q 017234           42 PLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSG  119 (375)
Q Consensus        42 ~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~  119 (375)
                      ..-..+.+.++. +|...+..+....  |+...|..+..+ ...|++++|.+.    +++.....+.+..+|..+..++.
T Consensus        11 ~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~----~~~al~~~p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A           11 DKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEM----STKALELKPDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHH----HHHHHHHCSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHH----HHHHhccChHHHHHHHHHHHHHH
Confidence            334566667766 8899999997655  788889888888 799999999999    55666667778899999999999


Q ss_pred             ccCChhHHHHHHHHHHHCCCCc----------------------------------------------------------
Q 017234          120 KVQNVPFAMHVFTSMEAQGIKP----------------------------------------------------------  141 (375)
Q Consensus       120 ~~~~~~~a~~~~~~m~~~g~~p----------------------------------------------------------  141 (375)
                      +.|++++|...|+++.+.+...                                                          
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            9999999999999987764210                                                          


Q ss_pred             --------------------CHhHHHHHHHHHHc---CCChHHHHHHHHHHHh-----CCCC-------CCChhcHHHHH
Q 017234          142 --------------------DSAVFNSLICACLC---SGDVVTALSLFEIMVS-----SEEY-------KPNSKTYDAFI  186 (375)
Q Consensus       142 --------------------~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~-----~~~~-------~~~~~~~~~ll  186 (375)
                                          +...+......+..   .|++++|..+|+++.+     ....       +.+..++..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence                                12333333444443   8999999999999886     2111       22356778889


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLD  266 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  266 (375)
                      ..+...|++++|...|++..+....  ..++..+...+...|++++|...+++..... +.+...+..+...+...|+++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHH
Confidence            9999999999999999999887644  8889999999999999999999999998875 446678999999999999999


Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHH
Q 017234          267 RVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGR  346 (375)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  346 (375)
                      +|...++++.+.. +.+..++..+...+...|++++|...++++.+.... +...  +..+...|...|++++|...+++
T Consensus       322 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~--~~~la~~~~~~~~~~~A~~~~~~  397 (514)
T 2gw1_A          322 QAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPE-APEV--PNFFAEILTDKNDFDKALKQYDL  397 (514)
T ss_dssp             HHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTT-CSHH--HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccc-CHHH--HHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999998865 446778999999999999999999999999875432 2333  88899999999999999999999


Q ss_pred             HHhC
Q 017234          347 MGKQ  350 (375)
Q Consensus       347 m~~~  350 (375)
                      +.+.
T Consensus       398 a~~~  401 (514)
T 2gw1_A          398 AIEL  401 (514)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            9864

>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=99.81  E-value=7.3e-17  Score=141.87  Aligned_cols=293  Identities=6%  Similarity=-0.042  Sum_probs=236.0

Q ss_pred             CcccccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHH
Q 017234           33 NSTSVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDE  110 (375)
Q Consensus        33 ~~~~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~  110 (375)
                      ...+...+..+...+...++. ++.++++.+....+. +...+..++.. ...|++++|...    +++.....+.+..+
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~----~~~~~~~~~~~~~~   92 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPF-HASCLPVHIGTLVELNKANELFYL----SHKLVDLYPSNPVS   92 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTTHHHHHHHHHHHTCHHHHHHH----HHHHHHHCTTSTHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-ChhhHHHHHHHHHHhhhHHHHHHH----HHHHHHhCcCCHHH
Confidence            345566777777888888876 788888888654332 33445556666 799999999999    55555566677889


Q ss_pred             HHHHHHHHhccC-ChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHH
Q 017234          111 YACLIALSGKVQ-NVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGF  189 (375)
Q Consensus       111 ~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~  189 (375)
                      |..+...+...| ++++|...|++..+.. +.+...|..+...+...|++++|.+.+++..+.  .+.+...+..+...+
T Consensus        93 ~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~  169 (330)
T 3hym_B           93 WFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQL--MKGCHLPMLYIGLEY  169 (330)
T ss_dssp             HHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--ccccHHHHHHHHHHH
Confidence            999999999999 9999999999998774 336788999999999999999999999999873  234467788899999


Q ss_pred             HcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCC--------CCCCHHHHHHHHHHHHh
Q 017234          190 SSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLG--------IIPSIPILEKVLEGLCA  261 (375)
Q Consensus       190 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~--------~~p~~~~~~~li~~~~~  261 (375)
                      ...|++++|.+.+++..+.... +..++..+...+...|++++|...+++..+..        .+.+..++..+...+..
T Consensus       170 ~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~  248 (330)
T 3hym_B          170 GLTNNSKLAERFFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRK  248 (330)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHH
Confidence            9999999999999999987644 78899999999999999999999999987631        13345789999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHH-HhhCCHH
Q 017234          262 RRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLY-ALSDRLD  338 (375)
Q Consensus       262 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~~~  338 (375)
                      .|++++|...+++..+.. +.+..++..+..+|...|++++|...+++..+..  |+.... +..+..++ ...|+.+
T Consensus       249 ~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~-~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          249 LKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR--RDDTFS-VTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC--SCCHHH-HHHHHHHHHTTTTC--
T ss_pred             hcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC--CCchHH-HHHHHHHHHHHhCchh
Confidence            999999999999998764 4467889999999999999999999999988744  544332 67777777 4556543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.79  E-value=6.8e-17  Score=151.09  Aligned_cols=233  Identities=12%  Similarity=-0.006  Sum_probs=124.0

Q ss_pred             HHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHH
Q 017234          109 DEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISG  188 (375)
Q Consensus       109 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~  188 (375)
                      .++..+...+...|++++|...++++.+.+  |+...+..+..++...|++++|...++++.+.  .+.+..++..+...
T Consensus       238 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~  313 (514)
T 2gw1_A          238 ISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKL--DSNNSSVYYHRGQM  313 (514)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTT--CTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhc--CcCCHHHHHHHHHH
Confidence            344444445555555555555555555442  22445555555555555555555555555541  12334455555555


Q ss_pred             HHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 017234          189 FSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRV  268 (375)
Q Consensus       189 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  268 (375)
                      +...|++++|...|++..+.... +..++..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|
T Consensus       314 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  391 (514)
T 2gw1_A          314 NFILQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKA  391 (514)
T ss_dssp             HHHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHH
Confidence            55566666666666655554432 44555555556666666666666666655442 22344555555666666666666


Q ss_pred             HHHHHHHHhCCC-CcC----HHHHHHHHHHHHH---cCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHH
Q 017234          269 KSFLKFLLGGGW-KIN----ENMAQKLVKCYCE---LGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDV  340 (375)
Q Consensus       269 ~~~~~~~~~~~~-~~~----~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  340 (375)
                      ...++++.+..- .++    ..++..+...+..   .|++++|...+++..+..  |+.... +..+...|.+.|++++|
T Consensus       392 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~-~~~la~~~~~~g~~~~A  468 (514)
T 2gw1_A          392 LKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD--PRSEQA-KIGLAQMKLQQEDIDEA  468 (514)
T ss_dssp             HHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC--cccHHH-HHHHHHHHHHhcCHHHH
Confidence            666665544210 011    2255556666666   666666666666665533  222211 55566666666666666


Q ss_pred             HHHHHHHHhC
Q 017234          341 EYSVGRMGKQ  350 (375)
Q Consensus       341 ~~~~~~m~~~  350 (375)
                      ...|++..+.
T Consensus       469 ~~~~~~a~~~  478 (514)
T 2gw1_A          469 ITLFEESADL  478 (514)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            6666666553

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.78  E-value=2.5e-17  Score=147.44  Aligned_cols=238  Identities=8%  Similarity=-0.049  Sum_probs=195.7

Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          106 SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       106 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      .+...+..+...+.+.|++++|...|+++.+.. +.+..+|..+..++.+.|++++|...|+++.+.  .+.+..++..+
T Consensus        63 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l  139 (365)
T 4eqf_A           63 KDWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLEL--QPNNLKALMAL  139 (365)
T ss_dssp             TTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHH
Confidence            355668899999999999999999999999875 447889999999999999999999999999873  24457889999


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCc---------CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCC-CCHHHHHHH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSV---------NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGII-PSIPILEKV  255 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~---------~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~l  255 (375)
                      ...|...|++++|.+.|+++.+.....         ....+..+...+...|++++|...|+++.+.... ++..++..+
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            999999999999999999998754220         1223344588899999999999999999987522 268899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhC
Q 017234          256 LEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSD  335 (375)
Q Consensus       256 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  335 (375)
                      ...+...|++++|...++++.+.. +.+..++..+..+|...|++++|...|++..+..  |+.... |..+..+|.+.|
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~-~~~l~~~~~~~g  295 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ--PGFIRS-RYNLGISCINLG  295 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHHT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHH-HHHHHHHHHHCC
Confidence            999999999999999999998864 4578899999999999999999999999998854  443222 889999999999


Q ss_pred             CHHHHHHHHHHHHhC
Q 017234          336 RLDDVEYSVGRMGKQ  350 (375)
Q Consensus       336 ~~~~A~~~~~~m~~~  350 (375)
                      ++++|...|+++.+.
T Consensus       296 ~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          296 AYREAVSNFLTALSL  310 (365)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999999874

>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=99.76  E-value=1.2e-16  Score=142.90  Aligned_cols=257  Identities=9%  Similarity=-0.060  Sum_probs=203.8

Q ss_pred             hcCChHHHHH-HHHHHHHHhhcCCC--C--CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcC
Q 017234           82 QSSSPKKAQL-VLEWRLDKMLKGNE--S--CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCS  156 (375)
Q Consensus        82 ~~~~~~~a~~-~~~~~~~~m~~~~~--~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  156 (375)
                      ..|++++|.+ .    +++.....+  |  +...+..+...+.+.|++++|...|+++.+.. +.+..++..+..++.+.
T Consensus        37 ~~~~~~~a~~~~----~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  111 (368)
T 1fch_A           37 WLSDYDDLTSAT----YDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAEN  111 (368)
T ss_dssp             ---------CHH----HHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhh----hhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHC
Confidence            3467778877 6    443332222  2  46678899999999999999999999999875 44788999999999999


Q ss_pred             CChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHH---------------HH
Q 017234          157 GDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYES---------------LI  221 (375)
Q Consensus       157 g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~---------------ll  221 (375)
                      |++++|...|+++.+.  .+.+..++..+...+...|++++|.+.++++.+.... +...+..               .+
T Consensus       112 g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  188 (368)
T 1fch_A          112 EQELLAISALRRCLEL--KPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRIL  188 (368)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTT
T ss_pred             cCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHH
Confidence            9999999999999873  2456788999999999999999999999999987643 3333321               23


Q ss_pred             HHHHccCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCh
Q 017234          222 HGSLKARDFDSVDRFYEEMMSLGIIP-SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRV  300 (375)
Q Consensus       222 ~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  300 (375)
                      ..+...|++++|...|+++.+..... +..++..+...+...|++++|...++++.+.. +.+..++..+...+...|++
T Consensus       189 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~  267 (368)
T 1fch_A          189 GSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQS  267 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCH
Confidence            44448899999999999998864221 57899999999999999999999999998764 45678999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          301 DELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ++|...+++..+..  |+.... +..+...|.+.|++++|...|+++.+.
T Consensus       268 ~~A~~~~~~al~~~--~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          268 EEAVAAYRRALELQ--PGYIRS-RYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--CCcHHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999998854  433322 889999999999999999999999874

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.76  E-value=7e-16  Score=133.61  Aligned_cols=259  Identities=8%  Similarity=-0.012  Sum_probs=193.2

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCCh
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESC-LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDV  159 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  159 (375)
                      +..|++..|+..    .+......+.+ ......+.++|...|+++.|...++.   . -+|+..++..+...+...|+.
T Consensus        10 ~~~g~y~~ai~~----~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A           10 FYIGSYQQCINE----AQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHTTCHHHHHHH----HHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHH----HHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcH
Confidence            688899888888    44443333212 34556678899999999998876654   1 356777888888899999999


Q ss_pred             HHHHHHHHHHHhCCCCCCC-hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHH
Q 017234          160 VTALSLFEIMVSSEEYKPN-SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYE  238 (375)
Q Consensus       160 ~~a~~~~~~m~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~  238 (375)
                      ++|++.++++.. .+..|+ ...+..+...+...|++++|.+.+++      +.+...+..+...+.+.|++++|.+.|+
T Consensus        82 ~~A~~~l~~ll~-~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~  154 (291)
T 3mkr_A           82 DAIVAELDREMS-RSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELK  154 (291)
T ss_dssp             HHHHHHHHHHHH-SCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-cccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            999999999887 444454 45556667888999999999999887      3578888889999999999999999999


Q ss_pred             HHHHCCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC
Q 017234          239 EMMSLGIIPSIPIL---EKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQ  315 (375)
Q Consensus       239 ~m~~~~~~p~~~~~---~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  315 (375)
                      ++.+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|+..|++..+.. 
T Consensus       155 ~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-  230 (291)
T 3mkr_A          155 KMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-  230 (291)
T ss_dssp             HHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            998764  443211   12233344568899999999999876 36678889999999999999999999999988754 


Q ss_pred             CCchHHHHHHHHHHHHHhhCCHHH-HHHHHHHHHhCCCCccCchhHHH
Q 017234          316 SPEVLLHFFSGIIRLYALSDRLDD-VEYSVGRMGKQGLSFKSAEDVEM  362 (375)
Q Consensus       316 ~~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~~~~~~~~~~~~~  362 (375)
                       |+.... +..++..+...|+.++ +.++++++.+.  .|+.|....+
T Consensus       231 -p~~~~~-l~~l~~~~~~~g~~~eaa~~~~~~~~~~--~P~~~~~~d~  274 (291)
T 3mkr_A          231 -SGHPET-LINLVVLSQHLGKPPEVTNRYLSQLKDA--HRSHPFIKEY  274 (291)
T ss_dssp             -TTCHHH-HHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             -CCCHHH-HHHHHHHHHHcCCCHHHHHHHHHHHHHh--CCCChHHHHH
Confidence             433322 7778888888998876 56888888765  4555544443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.76  E-value=5.3e-16  Score=134.36  Aligned_cols=247  Identities=10%  Similarity=0.040  Sum_probs=199.3

Q ss_pred             cHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCc-CHhHHHHHH
Q 017234           73 SWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKP-DSAVFNSLI  150 (375)
Q Consensus        73 ~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li  150 (375)
                      ..-.+..+ ...|+++.|+..    ++.   ...|+..++..+...+...++.+.|.+.++++...+..| +...+..+.
T Consensus        36 ~~~~l~r~yi~~g~~~~al~~----~~~---~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la  108 (291)
T 3mkr_A           36 RDVFLYRAYLAQRKYGVVLDE----IKP---SSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAA  108 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHH----SCT---TSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHH----hcc---cCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHH
Confidence            33445666 799999999887    332   356788899999999999999999999999999877545 566777788


Q ss_pred             HHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHh---HHHHHHHHHcc
Q 017234          151 CACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQT---YESLIHGSLKA  227 (375)
Q Consensus       151 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~---~~~ll~~~~~~  227 (375)
                      ..+...|++++|++.+++       +.+...+..+...+.+.|++++|.+.|+++.+..  |+...   ...++..+...
T Consensus       109 ~~~~~~g~~~~Al~~l~~-------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~  179 (291)
T 3mkr_A          109 SIYFYDQNPDAALRTLHQ-------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGG  179 (291)
T ss_dssp             HHHHHTTCHHHHHHHHTT-------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHCCCHHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCc
Confidence            999999999999999986       4677889999999999999999999999999875  44321   12344555567


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHH-HHHH
Q 017234          228 RDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDE-LEEQ  306 (375)
Q Consensus       228 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~  306 (375)
                      |++++|..+|+++.+.. +.+...++.+..++.+.|++++|...++++++.. +-+..++..++..+...|+.++ +.++
T Consensus       180 ~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~  257 (291)
T 3mkr_A          180 EKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRY  257 (291)
T ss_dssp             THHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHH
Confidence            99999999999999874 5678899999999999999999999999998864 4578899999999999999976 6789


Q ss_pred             HHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHH
Q 017234          307 LETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSV  344 (375)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  344 (375)
                      ++++.+.  .|+...     +.+...+.+.++++..-|
T Consensus       258 ~~~~~~~--~P~~~~-----~~d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          258 LSQLKDA--HRSHPF-----IKEYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHH--CTTCHH-----HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHh--CCCChH-----HHHHHHHHHHHHHHHHHc
Confidence            9999884  465443     445566666777666544

>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=99.74  E-value=1.1e-14  Score=136.87  Aligned_cols=242  Identities=11%  Similarity=0.004  Sum_probs=181.9

Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHH
Q 017234          110 EYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGF  189 (375)
Q Consensus       110 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~  189 (375)
                      ++..+...+...|++++|...+++..+.  .|+...+..+...+...|++++|...+++..+.  .+.+..++..+...+
T Consensus       245 ~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~  320 (537)
T 3fp2_A          245 ALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDL--NPEYPPTYYHRGQMY  320 (537)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhcc--CCCCHHHHHHHHHHH
Confidence            4556667777888888888888888876  456778888888888888888888888888762  244567788888888


Q ss_pred             HcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 017234          190 SSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVK  269 (375)
Q Consensus       190 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  269 (375)
                      ...|++++|.+.|++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.
T Consensus       321 ~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  398 (537)
T 3fp2_A          321 FILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAI  398 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHH
Confidence            8888899998888888876543 56778888888888899999998888888764 344667888888888889999998


Q ss_pred             HHHHHHHhCC-----CCcCHHHHHHHHHHHHHc----------CChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhh
Q 017234          270 SFLKFLLGGG-----WKINENMAQKLVKCYCEL----------GRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALS  334 (375)
Q Consensus       270 ~~~~~~~~~~-----~~~~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  334 (375)
                      ..++++.+..     .......+......+...          |++++|...|++..+..  |+.... +..+...|.+.
T Consensus       399 ~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--p~~~~~-~~~l~~~~~~~  475 (537)
T 3fp2_A          399 KQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD--PRSEQA-KIGLAQLKLQM  475 (537)
T ss_dssp             HHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHT
T ss_pred             HHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC--CCCHHH-HHHHHHHHHHh
Confidence            8888876532     111223344455667777          88999999998888754  333222 88899999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCccCchhHHH
Q 017234          335 DRLDDVEYSVGRMGKQGLSFKSAEDVEM  362 (375)
Q Consensus       335 g~~~~A~~~~~~m~~~~~~~~~~~~~~~  362 (375)
                      |++++|...|++..+..  |+.+.....
T Consensus       476 g~~~~A~~~~~~al~~~--~~~~~~~~~  501 (537)
T 3fp2_A          476 EKIDEAIELFEDSAILA--RTMDEKLQA  501 (537)
T ss_dssp             TCHHHHHHHHHHHHHHC----CHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC--CCcHHHHHH
Confidence            99999999999988753  444444443

>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=99.74  E-value=4.7e-15  Score=139.48  Aligned_cols=298  Identities=8%  Similarity=-0.035  Sum_probs=230.1

Q ss_pred             cchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHH
Q 017234           38 SSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLI  115 (375)
Q Consensus        38 ~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li  115 (375)
                      ..+..+-..+.+.++. +|.+.+.......+ .+...|..+..+ ...|++++|.+.    +++.....+.+..++..+.
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~----~~~al~~~p~~~~~~~~la  100 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELDP-NEPVFYSNISACYISTGDLEKVIEF----TTKALEIKPDHSKALLRRA  100 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHH----HHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHH----HHHHHhcCCchHHHHHHHH
Confidence            3455555677777765 78888888865432 256677777777 799999999999    5566666677899999999


Q ss_pred             HHHhccCChhHHHHHHHHHHHCCC------------------------------------CcCHh---------------
Q 017234          116 ALSGKVQNVPFAMHVFTSMEAQGI------------------------------------KPDSA---------------  144 (375)
Q Consensus       116 ~~~~~~~~~~~a~~~~~~m~~~g~------------------------------------~p~~~---------------  144 (375)
                      ..+...|++++|...|+.+....-                                    .|+..               
T Consensus       101 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  180 (537)
T 3fp2_A          101 SANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEV  180 (537)
T ss_dssp             HHHHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHH
Confidence            999999999999999964421100                                    01111               


Q ss_pred             ---------------HHHHHHHHHHcC--------CChHHHHHHHHHHHhCCCCCCC--------hhcHHHHHHHHHcCC
Q 017234          145 ---------------VFNSLICACLCS--------GDVVTALSLFEIMVSSEEYKPN--------SKTYDAFISGFSSLG  193 (375)
Q Consensus       145 ---------------~~~~li~~~~~~--------g~~~~a~~~~~~m~~~~~~~~~--------~~~~~~ll~~~~~~~  193 (375)
                                     ....+...+...        |++++|..+|+++.+.   .|+        ..++..+...+...|
T Consensus       181 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~~~~~g~~~~~~~  257 (537)
T 3fp2_A          181 SSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA---NTVDDPLRENAALALCYTGIFHFLKN  257 (537)
T ss_dssp             HTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH---CCCcchhhHHHHHHHHHHHHHHHhcc
Confidence                           111222222111        4788999999999872   344        235667778889999


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 017234          194 NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLK  273 (375)
Q Consensus       194 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  273 (375)
                      ++++|.+.|++..+..  |+..++..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|...++
T Consensus       258 ~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  334 (537)
T 3fp2_A          258 NLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQ  334 (537)
T ss_dssp             CHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            9999999999999864  558889999999999999999999999998865 4567889999999999999999999999


Q ss_pred             HHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          274 FLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       274 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ++.+.. +.+...+..+...+...|++++|...++++.+..... ...  +..+...+...|++++|...|+++.+.
T Consensus       335 ~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~--~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          335 KAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTL-PEV--PTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             HHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-THH--HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC-hHH--HHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            998764 3456789999999999999999999999998864322 233  888999999999999999999998875

>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=99.72  E-value=1.9e-15  Score=132.55  Aligned_cols=265  Identities=9%  Similarity=-0.025  Sum_probs=211.3

Q ss_pred             cccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHH
Q 017234           36 SVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYAC  113 (375)
Q Consensus        36 ~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~  113 (375)
                      +...+-.+-..+...++. ++...++.+..... .+...|..+... ...|++++|.+.+    ++.....+.+..++..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~----~~a~~~~~~~~~~~~~   94 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAP-EREEAWRSLGLTQAENEKDGLAIIAL----NHARMLDPKDIAVHAA   94 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHH----HHHHHHCTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHH----HHHHhcCcCCHHHHHH
Confidence            445556666777777765 78888888865432 255667767767 7999999999994    5555556678899999


Q ss_pred             HHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHH--------------HH-HHHcCCChHHHHHHHHHHHhCCCCCCC
Q 017234          114 LIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSL--------------IC-ACLCSGDVVTALSLFEIMVSSEEYKPN  178 (375)
Q Consensus       114 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l--------------i~-~~~~~g~~~~a~~~~~~m~~~~~~~~~  178 (375)
                      +...+...|++++|.+.+++..+.. +.+...+..+              .. .+...|++++|.+.++++.+.  .+.+
T Consensus        95 la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~  171 (327)
T 3cv0_A           95 LAVSHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEM--NPND  171 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHH--STTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhh--CCCC
Confidence            9999999999999999999998764 2233334333              22 367789999999999999873  2446


Q ss_pred             hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 017234          179 SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEG  258 (375)
Q Consensus       179 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  258 (375)
                      ..++..+...+...|++++|.+.+++..+.... +..++..+...+...|++++|...|++..+.. +.+...+..+...
T Consensus       172 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~  249 (327)
T 3cv0_A          172 AQLHASLGVLYNLSNNYDSAAANLRRAVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVS  249 (327)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHH
Confidence            788999999999999999999999999887543 78899999999999999999999999998764 4467889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCc-----------CHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 017234          259 LCARRKLDRVKSFLKFLLGGGWKI-----------NENMAQKLVKCYCELGRVDELEEQLETL  310 (375)
Q Consensus       259 ~~~~g~~~~a~~~~~~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~a~~~~~~~  310 (375)
                      +...|++++|...++++.+..-..           +..++..+..++.+.|++++|..++++.
T Consensus       250 ~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          250 YSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            999999999999999987643111           4678999999999999999999988653

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.70  E-value=5e-15  Score=125.27  Aligned_cols=227  Identities=10%  Similarity=0.036  Sum_probs=176.2

Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCC-CCCCC----hhcH
Q 017234          108 LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSE-EYKPN----SKTY  182 (375)
Q Consensus       108 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~~----~~~~  182 (375)
                      ...|..+...+...|++++|...|++..+..  .+...+..+..++...|++++|.+.+++..+.. ...++    ..++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4567778888888888888888888888776  678888888888888888888888888877621 01111    4677


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 017234          183 DAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCAR  262 (375)
Q Consensus       183 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  262 (375)
                      ..+...+...|++++|.+.|++..+..  |+.       ..+...|++++|...++++.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            788888888888888888888888754  342       34566678888998888888763 23456777888888899


Q ss_pred             CCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHH
Q 017234          263 RKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEY  342 (375)
Q Consensus       263 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  342 (375)
                      |++++|...++++.+.. +.+..++..+..+|...|++++|...+++..+..  |+.... |..+...+.+.|++++|..
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~-~~~l~~~~~~~g~~~~A~~  228 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRA-YIRKATAQIAVKEYASALE  228 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHTTCHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--HHHHHH-HHHHHHHHHHHhhHHHHHH
Confidence            99999999999887754 4467888888899999999999999999888754  332222 7788888999999999999


Q ss_pred             HHHHHHhC
Q 017234          343 SVGRMGKQ  350 (375)
Q Consensus       343 ~~~~m~~~  350 (375)
                      .|++..+.
T Consensus       229 ~~~~a~~~  236 (258)
T 3uq3_A          229 TLDAARTK  236 (258)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99888765

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.69  E-value=4.8e-15  Score=122.65  Aligned_cols=201  Identities=14%  Similarity=0.054  Sum_probs=140.9

Q ss_pred             CcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHH
Q 017234          140 KPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYES  219 (375)
Q Consensus       140 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  219 (375)
                      +++...+..+...+.+.|++++|...|++..+.  -+.+...+..+...+.+.|++++|...|++..+..+. +...+..
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~   78 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKE--NPQDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMV   78 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--SSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHH
Confidence            456667777777778888888888888877762  2345566777777778888888888888877776543 6677777


Q ss_pred             HHHHHHcc-----------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHH
Q 017234          220 LIHGSLKA-----------RDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQ  288 (375)
Q Consensus       220 ll~~~~~~-----------g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  288 (375)
                      +...+...           |++++|...|++..+.. +-+...+..+...+...|++++|...+++..+..  .+...+.
T Consensus        79 lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~  155 (217)
T 2pl2_A           79 LSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRS  155 (217)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHH
T ss_pred             HHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHH
Confidence            77777777           88888988888888764 3356778888888888999999999998888776  6788888


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          289 KLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       289 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      .+..+|...|++++|...|++..+..  |+.... +..+...+...|++++|+..|++...
T Consensus       156 ~la~~~~~~g~~~~A~~~~~~al~~~--P~~~~~-~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          156 ALAELYLSMGRLDEALAQYAKALEQA--PKDLDL-RVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHH-HHHHHHHHTC----------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHH-HHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            88888999999999999998888754  433322 77788888889999999888877643

>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=99.69  E-value=1.1e-16  Score=142.81  Aligned_cols=233  Identities=14%  Similarity=0.114  Sum_probs=95.6

Q ss_pred             hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHH
Q 017234           54 QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFT  132 (375)
Q Consensus        54 ~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  132 (375)
                      +|.+.++.+      ++..+|..+..+ .+.|++++|.+.|    .+     .+|..+|..++..+...|++++|...++
T Consensus        21 ~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsf----ik-----a~D~~~y~~V~~~ae~~g~~EeAi~yl~   85 (449)
T 1b89_A           21 RAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSY----IK-----ADDPSSYMEVVQAANTSGNWEELVKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHH----Hc-----CCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            566666666      334578888888 7888888888885    22     2567788888888888888888888776


Q ss_pred             HHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCc
Q 017234          133 SMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSV  212 (375)
Q Consensus       133 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~  212 (375)
                      ...+.  .+++.+.+.++.+|.+.|+++++.++++        .|+..+|+.+...|...|++++|...|..+       
T Consensus        86 ~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-------  148 (449)
T 1b89_A           86 MARKK--ARESYVETELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-------  148 (449)
T ss_dssp             -------------------------CHHHHTTTTT--------CC----------------CTTTHHHHHHHT-------
T ss_pred             HHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-------
Confidence            66653  4567788888888888888888877763        366678888888888888888888888866       


Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 017234          213 NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVK  292 (375)
Q Consensus       213 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  292 (375)
                        ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......     +..++.-...++.
T Consensus       149 --~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~  215 (449)
T 1b89_A          149 --SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELIN  215 (449)
T ss_dssp             --TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHH
T ss_pred             --hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHH
Confidence              36888888888888888888888877      2678888888888888888888554433     2234444556888


Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhh
Q 017234          293 CYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALS  334 (375)
Q Consensus       293 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  334 (375)
                      .|.+.|.+++|..+++......  + ....+|+-|..+|++-
T Consensus       216 ~Yek~G~~eEai~lLe~aL~le--~-ah~~~ftel~il~~ky  254 (449)
T 1b89_A          216 YYQDRGYFEELITMLEAALGLE--R-AHMGMFTELAILYSKF  254 (449)
T ss_dssp             HHHHTTCHHHHHHHHHHHTTST--T-CCHHHHHHHHHHHHTT
T ss_pred             HHHHCCCHHHHHHHHHHHhCCc--H-HHHHHHHHHHHHHHhc
Confidence            8888888888888888876543  2 2233377777666665

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.67  E-value=3.4e-14  Score=121.38  Aligned_cols=248  Identities=10%  Similarity=0.008  Sum_probs=189.1

Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC--hhcHHHH
Q 017234          108 LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN--SKTYDAF  185 (375)
Q Consensus       108 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~--~~~~~~l  185 (375)
                      ...+......+...|++++|...|++..+.. +.+...+..+..++...|++++|++.+++..+ .+-.|+  ..+|..+
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~-~~~~~~~~~~~~~~l   80 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFS-KVNATKAKSADFEYY   80 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHT-TSCTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh-ccCchhHHHHHHHHH
Confidence            3445667778889999999999999988764 23556888888899999999999999999987 332222  2237888


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      ...+...|++++|.+.|++..+.... +..++..+...|...|++++|...|++..+.. +.+...+..+...+...+++
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~  158 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEY  158 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHH
Confidence            88999999999999999998887544 67889999999999999999999999888763 34566777777345555699


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhCC-CCCch----HHHHHHHHHHHHHhhCCH
Q 017234          266 DRVKSFLKFLLGGGWKINENMAQKLVKCYCELGR---VDELEEQLETLTKCN-QSPEV----LLHFFSGIIRLYALSDRL  337 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~-~~~~~----~~~~~~~li~~~~~~g~~  337 (375)
                      ++|...++++.+.. +.+...+..+..++...|+   +++|...+++..+.. ..|+.    ....|..+...|...|++
T Consensus       159 ~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  237 (272)
T 3u4t_A          159 VKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDK  237 (272)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCH
Confidence            99999999998754 3457778888888888888   888888888876542 11221    112388899999999999


Q ss_pred             HHHHHHHHHHHhCCCCccCchhHHH
Q 017234          338 DDVEYSVGRMGKQGLSFKSAEDVEM  362 (375)
Q Consensus       338 ~~A~~~~~~m~~~~~~~~~~~~~~~  362 (375)
                      ++|.+.|++..+.  .|+.+.....
T Consensus       238 ~~A~~~~~~al~~--~p~~~~a~~~  260 (272)
T 3u4t_A          238 VKADAAWKNILAL--DPTNKKAIDG  260 (272)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHHHHHHHhc--CccHHHHHHH
Confidence            9999999999875  3555544333

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.67  E-value=1.1e-14  Score=120.42  Aligned_cols=199  Identities=12%  Similarity=0.005  Sum_probs=136.2

Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          106 SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       106 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      ++...+..+...+.+.|++++|...|++..+.. +.+...+..+..++.+.|++++|+..|++..+..  +.+...+..+
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~l   79 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART--PRYLGGYMVL   79 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHH
Confidence            455667777777777788888887777777654 3356677777777777788888888777777621  3345566777


Q ss_pred             HHHHHcC-----------CCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 017234          186 ISGFSSL-----------GNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEK  254 (375)
Q Consensus       186 l~~~~~~-----------~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  254 (375)
                      ...+...           |++++|...|++..+..+. +...+..+...+...|++++|...|++..+.+  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            7777777           8888888888887776543 67777788888888888888888888887766  66777778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          255 VLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       255 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                      +..++...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            8888888888888888888887653 3456777778888888888888888776553

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.66  E-value=2.6e-14  Score=120.83  Aligned_cols=224  Identities=11%  Similarity=-0.008  Sum_probs=188.9

Q ss_pred             ccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCC--CcC----Hh
Q 017234           72 FSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGI--KPD----SA  144 (375)
Q Consensus        72 ~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~p~----~~  144 (375)
                      ..|..+... ...|++++|...++    +..... .+..+|..+...+...|++++|...+++..+...  .|+    ..
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~----~a~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~   80 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYN----KAWELH-KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISK   80 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHH----HHHHHS-CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHH----HHHHhh-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHH
Confidence            345566666 79999999999954    444444 7889999999999999999999999999876531  112    57


Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHH
Q 017234          145 VFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGS  224 (375)
Q Consensus       145 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~  224 (375)
                      ++..+...+.+.|++++|...|++..+.   .|+.       ..+...|++++|...+++....... +...+..+...+
T Consensus        81 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~---~~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~  149 (258)
T 3uq3_A           81 SFARIGNAYHKLGDLKKTIEYYQKSLTE---HRTA-------DILTKLRNAEKELKKAEAEAYVNPE-KAEEARLEGKEY  149 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCCH-------HHHHHHHHHHHHHHHHHHHHHCCHH-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhc---Cchh-------HHHHHHhHHHHHHHHHHHHHHcCcc-hHHHHHHHHHHH
Confidence            8999999999999999999999999882   4553       3466678899999999999887533 678899999999


Q ss_pred             HccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHH
Q 017234          225 LKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELE  304 (375)
Q Consensus       225 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  304 (375)
                      ...|++++|...|++..+.. +.+...+..+...+...|++++|...++...+.. +.+..++..+..++...|++++|.
T Consensus       150 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~  227 (258)
T 3uq3_A          150 FTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASAL  227 (258)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHH
Confidence            99999999999999998865 4567889999999999999999999999998864 456888999999999999999999


Q ss_pred             HHHHHHHhC
Q 017234          305 EQLETLTKC  313 (375)
Q Consensus       305 ~~~~~~~~~  313 (375)
                      ..+++..+.
T Consensus       228 ~~~~~a~~~  236 (258)
T 3uq3_A          228 ETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999998764

>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=99.66  E-value=8.2e-16  Score=137.12  Aligned_cols=258  Identities=13%  Similarity=0.120  Sum_probs=94.3

Q ss_pred             cchHHHHHHhhcCCcc-hHHHHHHHhhhccCCCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHH
Q 017234           38 SSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLI  115 (375)
Q Consensus        38 ~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li  115 (375)
                      .+|..|..++.+.+.. +|.+.|..      .+|...|..++.+ ...|++++|...    ++...+ ..+++.+.+.++
T Consensus        33 ~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~y----l~~ark-~~~~~~i~~~Li  101 (449)
T 1b89_A           33 AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKY----LQMARK-KARESYVETELI  101 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHH----HHHHHH-hCccchhHHHHH
Confidence            4666666666666644 44444432      2455566666666 466666666665    333322 234456666677


Q ss_pred             HHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCH
Q 017234          116 ALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNV  195 (375)
Q Consensus       116 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~  195 (375)
                      .+|.+.|++.++.++++       .|+..+|+.+...|...|.+++|..+|..+          ..|..+..++.+.|++
T Consensus       102 ~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n~~~LA~~L~~Lg~y  164 (449)
T 1b89_A          102 FALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGEY  164 (449)
T ss_dssp             -------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT----------TCHHHHHHHHHTTTCH
T ss_pred             HHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hhHHHHHHHHHHhccH
Confidence            77777777766666663       255567777777777777777777777655          2566777777777777


Q ss_pred             HHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 017234          196 DAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFL  275 (375)
Q Consensus       196 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  275 (375)
                      ++|.+.+.++      .++.+|..++.+|...|+++.|......+     ..++.-...++..|.+.|.+++|..+++..
T Consensus       165 q~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L-----~~~ad~l~~lv~~Yek~G~~eEai~lLe~a  233 (449)
T 1b89_A          165 QAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAA  233 (449)
T ss_dssp             HHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT-----TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH-----HhCHhhHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            7777776665      25666777777777777777764444331     222233445666666777777777777666


Q ss_pred             HhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHH
Q 017234          276 LGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSV  344 (375)
Q Consensus       276 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  344 (375)
                      +... .-...+|+-|.-+|++-. +++..+-++..-   ...+     ..-+|++|.+..-|.+..-++
T Consensus       234 L~le-~ah~~~ftel~il~~ky~-p~k~~ehl~~~~---~~in-----i~k~~~~~~~~~~w~e~~~ly  292 (449)
T 1b89_A          234 LGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFW---SRVN-----IPKVLRAAEQAHLWAELVFLY  292 (449)
T ss_dssp             TTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHS---TTSC-----HHHHHHHHHTTTCHHHHHHHH
T ss_pred             hCCc-HHHHHHHHHHHHHHHhcC-HHHHHHHHHHHH---HHhc-----CcHHHHHHHHHHHHHHHHHHH
Confidence            5443 334555666655555432 232222222111   1111     234566666665555555444

>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=99.66  E-value=5.2e-13  Score=114.29  Aligned_cols=225  Identities=12%  Similarity=-0.032  Sum_probs=182.9

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHc----CCChHHHHHHHHHHHhCCCCCCChhcH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLC----SGDVVTALSLFEIMVSSEEYKPNSKTY  182 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~  182 (375)
                      +..++..+...+...|++++|...|++..+.+   +...+..+...+..    .+++++|...|++..+ .+   +...+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~-~~---~~~a~   77 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACD-LN---YSNGC   77 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHH-CC---CHHHH
Confidence            56677788888888889999999998888733   56778888888888    8899999999998887 33   67778


Q ss_pred             HHHHHHHHc----CCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHc----cCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 017234          183 DAFISGFSS----LGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLK----ARDFDSVDRFYEEMMSLGIIPSIPILEK  254 (375)
Q Consensus       183 ~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~  254 (375)
                      ..+...|..    .+++++|.+.|++..+.+   +..++..+...|..    .+++++|...|++..+.+   +...+..
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  151 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTI  151 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHH
Confidence            888888888    889999999999888864   67788888888888    889999999998888865   5567777


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCchHHHHHHH
Q 017234          255 VLEGLCA----RRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCE----LGRVDELEEQLETLTKCNQSPEVLLHFFSG  326 (375)
Q Consensus       255 li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  326 (375)
                      +...|..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...+++..+.+  | ...  +..
T Consensus       152 lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~-~~a--~~~  223 (273)
T 1ouv_A          152 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--N-GGG--CFN  223 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--C-HHH--HHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC--C-HHH--HHH
Confidence            7777877    889999999999888765   56777888888888    899999999998888764  3 223  677


Q ss_pred             HHHHHHh----hCCHHHHHHHHHHHHhCCC
Q 017234          327 IIRLYAL----SDRLDDVEYSVGRMGKQGL  352 (375)
Q Consensus       327 li~~~~~----~g~~~~A~~~~~~m~~~~~  352 (375)
                      +...|.+    .+++++|.+.|++..+.|-
T Consensus       224 l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          224 LGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             HHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            7888888    8899999999998887753

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.65  E-value=1.2e-13  Score=114.15  Aligned_cols=203  Identities=7%  Similarity=-0.043  Sum_probs=128.9

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHH
Q 017234          142 DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLI  221 (375)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll  221 (375)
                      +...+..+...+...|++++|.+.++++.+.  .+.+...+..+...+...|++++|.+.+++..+.... +..++..+.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~   83 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKS--DPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPD-SAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-ChHHHHHHH
Confidence            3455666666666666666666666666652  1334556666666666677777777777666655432 556666667


Q ss_pred             HHHHcc-CChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCC
Q 017234          222 HGSLKA-RDFDSVDRFYEEMMSLGIIPS-IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGR  299 (375)
Q Consensus       222 ~~~~~~-g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  299 (375)
                      ..+... |++++|...++++.+.+..|+ ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCC
Confidence            777777 777777777777666322233 4556666667777777777777777766543 3346667777777777777


Q ss_pred             hHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          300 VDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       300 ~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      +++|...+++..+.....+...  +..+...+...|+.++|..+++.+.+.
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADD--LLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHH--HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHH--HHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            7777777777766432112222  566666667777777777777777654

>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=99.65  E-value=1.3e-13  Score=116.32  Aligned_cols=200  Identities=10%  Similarity=0.027  Sum_probs=117.1

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHH
Q 017234          144 AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHG  223 (375)
Q Consensus       144 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~  223 (375)
                      ..|..+...+...|++++|.+.|+++.+.  .+.+..++..+...+...|++++|.+.+++..+.... +...+..+...
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~  114 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEI--DPSSADAHAALAVVFQTEMEPKLADEEYRKALASDSR-NARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHH
Confidence            44555555556666666666666665541  1234455555566666666666666666665554332 45556666666


Q ss_pred             HHccCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHH
Q 017234          224 SLKARDFDSVDRFYEEMMSLGIIP-SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDE  302 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  302 (375)
                      +...|++++|.+.++++...+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            666666666666666665522233 23455556666666666666666666665543 2345566666666666777777


Q ss_pred             HHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          303 LEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       303 a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      |...+++..+.... +...  +..+...+...|++++|.+.++++.+.
T Consensus       194 A~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          194 ARQYYDLFAQGGGQ-NARS--LLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHTTSCC-CHHH--HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcC-cHHH--HHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            77777666653321 1222  556666666677777777777666654

>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=99.65  E-value=1.5e-13  Score=115.96  Aligned_cols=202  Identities=11%  Similarity=0.038  Sum_probs=162.9

Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHH
Q 017234          108 LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFIS  187 (375)
Q Consensus       108 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~  187 (375)
                      ...|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|.+.++++.+.  .+.+...+..+..
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~  113 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALAS--DSRNARVLNNYGG  113 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHH
Confidence            5667778888888889999999888887764 346778888888888899999999999888762  2345677888888


Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCc-CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 017234          188 GFSSLGNVDAMNKWYAANIAAGFSV-NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLD  266 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  266 (375)
                      .+...|++++|.+.++++.+.+..| +...+..+...+...|++++|...|++..+.. +.+...+..+...+...|+++
T Consensus       114 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~  192 (252)
T 2ho1_A          114 FLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYV  192 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHH
Confidence            8888999999999998887732333 56778888888889999999999998888764 345778888888899999999


Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          267 RVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      +|...++++.+.. +.+...+..+...+...|++++|.+.++++.+..
T Consensus       193 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          193 PARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            9999999988754 4567778888888999999999999999888754

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.65  E-value=5.2e-15  Score=126.58  Aligned_cols=246  Identities=11%  Similarity=-0.061  Sum_probs=187.5

Q ss_pred             hcCChHHHHHHHHHHHHHhhcCCC----CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCC
Q 017234           82 QSSSPKKAQLVLEWRLDKMLKGNE----SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSG  157 (375)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~m~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  157 (375)
                      ..+++++|...+    +++.....    .+..+|..+...+...|++++|...|++..+.. +.+..+|..+...+...|
T Consensus        17 ~~~~~~~A~~~~----~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~   91 (275)
T 1xnf_A           17 PTLQQEVILARM----EQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAG   91 (275)
T ss_dssp             CCHHHHHHHHHH----HHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTT
T ss_pred             ccchHHHHHHHH----HHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHcc
Confidence            557889999994    44444321    357788899999999999999999999998874 346889999999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHH
Q 017234          158 DVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFY  237 (375)
Q Consensus       158 ~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~  237 (375)
                      ++++|.+.|++..+.  .+.+..++..+...+...|++++|.+.|+++.+..  |+.......+..+...|++++|...+
T Consensus        92 ~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~  167 (275)
T 1xnf_A           92 NFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVL  167 (275)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhc--CccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHH
Confidence            999999999999873  23457788899999999999999999999998864  44444455555667779999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC---cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          238 EEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWK---INENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       238 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      ++..... +++...+. ++..+...++.++|...+....+....   .+..++..+...|...|++++|...|++..+.+
T Consensus       168 ~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          168 KQHFEKS-DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHHHHS-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHhcC-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            8877653 34444443 667777888889999999888664311   125778889999999999999999999998854


Q ss_pred             CCCchHHHHHHHHHHHHHhhCCHHHHHHHH
Q 017234          315 QSPEVLLHFFSGIIRLYALSDRLDDVEYSV  344 (375)
Q Consensus       315 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  344 (375)
                        |+.    +.....++...|++++|++.+
T Consensus       246 --p~~----~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          246 --VHN----FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             --CTT----CHHHHHHHHHHHHHHHC----
T ss_pred             --chh----HHHHHHHHHHHHHHHhhHHHH
Confidence              433    233355678888999888776

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.63  E-value=2.9e-13  Score=111.85  Aligned_cols=205  Identities=9%  Similarity=-0.072  Sum_probs=163.4

Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          106 SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       106 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      .+..++..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.  .+.+..++..+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l   82 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSI--KPDSAEINNNY   82 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCChHHHHHH
Confidence            356677888888888999999999998888764 335778888888888999999999999888872  23456778888


Q ss_pred             HHHHHcC-CCHHHHHHHHHHHHHCCCCc-CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 017234          186 ISGFSSL-GNVDAMNKWYAANIAAGFSV-NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARR  263 (375)
Q Consensus       186 l~~~~~~-~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  263 (375)
                      ...+... |++++|...++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~  161 (225)
T 2vq2_A           83 GWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAG  161 (225)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcC
Confidence            8888899 99999999999888732223 36778888888999999999999998888764 345778888888899999


Q ss_pred             CHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          264 KLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       264 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      ++++|...++++.+..-..+...+..+...+...|+.+.|...++.+.+..
T Consensus       162 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            999999999988775411467778888888889999999999998887643

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.62  E-value=5e-14  Score=118.08  Aligned_cols=200  Identities=11%  Similarity=0.029  Sum_probs=86.3

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      ....|..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++..+.  .+.+..++..+.
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la   98 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALEL--DSSAATAYYGAG   98 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCcchHHHHHHH
Confidence            34445555555555555555555555555432 224445555555555555555555555555541  122344444555


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLD  266 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  266 (375)
                      ..+...|++++|.+.+++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            5555555555555555555444322 44445555555555555555555555544432 223344444444444455555


Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          267 RVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      +|...++++.+.. +.+..++..+..+|...|++++|...+++..+
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAID  221 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHc
Confidence            5555554444332 22344444444444444444444444444444

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.61  E-value=1.7e-13  Score=116.99  Aligned_cols=238  Identities=11%  Similarity=0.015  Sum_probs=188.8

Q ss_pred             HHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcC--HhHHHHHH
Q 017234           74 WDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPD--SAVFNSLI  150 (375)
Q Consensus        74 ~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li  150 (375)
                      +...... +..|++++|...    +++.....+.+..++..+...+...|++++|...+++..+.+..|+  ...|..+.
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~----~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEV----FNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHH----HHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHH----HHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            3334444 699999999999    5566566666777899999999999999999999999988432222  33489999


Q ss_pred             HHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCCh
Q 017234          151 CACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDF  230 (375)
Q Consensus       151 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~  230 (375)
                      ..+...|++++|.+.|++..+..  +.+..++..+...|...|++++|.+.|++..+.... +...+..+...+...+++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~  158 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRD--TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTT-DPKVFYELGQAYYYNKEY  158 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCC-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCC-cHHHHHHHHHHHHHHHHH
Confidence            99999999999999999998732  445678999999999999999999999998887433 677777777344445699


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCC-CCcC------HHHHHHHHHHHHHcCCh
Q 017234          231 DSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRK---LDRVKSFLKFLLGGG-WKIN------ENMAQKLVKCYCELGRV  300 (375)
Q Consensus       231 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~-~~~~------~~~~~~li~~~~~~g~~  300 (375)
                      ++|.+.|++..+.. +.+...+..+...+...|+   +++|...++++.+.. -.|+      ..+|..+...|...|++
T Consensus       159 ~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  237 (272)
T 3u4t_A          159 VKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDK  237 (272)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCH
Confidence            99999999998864 3446778888888888888   888998888886541 1233      25788899999999999


Q ss_pred             HHHHHHHHHHHhCCCCCchHH
Q 017234          301 DELEEQLETLTKCNQSPEVLL  321 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~  321 (375)
                      ++|...+++..+..  |+...
T Consensus       238 ~~A~~~~~~al~~~--p~~~~  256 (272)
T 3u4t_A          238 VKADAAWKNILALD--PTNKK  256 (272)
T ss_dssp             HHHHHHHHHHHHHC--TTCHH
T ss_pred             HHHHHHHHHHHhcC--ccHHH
Confidence            99999999998854  54443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.61  E-value=8.7e-14  Score=116.58  Aligned_cols=212  Identities=7%  Similarity=-0.014  Sum_probs=164.2

Q ss_pred             CCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHH
Q 017234           69 SSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFN  147 (375)
Q Consensus        69 p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  147 (375)
                      .+...|..+... ...|++++|...    +++.....+.+..++..+...+...|++++|...+++..+.. +.+...+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~----~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~   95 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEA----FTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYY   95 (243)
T ss_dssp             ---------------------CCTT----HHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHH----HHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHH
Confidence            345556666666 689999999999    566666677789999999999999999999999999998774 34788999


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHcc
Q 017234          148 SLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKA  227 (375)
Q Consensus       148 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  227 (375)
                      .+...+...|++++|.+.++++.+.  .+.+...+..+...+...|++++|.+.+++..+.... +...+..+...+...
T Consensus        96 ~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~  172 (243)
T 2q7f_A           96 GAGNVYVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLANE  172 (243)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHc
Confidence            9999999999999999999999873  2456778889999999999999999999999887543 788899999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHH
Q 017234          228 RDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKL  290 (375)
Q Consensus       228 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  290 (375)
                      |++++|...|++..+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+
T Consensus       173 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~  233 (243)
T 2q7f_A          173 GMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ-PDHMLALHAK  233 (243)
T ss_dssp             TCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC-cchHHHHHHH
Confidence            99999999999998764 4567889999999999999999999999998754 3344444443

>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=99.60  E-value=4.7e-13  Score=119.91  Aligned_cols=231  Identities=10%  Similarity=0.039  Sum_probs=174.9

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCC-hHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGD-VVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      +..+|+.+...+.+.|++++|+..+++..+.. +-+...|+.+..++.+.|+ +++|+..|++..+..  +-+...|..+
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~--P~~~~a~~~~  172 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ--PKNYQVWHHR  172 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC--CCCHHHHHHH
Confidence            35667778888888888888888888888764 3357788888888888886 888888888888721  3456778888


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCC
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA-RRK  264 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~-~g~  264 (375)
                      ..++...|++++|+..|++..+.... +..+|..+..++...|++++|+..|+++.+.+ +-+...|+.+..++.. .|.
T Consensus       173 g~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~  250 (382)
T 2h6f_A          173 RVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGY  250 (382)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCc
Confidence            88888888888888888888887654 78888888888888888888888888888765 3467788888888887 555


Q ss_pred             HHHH-----HHHHHHHHhCCCCcCHHHHHHHHHHHHHcC--ChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhC--
Q 017234          265 LDRV-----KSFLKFLLGGGWKINENMAQKLVKCYCELG--RVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSD--  335 (375)
Q Consensus       265 ~~~a-----~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--  335 (375)
                      .++|     ...+++.++.. +-+...|..+...+...|  ++++|.+.+.++ +  ..|+.... +..+...|.+.|  
T Consensus       251 ~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~--~~p~~~~a-l~~La~~~~~~~~~  325 (382)
T 2h6f_A          251 NDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q--PSHSSPYL-IAFLVDIYEDMLEN  325 (382)
T ss_dssp             CSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T--TTCCCHHH-HHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c--cCCCCHHH-HHHHHHHHHHHhcc
Confidence            4666     47777776643 335677888888888877  578888888777 3  34443332 777888887764  


Q ss_pred             -------CHHHHHHHHHHH
Q 017234          336 -------RLDDVEYSVGRM  347 (375)
Q Consensus       336 -------~~~~A~~~~~~m  347 (375)
                             .+++|.++|+++
T Consensus       326 ~~~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          326 QCDNKEDILNKALELCEIL  344 (382)
T ss_dssp             TCSSHHHHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHH
Confidence                   258888888887

>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=99.59  E-value=7.1e-13  Score=118.76  Aligned_cols=248  Identities=12%  Similarity=0.024  Sum_probs=203.3

Q ss_pred             ccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCC-hhHHHHHHHHHHHCCCCcCHhHHHHH
Q 017234           72 FSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQN-VPFAMHVFTSMEAQGIKPDSAVFNSL  149 (375)
Q Consensus        72 ~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~g~~p~~~~~~~l  149 (375)
                      ..|..+-.. ...|++++|++.    +++.....+.+..+|+.+...+.+.|+ +++|+..|++..+.. +-+...|+.+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~----~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~  172 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKL----TRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHR  172 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHH----HHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHH
Confidence            345555555 588999999999    566666777889999999999999997 999999999999875 3378899999


Q ss_pred             HHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHc-cC
Q 017234          150 ICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLK-AR  228 (375)
Q Consensus       150 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-~g  228 (375)
                      ..++.+.|++++|+..|+++.+..  +-+...|..+..++.+.|++++|+..|+++.+..+. +...|+.+..++.. .|
T Consensus       173 g~~~~~~g~~~eAl~~~~kal~ld--P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~  249 (382)
T 2h6f_A          173 RVLVEWLRDPSQELEFIADILNQD--AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTG  249 (382)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcC
Confidence            999999999999999999999832  446788999999999999999999999999998765 88999999999999 66


Q ss_pred             ChHHH-----HHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcC---
Q 017234          229 DFDSV-----DRFYEEMMSLGIIPSIPILEKVLEGLCARR--KLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELG---  298 (375)
Q Consensus       229 ~~~~a-----~~~~~~m~~~~~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---  298 (375)
                      ..++|     +..|++..+.. +-+...|..+...+...|  ++++|...+.++ +. -+.+...+..+..+|.+.|   
T Consensus       250 ~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~  326 (382)
T 2h6f_A          250 YNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQ  326 (382)
T ss_dssp             SCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTT
T ss_pred             cchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhccc
Confidence            65887     48888888764 345788888888888888  689999999888 43 3456788999999998874   


Q ss_pred             ------ChHHHHHHHHHH-HhCCCCCchHHHHHHHHHHHHHh
Q 017234          299 ------RVDELEEQLETL-TKCNQSPEVLLHFFSGIIRLYAL  333 (375)
Q Consensus       299 ------~~~~a~~~~~~~-~~~~~~~~~~~~~~~~li~~~~~  333 (375)
                            ..++|.++++++ .+  ..|..... |..+...+..
T Consensus       327 ~~~~~~~~~~A~~~~~~l~~~--~DP~r~~~-w~~~~~~l~~  365 (382)
T 2h6f_A          327 CDNKEDILNKALELCEILAKE--KDTIRKEY-WRYIGRSLQS  365 (382)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHT--TCGGGHHH-HHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHHH--hCchhHHH-HHHHHHHHHH
Confidence                  258999999999 66  45655543 6666655543

>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=99.59  E-value=6.5e-12  Score=107.41  Aligned_cols=222  Identities=9%  Similarity=-0.055  Sum_probs=190.4

Q ss_pred             cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc----cCChhHHHHHHHHHHHCCCCcCHhH
Q 017234           71 QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGK----VQNVPFAMHVFTSMEAQGIKPDSAV  145 (375)
Q Consensus        71 ~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~  145 (375)
                      ...+..+-.. ...|++++|.+.|+.    ...  ..+..++..+...+..    .+++++|...|++..+.+   +...
T Consensus         6 ~~a~~~lg~~~~~~~~~~~A~~~~~~----a~~--~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a   76 (273)
T 1ouv_A            6 PKELVGLGAKSYKEKDFTQAKKYFEK----ACD--LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNG   76 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHH----HHH--TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHH----HHH--CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHH
Confidence            3345555555 688999999999643    333  3456788889999999    999999999999999886   7889


Q ss_pred             HHHHHHHHHc----CCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHc----CCCHHHHHHHHHHHHHCCCCcCHHhH
Q 017234          146 FNSLICACLC----SGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSS----LGNVDAMNKWYAANIAAGFSVNVQTY  217 (375)
Q Consensus       146 ~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~  217 (375)
                      +..+...|..    .+++++|+..|++..+ .   -+...+..+...|..    .+++++|.+.|++..+.+   +...+
T Consensus        77 ~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~-~---~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~  149 (273)
T 1ouv_A           77 CHLLGNLYYSGQGVSQNTNKALQYYSKACD-L---KYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGC  149 (273)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHhCCCCcccCHHHHHHHHHHHHH-c---CCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHH
Confidence            9999999999    9999999999999998 3   377888899999999    999999999999999876   56778


Q ss_pred             HHHHHHHHc----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCcCHHHHHH
Q 017234          218 ESLIHGSLK----ARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA----RRKLDRVKSFLKFLLGGGWKINENMAQK  289 (375)
Q Consensus       218 ~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~  289 (375)
                      ..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..
T Consensus       150 ~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  223 (273)
T 1ouv_A          150 TILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFN  223 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHH
Confidence            888888888    999999999999998864   46778888889999    999999999999999875   3677888


Q ss_pred             HHHHHHH----cCChHHHHHHHHHHHhCC
Q 017234          290 LVKCYCE----LGRVDELEEQLETLTKCN  314 (375)
Q Consensus       290 li~~~~~----~g~~~~a~~~~~~~~~~~  314 (375)
                      +..+|..    .+++++|.+.|++..+.+
T Consensus       224 l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          224 LGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            8999998    999999999999998865

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.57  E-value=3.4e-13  Score=115.15  Aligned_cols=227  Identities=11%  Similarity=-0.055  Sum_probs=181.9

Q ss_pred             HhccCChhHHHHHHHHHHHCCC---CcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCC
Q 017234          118 SGKVQNVPFAMHVFTSMEAQGI---KPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGN  194 (375)
Q Consensus       118 ~~~~~~~~~a~~~~~~m~~~g~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~  194 (375)
                      ....|++++|...++++.+...   +.+..++..+...+...|++++|...|++..+.  .+.+..++..+...+...|+
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~   92 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGN   92 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTC
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHccC
Confidence            3456889999999999988632   124678999999999999999999999999873  24467889999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 017234          195 VDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKF  274 (375)
Q Consensus       195 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  274 (375)
                      +++|.+.|++..+.... +..++..+...|...|++++|...|+++.+..  |+.......+..+...|++++|...++.
T Consensus        93 ~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~  169 (275)
T 1xnf_A           93 FDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQ  169 (275)
T ss_dssp             HHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            99999999999987543 68899999999999999999999999998864  5444445555566778999999999988


Q ss_pred             HHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCc-hHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          275 LLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPE-VLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       275 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                      ..... +++...+ .++..+...++.++|...+++..+...... .....+..+...|.+.|++++|...|++..+..
T Consensus       170 ~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          170 HFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            87653 3444444 477778888899999999998865432110 012338889999999999999999999998753

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.55  E-value=1.1e-11  Score=108.11  Aligned_cols=209  Identities=6%  Similarity=0.001  Sum_probs=103.7

Q ss_pred             HhhcCCCCCHHHHHHHHHHHhc-------cCCh-------hHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHH
Q 017234           99 KMLKGNESCLDEYACLIALSGK-------VQNV-------PFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALS  164 (375)
Q Consensus        99 ~m~~~~~~~~~~~~~li~~~~~-------~~~~-------~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  164 (375)
                      +.....+.+...|..+...+..       .|++       ++|..+|++..+.-.+-+...|..++..+.+.|++++|..
T Consensus        41 ~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~  120 (308)
T 2ond_A           41 QCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHS  120 (308)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHH
Confidence            3333334455555555555542       3554       5566666555542112234455555555555666666666


Q ss_pred             HHHHHHhCCCCCCCh-h-cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHH-ccCChHHHHHHHHHHH
Q 017234          165 LFEIMVSSEEYKPNS-K-TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSL-KARDFDSVDRFYEEMM  241 (375)
Q Consensus       165 ~~~~m~~~~~~~~~~-~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~-~~g~~~~a~~~~~~m~  241 (375)
                      +|++..+   +.|+. . .|..+...+.+.|++++|..+|++..+... ++...|........ ..|++++|..+|++..
T Consensus       121 ~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al  196 (308)
T 2ond_A          121 IYNRLLA---IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGL  196 (308)
T ss_dssp             HHHHHHT---SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHh---ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            6665554   23322 2 455555555555556666666655555432 12333332222211 2455555555555555


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCc--CHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          242 SLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGG-WKI--NENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       242 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      +.. +-+...|..++..+.+.|+.++|..+|++..+.. +.|  ....|..++..+.+.|+.+.|..+++++.+
T Consensus       197 ~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          197 KKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            432 2234455555555555555555555555555542 232  244555555555555555555555555554

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.54  E-value=6.5e-12  Score=109.59  Aligned_cols=220  Identities=10%  Similarity=0.004  Sum_probs=175.9

Q ss_pred             hHHHHHHHHHHHCCCCcCHhHHHHHHHHHH-------cCCCh-------HHHHHHHHHHHhCCCCCCC-hhcHHHHHHHH
Q 017234          125 PFAMHVFTSMEAQGIKPDSAVFNSLICACL-------CSGDV-------VTALSLFEIMVSSEEYKPN-SKTYDAFISGF  189 (375)
Q Consensus       125 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~-------~~g~~-------~~a~~~~~~m~~~~~~~~~-~~~~~~ll~~~  189 (375)
                      ++|..+|++..+.. +-++..|..+...+.       +.|++       ++|..+|++..+  .+.|+ ...|..++..+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~--~~~p~~~~~~~~~~~~~  109 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIS--TLLKKNMLLYFAYADYE  109 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHT--TTTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHH--HhCcccHHHHHHHHHHH
Confidence            67888998888753 447788888888776       45886       899999999986  23454 45888999999


Q ss_pred             HcCCCHHHHHHHHHHHHHCCCCcCHH-hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCCHHH
Q 017234          190 SSLGNVDAMNKWYAANIAAGFSVNVQ-TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLC-ARRKLDR  267 (375)
Q Consensus       190 ~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~-~~g~~~~  267 (375)
                      .+.|++++|.++|++..+..+. +.. +|..+...+.+.|++++|..+|++..+.+ +++...|........ ..|+.++
T Consensus       110 ~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          110 ESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             HhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999986432 343 89999999999999999999999999865 334455544433322 3799999


Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC-CCCchHHHHHHHHHHHHHhhCCHHHHHHHHHH
Q 017234          268 VKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCN-QSPEVLLHFFSGIIRLYALSDRLDDVEYSVGR  346 (375)
Q Consensus       268 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  346 (375)
                      |..+|+...+.. +-+...|..++..+.+.|++++|..+|++..+.. ..|+.....|..++..+.+.|+.++|..++++
T Consensus       188 A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          188 AFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999998753 3467889999999999999999999999999863 35543333388999999999999999999999


Q ss_pred             HHhC
Q 017234          347 MGKQ  350 (375)
Q Consensus       347 m~~~  350 (375)
                      +.+.
T Consensus       267 a~~~  270 (308)
T 2ond_A          267 RFTA  270 (308)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9875

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.54  E-value=3.7e-13  Score=121.61  Aligned_cols=273  Identities=9%  Similarity=-0.025  Sum_probs=201.3

Q ss_pred             HHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCC----HHHHHHHHHHHhccCChhHHHHHHHHHHHC----CCCc-CH
Q 017234           74 WDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESC----LDEYACLIALSGKVQNVPFAMHVFTSMEAQ----GIKP-DS  143 (375)
Q Consensus        74 ~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~  143 (375)
                      +...-.. ...|++++|...++.++.    ..+.+    ..+|..+...+...|+++.|...+++..+.    +-.| ..
T Consensus        12 l~~~g~~~~~~g~~~~A~~~~~~al~----~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A           12 LALEGERLCKSGDCRAGVSFFEAAVQ----VGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH----HCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHh----cCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            3333444 699999999999654443    34434    467888999999999999999999886533    2222 25


Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC----hhcHHHHHHHHHcCCC--------------------HHHHH
Q 017234          144 AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN----SKTYDAFISGFSSLGN--------------------VDAMN  199 (375)
Q Consensus       144 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~~ll~~~~~~~~--------------------~~~a~  199 (375)
                      .++..+...+...|++++|...+++..+...-.++    ..++..+...|...|+                    +++|.
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            57888999999999999999999988762110112    3477888889999999                    99999


Q ss_pred             HHHHHHHHC----CCCc-CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHH
Q 017234          200 KWYAANIAA----GFSV-NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGI-IPS----IPILEKVLEGLCARRKLDRVK  269 (375)
Q Consensus       200 ~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~-~p~----~~~~~~li~~~~~~g~~~~a~  269 (375)
                      +.+++..+.    +..+ ...++..+...|...|++++|...+++..+... .++    ..++..+...+...|++++|.
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            998876542    2111 245788889999999999999999988865310 122    247888889999999999999


Q ss_pred             HHHHHHHhC----CCCc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC---CCchHHHHHHHHHHHHHhhCCHHHHH
Q 017234          270 SFLKFLLGG----GWKI-NENMAQKLVKCYCELGRVDELEEQLETLTKCNQ---SPEVLLHFFSGIIRLYALSDRLDDVE  341 (375)
Q Consensus       270 ~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~  341 (375)
                      ..+++..+.    +..+ ...++..+...|...|++++|...+++..+...   .+......+..+...|...|++++|.
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            999988643    2111 155788889999999999999999988765311   11122233888999999999999999


Q ss_pred             HHHHHHHhC
Q 017234          342 YSVGRMGKQ  350 (375)
Q Consensus       342 ~~~~~m~~~  350 (375)
                      ..+++..+.
T Consensus       328 ~~~~~al~~  336 (406)
T 3sf4_A          328 HFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.52  E-value=8.8e-13  Score=115.62  Aligned_cols=266  Identities=9%  Similarity=-0.019  Sum_probs=199.7

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCC----HHHHHHHHHHHhccCChhHHHHHHHHHHHC----CCCc-CHhHHHHHHH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESC----LDEYACLIALSGKVQNVPFAMHVFTSMEAQ----GIKP-DSAVFNSLIC  151 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~  151 (375)
                      ...|++++|...++.+++    ..+.+    ...+..+...+...|++++|...+++..+.    +-.| ...++..+..
T Consensus        16 ~~~g~~~~A~~~~~~al~----~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~   91 (338)
T 3ro2_A           16 CKSGDCRAGVSFFEAAVQ----VGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   91 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHH----HCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHh----hCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHH
Confidence            599999999999654443    34434    467889999999999999999999886543    2122 3567888999


Q ss_pred             HHHcCCChHHHHHHHHHHHhCCCCCCC----hhcHHHHHHHHHcCCC--------------------HHHHHHHHHHHHH
Q 017234          152 ACLCSGDVVTALSLFEIMVSSEEYKPN----SKTYDAFISGFSSLGN--------------------VDAMNKWYAANIA  207 (375)
Q Consensus       152 ~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~m~~  207 (375)
                      .+...|++++|...+++..+...-.++    ..++..+...+...|+                    +++|.+.+++..+
T Consensus        92 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~  171 (338)
T 3ro2_A           92 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLS  171 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            999999999999999987652111122    3377888889999999                    9999999887654


Q ss_pred             C----CC-CcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          208 A----GF-SVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGI-IPS----IPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       208 ~----~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~-~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      .    +. .....++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...+++..+
T Consensus       172 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  251 (338)
T 3ro2_A          172 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLL  251 (338)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2    11 11245788888999999999999999988865310 111    24788888899999999999999998864


Q ss_pred             C----CCCc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC---CCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          278 G----GWKI-NENMAQKLVKCYCELGRVDELEEQLETLTKCN---QSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       278 ~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      .    +..+ ...++..+...|...|++++|...+++..+..   ..+......+..+...|.+.|++++|...+++..+
T Consensus       252 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          252 LARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            3    1111 15577888999999999999999998876531   11222222378899999999999999999999886


Q ss_pred             C
Q 017234          350 Q  350 (375)
Q Consensus       350 ~  350 (375)
                      .
T Consensus       332 ~  332 (338)
T 3ro2_A          332 I  332 (338)
T ss_dssp             C
T ss_pred             H
Confidence            5

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.52  E-value=2.3e-10  Score=106.45  Aligned_cols=223  Identities=10%  Similarity=0.017  Sum_probs=124.5

Q ss_pred             HHHHHHHHHHHhc----cCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHc----CCChHHHHHHHHHHHhCCCCCCCh
Q 017234          108 LDEYACLIALSGK----VQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLC----SGDVVTALSLFEIMVSSEEYKPNS  179 (375)
Q Consensus       108 ~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~  179 (375)
                      ...+..+...|..    .+++++|...|++..+.|   +...+..+...|..    .+++++|..+|++..+ .   .+.
T Consensus       183 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~-~---~~~  255 (490)
T 2xm6_A          183 VWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAE-Q---GNS  255 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHT-T---TCH
T ss_pred             HHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH-C---CCH
Confidence            4444444444444    445555555555544433   33444444444443    4455555555555544 1   223


Q ss_pred             hcHHHHHHHHHc----CCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHcc-----CChHHHHHHHHHHHHCCCCCCHH
Q 017234          180 KTYDAFISGFSS----LGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKA-----RDFDSVDRFYEEMMSLGIIPSIP  250 (375)
Q Consensus       180 ~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-----g~~~~a~~~~~~m~~~~~~p~~~  250 (375)
                      ..+..+...|..    .++.++|.++|++..+.|   +...+..+...|...     +++++|...|++..+.|   +..
T Consensus       256 ~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~  329 (490)
T 2xm6_A          256 IAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DAT  329 (490)
T ss_dssp             HHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHH
Confidence            344444444444    555666666666555443   334455555555554     56666666666666543   334


Q ss_pred             HHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCchHHHH
Q 017234          251 ILEKVLEGLCARR---KLDRVKSFLKFLLGGGWKINENMAQKLVKCYCE----LGRVDELEEQLETLTKCNQSPEVLLHF  323 (375)
Q Consensus       251 ~~~~li~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~  323 (375)
                      .+..+...|...|   +.++|...+++..+.|   +...+..|...|..    .+++++|...|++..+.+.   ...  
T Consensus       330 a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~---~~a--  401 (490)
T 2xm6_A          330 AQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGL---SAA--  401 (490)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHH--
T ss_pred             HHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCC---HHH--
Confidence            4555555555544   5666666666666653   45666666666666    6777777777777766541   222  


Q ss_pred             HHHHHHHHHh----hCCHHHHHHHHHHHHhCC
Q 017234          324 FSGIIRLYAL----SDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       324 ~~~li~~~~~----~g~~~~A~~~~~~m~~~~  351 (375)
                      +..+...|.+    .+++++|...|++..+.+
T Consensus       402 ~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          402 QVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            5566666666    677777777777777665

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.51  E-value=4.2e-13  Score=121.80  Aligned_cols=267  Identities=9%  Similarity=-0.032  Sum_probs=202.0

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCH----HHHHHHHHHHhccCChhHHHHHHHHHHHC----CC-CcCHhHHHHHHH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCL----DEYACLIALSGKVQNVPFAMHVFTSMEAQ----GI-KPDSAVFNSLIC  151 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~-~p~~~~~~~li~  151 (375)
                      ...|++++|...++.+++    ..+.+.    .+|..+...+...|++++|...+++..+.    +- +....++..+..
T Consensus        59 ~~~g~~~~A~~~~~~al~----~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  134 (411)
T 4a1s_A           59 CNAGDCRAGVAFFQAAIQ----AGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGN  134 (411)
T ss_dssp             HHTTCHHHHHHHHHHHHH----HCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHH----hcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHH
Confidence            699999999999654443    344443    57889999999999999999999987643    21 224567889999


Q ss_pred             HHHcCCChHHHHHHHHHHHhCC---C-CCCChhcHHHHHHHHHcCCC-----------------HHHHHHHHHHHHHC--
Q 017234          152 ACLCSGDVVTALSLFEIMVSSE---E-YKPNSKTYDAFISGFSSLGN-----------------VDAMNKWYAANIAA--  208 (375)
Q Consensus       152 ~~~~~g~~~~a~~~~~~m~~~~---~-~~~~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~~m~~~--  208 (375)
                      .+...|++++|...+++..+..   + .+....++..+...|...|+                 +++|.+.+++..+.  
T Consensus       135 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~  214 (411)
T 4a1s_A          135 TLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMR  214 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999887621   1 11234577888889999999                 99999998876542  


Q ss_pred             --CC-CcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-
Q 017234          209 --GF-SVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGI-IPS----IPILEKVLEGLCARRKLDRVKSFLKFLLGGG-  279 (375)
Q Consensus       209 --~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~-~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-  279 (375)
                        +. .....++..+...|...|++++|...+++..+... .++    ...+..+...+...|++++|...+++..+.. 
T Consensus       215 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  294 (411)
T 4a1s_A          215 DLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAV  294 (411)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence              11 12345788889999999999999999998875311 112    2378888899999999999999999886531 


Q ss_pred             ---CC-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC---CCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          280 ---WK-INENMAQKLVKCYCELGRVDELEEQLETLTKCNQ---SPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       280 ---~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                         .. ....++..+...|...|++++|...+++..+...   .+......+..+...|...|++++|...|++..+..
T Consensus       295 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  373 (411)
T 4a1s_A          295 ELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLA  373 (411)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence               11 1256788899999999999999999998765311   111222238889999999999999999999988753

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.51  E-value=4e-10  Score=104.84  Aligned_cols=245  Identities=13%  Similarity=0.035  Sum_probs=122.0

Q ss_pred             cCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc----cCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHc---
Q 017234           83 SSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGK----VQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLC---  155 (375)
Q Consensus        83 ~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~---  155 (375)
                      .+++++|.+.|+    +....+  +...+..+...|..    .+++++|...|++..+.|   +...+..+...|..   
T Consensus        92 ~~~~~~A~~~~~----~a~~~~--~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g  162 (490)
T 2xm6_A           92 PQDYAQAVIWYK----KAALKG--LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDG  162 (490)
T ss_dssp             CCCHHHHHHHHH----HHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSS
T ss_pred             CCCHHHHHHHHH----HHHHCC--CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCC
Confidence            455556655532    222222  34444445555544    455555555555555443   34444444444444   


Q ss_pred             -CCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHc----CCCHHHHHHHHHHHHHCCCC-------------------
Q 017234          156 -SGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSS----LGNVDAMNKWYAANIAAGFS-------------------  211 (375)
Q Consensus       156 -~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~-------------------  211 (375)
                       .+++++|.+.|++..+ .   .+...+..+...|..    .++.++|.++|++..+.|..                   
T Consensus       163 ~~~d~~~A~~~~~~a~~-~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~  238 (490)
T 2xm6_A          163 VTRDYVMAREWYSKAAE-Q---GNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVTQD  238 (490)
T ss_dssp             SCCCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCC
T ss_pred             CCCCHHHHHHHHHHHHH-C---CCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCC
Confidence             4455555555555544 1   233444444444444    44455555555444443210                   


Q ss_pred             --------------cCHHhHHHHHHHHHc----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----CCHHHH
Q 017234          212 --------------VNVQTYESLIHGSLK----ARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCAR-----RKLDRV  268 (375)
Q Consensus       212 --------------~~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----g~~~~a  268 (375)
                                    .+...+..+...|..    .+++++|...|++..+.|   +...+..+...|...     ++.++|
T Consensus       239 ~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A  315 (490)
T 2xm6_A          239 YTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQA  315 (490)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHH
Confidence                          123334444444444    455555555555554432   233444444455444     556666


Q ss_pred             HHHHHHHHhCCCCcCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHh----hCCHHHHH
Q 017234          269 KSFLKFLLGGGWKINENMAQKLVKCYCELG---RVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYAL----SDRLDDVE  341 (375)
Q Consensus       269 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~  341 (375)
                      ...+++..+.|   +...+..+...|...|   ++++|.+.|++..+.+   +...  +..+...|..    .+++++|.
T Consensus       316 ~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a--~~~Lg~~y~~g~g~~~~~~~A~  387 (490)
T 2xm6_A          316 ISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAA--QFNLGNALLQGKGVKKDEQQAA  387 (490)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHH--HHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHH--HHHHHHHHHcCCCCCCCHHHHH
Confidence            66666555544   3344555555555544   5566666666665542   1222  5556666666    56777777


Q ss_pred             HHHHHHHhCC
Q 017234          342 YSVGRMGKQG  351 (375)
Q Consensus       342 ~~~~~m~~~~  351 (375)
                      ..|++..+.|
T Consensus       388 ~~~~~A~~~~  397 (490)
T 2xm6_A          388 IWMRKAAEQG  397 (490)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHhCC
Confidence            7777776654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.51  E-value=2.6e-13  Score=117.97  Aligned_cols=240  Identities=10%  Similarity=0.051  Sum_probs=151.2

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHC-------CCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCC-----C
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQ-------GIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSE-----E  174 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~  174 (375)
                      +..++..+...+...|++++|...++++.+.       ..+....++..+...+...|++++|...+++..+..     +
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            3566777777778888888888888777652       223345567777778888888888888887776520     1


Q ss_pred             -CCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC------CC-CcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC---
Q 017234          175 -YKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAA------GF-SVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL---  243 (375)
Q Consensus       175 -~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~---  243 (375)
                       .+....++..+...|...|++++|.+.+++..+.      +. .....++..+...+...|++++|.+.+++..+.   
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             1223456677777888888888888888877653      11 224556777788888888888888888887653   


Q ss_pred             ---CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-------CCCcC-------HHHHHHHHHHHHHcCChHHHHH
Q 017234          244 ---GIIP-SIPILEKVLEGLCARRKLDRVKSFLKFLLGG-------GWKIN-------ENMAQKLVKCYCELGRVDELEE  305 (375)
Q Consensus       244 ---~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-------~~~~~-------~~~~~~li~~~~~~g~~~~a~~  305 (375)
                         +-.| ...++..+...+...|++++|...++++.+.       ...+.       ...+..+...+...+.+.++..
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  265 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGG  265 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence               1122 2356777778888888888888888887652       11111       1223333344445566666666


Q ss_pred             HHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          306 QLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      .++.....  .|.. ...+..+...|.+.|++++|.+.|++..+
T Consensus       266 ~~~~~~~~--~~~~-~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          266 WYKACKVD--SPTV-TTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ----------CHHH-HHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhcCCC--CchH-HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            66666542  2322 23388899999999999999999988765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.50  E-value=1.2e-12  Score=121.26  Aligned_cols=203  Identities=10%  Similarity=-0.036  Sum_probs=121.0

Q ss_pred             HHhhcCCCCCHHHHHHHHHHHhccCCh-hHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCC
Q 017234           98 DKMLKGNESCLDEYACLIALSGKVQNV-PFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYK  176 (375)
Q Consensus        98 ~~m~~~~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  176 (375)
                      ++.......+...+..+...+...|++ ++|.+.|++..+.. +-+...|..+..+|.+.|++++|.+.|++..+   ..
T Consensus        92 ~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~---~~  167 (474)
T 4abn_A           92 EEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALT---HC  167 (474)
T ss_dssp             HHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT---TC
T ss_pred             HHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hC
Confidence            333333444566666666666666666 66666666666553 22455666666666666666666666666665   23


Q ss_pred             CChhcHHHHHHHHHcC---------CCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHcc--------CChHHHHHHHHH
Q 017234          177 PNSKTYDAFISGFSSL---------GNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKA--------RDFDSVDRFYEE  239 (375)
Q Consensus       177 ~~~~~~~~ll~~~~~~---------~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~--------g~~~~a~~~~~~  239 (375)
                      |+...+..+...+...         |++++|.+.|++..+.... +...|..+..+|...        |++++|...|++
T Consensus       168 p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~  246 (474)
T 4abn_A          168 KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQ  246 (474)
T ss_dssp             CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHH
Confidence            5555666666666666         6666666666666655433 556666666666665        666666666666


Q ss_pred             HHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHH
Q 017234          240 MMSLGII---PSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQL  307 (375)
Q Consensus       240 m~~~~~~---p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  307 (375)
                      ..+.. +   -+...|..+..+|...|++++|...|++..+.. +.+...+..+..++...|++++|.+.+
T Consensus       247 al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          247 AEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            65542 1   245556666666666666666666666665543 234445555556666666655555443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.50  E-value=8.1e-12  Score=100.04  Aligned_cols=167  Identities=14%  Similarity=0.063  Sum_probs=100.3

Q ss_pred             ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 017234          178 NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLE  257 (375)
Q Consensus       178 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  257 (375)
                      ++.+|..+...|.+.|++++|.+.|++..+..+. +..++..+..+|...|++++|...++...... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            3445666666666666666666666666655433 55566666666666666666666666665543 233445555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCH
Q 017234          258 GLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRL  337 (375)
Q Consensus       258 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  337 (375)
                      .+...++++.+...+.+..+.. +.+...+..+..+|.+.|++++|.+.|++..+.+  |+.... |..+..+|.+.|++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~-~~~lg~~~~~~g~~  157 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK--PGFIRA-YQSIGLAYEGKGLR  157 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHTTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc--chhhhH-HHHHHHHHHHCCCH
Confidence            6666666666666666665543 3345566666666666677777776666666533  322221 66666667777777


Q ss_pred             HHHHHHHHHHHhC
Q 017234          338 DDVEYSVGRMGKQ  350 (375)
Q Consensus       338 ~~A~~~~~~m~~~  350 (375)
                      ++|+..|++..+.
T Consensus       158 ~~A~~~~~~al~~  170 (184)
T 3vtx_A          158 DEAVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC
Confidence            7777777666653

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.48  E-value=4.6e-11  Score=110.37  Aligned_cols=272  Identities=12%  Similarity=0.025  Sum_probs=142.0

Q ss_pred             CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcC-----CCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHC-----C
Q 017234           70 SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKG-----NESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQ-----G  138 (375)
Q Consensus        70 ~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~-----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g  138 (375)
                      ....||.|-.. ...|+.++|++.|+..++.....     .+....+|+.+...|...|++++|...+++..+.     +
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            34456666555 57777777777766554432221     1234566777777777777777777777665432     0


Q ss_pred             -CC-cCHhHHHHHHHHHHc--CCChHHHHHHHHHHHhCCCCCCC-hhcHHHHHHH---HHcCCCHHHHHHHHHHHHHCCC
Q 017234          139 -IK-PDSAVFNSLICACLC--SGDVVTALSLFEIMVSSEEYKPN-SKTYDAFISG---FSSLGNVDAMNKWYAANIAAGF  210 (375)
Q Consensus       139 -~~-p~~~~~~~li~~~~~--~g~~~~a~~~~~~m~~~~~~~~~-~~~~~~ll~~---~~~~~~~~~a~~~~~~m~~~~~  210 (375)
                       .. ....++..+..++.+  .+++++|++.|++..+.   .|+ ...+..+..+   +...++.++|++.+++..+..+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~---~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p  206 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK---KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNP  206 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCS
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCC
Confidence             01 123455555444443  34577777777777652   333 2333333333   3344556666666666665443


Q ss_pred             CcCHHhHHHHHHHHHc----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHH
Q 017234          211 SVNVQTYESLIHGSLK----ARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENM  286 (375)
Q Consensus       211 ~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  286 (375)
                      . +..++..+...+..    .|++++|.+.+++..... +.+...+..+...+...|++++|...+++..+.. +-+..+
T Consensus       207 ~-~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~  283 (472)
T 4g1t_A          207 D-NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYL  283 (472)
T ss_dssp             S-CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             c-chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHH
Confidence            2 44445444444333    345666666666665543 3445566666666777777777777776665542 223444


Q ss_pred             HHHHHHHHHHc-------------------CChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHH
Q 017234          287 AQKLVKCYCEL-------------------GRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRM  347 (375)
Q Consensus       287 ~~~li~~~~~~-------------------g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  347 (375)
                      +..+..+|...                   +.++.|...+++..+.+.... ..  +..+...|...|++++|...|++.
T Consensus       284 ~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~-~~--~~~lg~~~~~~~~~~~A~~~~~ka  360 (472)
T 4g1t_A          284 HCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLF-RV--CSILASLHALADQYEEAEYYFQKE  360 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTC-CC--HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchh-hh--hhhHHHHHHHhccHHHHHHHHHHH
Confidence            44444333221                   123344444544444322111 11  445555555555666666555555


Q ss_pred             HhC
Q 017234          348 GKQ  350 (375)
Q Consensus       348 ~~~  350 (375)
                      .+.
T Consensus       361 L~~  363 (472)
T 4g1t_A          361 FSK  363 (472)
T ss_dssp             HHS
T ss_pred             Hhc
Confidence            544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.48  E-value=8.7e-12  Score=99.87  Aligned_cols=166  Identities=10%  Similarity=0.017  Sum_probs=88.2

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHH
Q 017234          142 DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLI  221 (375)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll  221 (375)
                      +..+|..+...+.+.|++++|++.|++..+..  +-+..++..+...|.+.|++++|...+......... +...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD--PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHH
Confidence            34455555555555555555555555555411  223344555555555555555555555555544332 444455555


Q ss_pred             HHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChH
Q 017234          222 HGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVD  301 (375)
Q Consensus       222 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  301 (375)
                      ..+...++++.|...+.+..... +.+...+..+...+.+.|++++|...+++..+.. +.+..++..+..+|.+.|+++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHH
Confidence            55555555555555555555432 2334455555555555566666666655555442 234455555556666666666


Q ss_pred             HHHHHHHHHHh
Q 017234          302 ELEEQLETLTK  312 (375)
Q Consensus       302 ~a~~~~~~~~~  312 (375)
                      +|.+.|++..+
T Consensus       159 ~A~~~~~~al~  169 (184)
T 3vtx_A          159 EAVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            66666665554

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.48  E-value=2.3e-10  Score=105.71  Aligned_cols=308  Identities=8%  Similarity=-0.121  Sum_probs=212.8

Q ss_pred             ccchHHHHHHhhcCCcc-hHHHHHHHhhh-------ccCCCC-cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCC--
Q 017234           37 VSSSNPLISRLLQVPVS-QIKTTLDSVDI-------FAFNSS-QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGN--  104 (375)
Q Consensus        37 ~~~~~~ll~~l~~~~~~-~~~~~~~~m~~-------~~~~p~-~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~--  104 (375)
                      ...||.|-..+...|+. +|.+.+.+...       ....|+ ..+|+.+... ...|++++|...++.+..-.....  
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            45688877777777765 66666654421       122343 4578888888 799999999999776554433322  


Q ss_pred             --CCCHHHHHHHHHHHhc--cCChhHHHHHHHHHHHCCCCcCHhHHHHHHHH---HHcCCChHHHHHHHHHHHhCCCCCC
Q 017234          105 --ESCLDEYACLIALSGK--VQNVPFAMHVFTSMEAQGIKPDSAVFNSLICA---CLCSGDVVTALSLFEIMVSSEEYKP  177 (375)
Q Consensus       105 --~~~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~---~~~~g~~~~a~~~~~~m~~~~~~~~  177 (375)
                        .....++.....++.+  .+++++|...|++..+.. +-++..+..+..+   +...++.++|++.+++..+..  +.
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~--p~  207 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN--PD  207 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC--SS
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC--Cc
Confidence              1245667666655554  457999999999998764 2245555555544   445688899999999888722  33


Q ss_pred             ChhcHHHHHHHHHc----CCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHH
Q 017234          178 NSKTYDAFISGFSS----LGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILE  253 (375)
Q Consensus       178 ~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  253 (375)
                      +..++..+...+..    .++.++|.+.+++.....+. +..++..+...|...|++++|...+++..+.. +-+..++.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHH
Confidence            45556555555544    45678999999998887644 78889999999999999999999999998864 33456666


Q ss_pred             HHHHHHHhc-------------------CCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          254 KVLEGLCAR-------------------RKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       254 ~li~~~~~~-------------------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      .+..+|...                   +..+.|...++...+.. +.+..++..+...|...|++++|...|++..+..
T Consensus       286 ~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~  364 (472)
T 4g1t_A          286 QIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKE  364 (472)
T ss_dssp             HHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcC
Confidence            666555422                   23566777777776653 3455678889999999999999999999998876


Q ss_pred             CCCchHHHHHHHHHH-HHHhhCCHHHHHHHHHHHHhC
Q 017234          315 QSPEVLLHFFSGIIR-LYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       315 ~~~~~~~~~~~~li~-~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ..+......+..+.. .+...|++++|+..|++..+.
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            555433222333332 245779999999999988764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.47  E-value=1.8e-10  Score=108.24  Aligned_cols=148  Identities=8%  Similarity=0.036  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 017234          197 AMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPS--IPILEKVLEGLCARRKLDRVKSFLKF  274 (375)
Q Consensus       197 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~  274 (375)
                      +|.++|++..+.-.+.+...|..++..+.+.|++++|..+|++..+.  .|+  ...|...+..+.+.|++++|..+|++
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  381 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  381 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            44555554443111123444444455555555555555555554443  222  12444444444444455555555554


Q ss_pred             HHhCCCCcCHHHHHHHHHH-HHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          275 LLGGGWKINENMAQKLVKC-YCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       275 ~~~~~~~~~~~~~~~li~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ..+.. +.+...|...... +...|+.++|..+|+...+..  |+... .|..++..+.+.|+.++|..+|++....
T Consensus       382 Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~-~~~~~~~~~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          382 AREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPE-YVLAYIDYLSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             HHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHH-HHHHHHHHHTTTTCHHHHHHHHHHHHHS
T ss_pred             HHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHH-HHHHHHHHHHhCCCHhhHHHHHHHHHhc
Confidence            44431 1111112111111 123444555555554444322  21111 1444444444445555555555444443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.47  E-value=3.2e-12  Score=118.41  Aligned_cols=215  Identities=10%  Similarity=-0.004  Sum_probs=182.2

Q ss_pred             ChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCCh-HHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHH
Q 017234          123 NVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDV-VTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKW  201 (375)
Q Consensus       123 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  201 (375)
                      .++.+.+.++...+.. +.+...+..+...+...|++ ++|++.|++..+..  +.+...|..+...|...|++++|.+.
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE--PELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            3566777777666543 34788999999999999999 99999999998732  34578899999999999999999999


Q ss_pred             HHHHHHCCCCcCHHhHHHHHHHHHcc---------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--------CC
Q 017234          202 YAANIAAGFSVNVQTYESLIHGSLKA---------RDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCAR--------RK  264 (375)
Q Consensus       202 ~~~m~~~~~~~~~~~~~~ll~~~~~~---------g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~--------g~  264 (375)
                      |++..+..  |+...+..+...+...         |++++|...|++..+.. +.+...|..+..+|...        |+
T Consensus       160 ~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          160 FSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccch
Confidence            99999875  6678999999999999         99999999999998875 44678899999999988        99


Q ss_pred             HHHHHHHHHHHHhCCCC---cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHH
Q 017234          265 LDRVKSFLKFLLGGGWK---INENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVE  341 (375)
Q Consensus       265 ~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  341 (375)
                      +++|...+++..+.. +   .+...|..+..+|...|++++|...|++..+..  |+.... +..+...+...|++++|+
T Consensus       237 ~~~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~a-~~~l~~~~~~lg~~~eAi  312 (474)
T 4abn_A          237 SQQALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD--PAWPEP-QQREQQLLEFLSRLTSLL  312 (474)
T ss_dssp             HHHHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHH-HHHHHHHHHHHHHHHHHH
Confidence            999999999998853 2   488899999999999999999999999998854  443322 788889999999999999


Q ss_pred             HHHHHH
Q 017234          342 YSVGRM  347 (375)
Q Consensus       342 ~~~~~m  347 (375)
                      ..+.++
T Consensus       313 ~~~~~~  318 (474)
T 4abn_A          313 ESKGKT  318 (474)
T ss_dssp             HHTTTC
T ss_pred             HHhccc
Confidence            876544

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.43  E-value=2.4e-11  Score=109.26  Aligned_cols=234  Identities=8%  Similarity=0.009  Sum_probs=177.4

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHC----CCCc-CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCC-----ChhcH
Q 017234          113 CLIALSGKVQNVPFAMHVFTSMEAQ----GIKP-DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKP-----NSKTY  182 (375)
Q Consensus       113 ~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-----~~~~~  182 (375)
                      .....+...|++++|...+++..+.    +-.+ ...++..+...+...|++++|...+++..+...-.+     ...++
T Consensus       108 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  187 (383)
T 3ulq_A          108 FRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCH  187 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHH
Confidence            3666778999999999999998764    2122 346889999999999999999999998876211112     23578


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHCCC----Cc-CHHhHHHHHHHHHccCChHHHHHHHHHHHHC----CC-CCCHHHH
Q 017234          183 DAFISGFSSLGNVDAMNKWYAANIAAGF----SV-NVQTYESLIHGSLKARDFDSVDRFYEEMMSL----GI-IPSIPIL  252 (375)
Q Consensus       183 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~----~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~-~p~~~~~  252 (375)
                      +.+...|...|++++|.+.|++..+...    .+ ...++..+...|...|++++|.+.|++..+.    +. +....++
T Consensus       188 ~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  267 (383)
T 3ulq_A          188 SLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAY  267 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHH
Confidence            8889999999999999999998765311    11 1357888999999999999999999998762    32 3335778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC----CCCcCHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhCCCCCchHHHHHH
Q 017234          253 EKVLEGLCARRKLDRVKSFLKFLLGG----GWKINENMAQKLVKCYCELGR---VDELEEQLETLTKCNQSPEVLLHFFS  325 (375)
Q Consensus       253 ~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~~  325 (375)
                      ..+...+.+.|++++|...+++..+.    +-+.....+..+...|...|+   +++|..++++.   +..|.... .+.
T Consensus       268 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~-~~~  343 (383)
T 3ulq_A          268 FLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLED-FAI  343 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHH-HHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHH-HHH
Confidence            89999999999999999999988653    111222335667888888999   66666666654   33333322 378


Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          326 GIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       326 ~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .+...|...|++++|...|++..+.
T Consensus       344 ~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          344 DVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            8999999999999999999988763

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.42  E-value=1.2e-12  Score=113.75  Aligned_cols=241  Identities=12%  Similarity=0.072  Sum_probs=168.9

Q ss_pred             cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcC----CCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHC------CC
Q 017234           71 QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKG----NESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQ------GI  139 (375)
Q Consensus        71 ~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~  139 (375)
                      ..+|..+... ...|++++|...++.++......    ......++..+...+...|++++|...+++..+.      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            4556666666 69999999999976665544332    2245778889999999999999999999988754      22


Q ss_pred             -CcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCC-----CC-CCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC----
Q 017234          140 -KPDSAVFNSLICACLCSGDVVTALSLFEIMVSSE-----EY-KPNSKTYDAFISGFSSLGNVDAMNKWYAANIAA----  208 (375)
Q Consensus       140 -~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----  208 (375)
                       +....++..+...+...|++++|...+++..+..     +- +....++..+...+...|++++|.+++++..+.    
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence             2346688999999999999999999999988621     11 223456788899999999999999999998764    


Q ss_pred             --CCCc-CHHhHHHHHHHHHccCChHHHHHHHHHHHHC-------CCCCCH-------HHHHHHHHHHHhcCCHHHHHHH
Q 017234          209 --GFSV-NVQTYESLIHGSLKARDFDSVDRFYEEMMSL-------GIIPSI-------PILEKVLEGLCARRKLDRVKSF  271 (375)
Q Consensus       209 --~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-------~~~p~~-------~~~~~li~~~~~~g~~~~a~~~  271 (375)
                        +..| ...++..+...|...|++++|...+++..+.       ...+..       ..+..+...+...+.+.++...
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  266 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGW  266 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC--
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence              2122 4567888999999999999999999998753       111211       1222233333445556666666


Q ss_pred             HHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          272 LKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      +....... +.+..++..+..+|.+.|++++|.+.+++..+
T Consensus       267 ~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          267 YKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             -------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            66665432 34567788999999999999999999998765

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.41  E-value=1.4e-11  Score=111.25  Aligned_cols=296  Identities=11%  Similarity=0.012  Sum_probs=214.3

Q ss_pred             HHHHHHhhcCCcc-hHHHHHHHhhhccCCC-C--cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC--CCHHHHHH
Q 017234           41 NPLISRLLQVPVS-QIKTTLDSVDIFAFNS-S--QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE--SCLDEYAC  113 (375)
Q Consensus        41 ~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p-~--~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~--~~~~~~~~  113 (375)
                      ...-..+...++. ++...++......... .  ...|..+... ...|++++|...++..+......+.  ....++..
T Consensus        13 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   92 (406)
T 3sf4_A           13 ALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   92 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHH
Confidence            3334556666765 7788888886653221 1  2456666666 6999999999998776665554443  23667888


Q ss_pred             HHHHHhccCChhHHHHHHHHHHHCC----CC-cCHhHHHHHHHHHHcCCC--------------------hHHHHHHHHH
Q 017234          114 LIALSGKVQNVPFAMHVFTSMEAQG----IK-PDSAVFNSLICACLCSGD--------------------VVTALSLFEI  168 (375)
Q Consensus       114 li~~~~~~~~~~~a~~~~~~m~~~g----~~-p~~~~~~~li~~~~~~g~--------------------~~~a~~~~~~  168 (375)
                      +...+...|++++|...+++..+..    -. ....++..+...+...|+                    +++|.+.+++
T Consensus        93 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  172 (406)
T 3sf4_A           93 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEE  172 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            9999999999999999998876531    11 114488889999999999                    9999999987


Q ss_pred             HHhC---CCCCC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-cC----HHhHHHHHHHHHccCChHHHHHHHHH
Q 017234          169 MVSS---EEYKP-NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFS-VN----VQTYESLIHGSLKARDFDSVDRFYEE  239 (375)
Q Consensus       169 m~~~---~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~ll~~~~~~g~~~~a~~~~~~  239 (375)
                      ..+.   .+-.| ...++..+...|...|++++|...+++..+.... ++    ..++..+...|...|++++|...+++
T Consensus       173 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  252 (406)
T 3sf4_A          173 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  252 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            7541   11111 2346788889999999999999999987653111 11    34788899999999999999999998


Q ss_pred             HHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCc-CHHHHHHHHHHHHHcCChHHHHHHHHH
Q 017234          240 MMSL----GIIPS-IPILEKVLEGLCARRKLDRVKSFLKFLLGG----GWKI-NENMAQKLVKCYCELGRVDELEEQLET  309 (375)
Q Consensus       240 m~~~----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~  309 (375)
                      ....    +..+. ..++..+...+...|++++|...+++..+.    +-.+ ...++..+...|...|++++|...+++
T Consensus       253 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  332 (406)
T 3sf4_A          253 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  332 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8653    11111 457888889999999999999999988653    1111 155788899999999999999999988


Q ss_pred             HHhC----CCCCchHHHHHHHHHHHHHhhCCH
Q 017234          310 LTKC----NQSPEVLLHFFSGIIRLYALSDRL  337 (375)
Q Consensus       310 ~~~~----~~~~~~~~~~~~~li~~~~~~g~~  337 (375)
                      ..+.    +..+ .....+..+...+...|+.
T Consensus       333 al~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          333 HLEISREVGDKS-GELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHTTCHH-HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcCCc-chhHHHHHHHHHHHHhhHh
Confidence            6543    2222 2223377788888888765

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.40  E-value=4.8e-10  Score=105.38  Aligned_cols=300  Identities=9%  Similarity=0.025  Sum_probs=175.5

Q ss_pred             cccchHHHHHHhhcCCcc-hHHHHHHHhhhccCCC-CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHH
Q 017234           36 SVSSSNPLISRLLQVPVS-QIKTTLDSVDIFAFNS-SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYA  112 (375)
Q Consensus        36 ~~~~~~~ll~~l~~~~~~-~~~~~~~~m~~~~~~p-~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~  112 (375)
                      +...+..++.. .+.++. ++..+++.+..  ..| +...|...+.. .+.|++++|..+    +++..... |+...|.
T Consensus        12 ~~~~w~~l~~~-~~~~~~~~a~~~~e~al~--~~P~~~~~w~~~~~~~~~~~~~~~a~~~----~~ral~~~-p~~~lw~   83 (530)
T 2ooe_A           12 DLDAWSILIRE-AQNQPIDKARKTYERLVA--QFPSSGRFWKLYIEAEIKAKNYDKVEKL----FQRCLMKV-LHIDLWK   83 (530)
T ss_dssp             CHHHHHHHHHH-HHSSCHHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHH----HHHHTTTC-CCHHHHH
T ss_pred             CHHHHHHHHHH-HHhCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHhcCCHHHHHHH----HHHHHhcC-CChHHHH
Confidence            45577777774 555554 77899999865  344 45568888888 789999999999    56665544 6777777


Q ss_pred             HHHHHH-hccCChhHHHH----HHHHHHH-CCCCc-CHhHHHHHHHHHHc---------CCChHHHHHHHHHHHhCCCCC
Q 017234          113 CLIALS-GKVQNVPFAMH----VFTSMEA-QGIKP-DSAVFNSLICACLC---------SGDVVTALSLFEIMVSSEEYK  176 (375)
Q Consensus       113 ~li~~~-~~~~~~~~a~~----~~~~m~~-~g~~p-~~~~~~~li~~~~~---------~g~~~~a~~~~~~m~~~~~~~  176 (375)
                      ..+... ...|+++.|.+    +|+...+ .|..| +...|...+....+         .|++++|..+|++..+ ....
T Consensus        84 ~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~-~P~~  162 (530)
T 2ooe_A           84 CYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCV-NPMI  162 (530)
T ss_dssp             HHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTT-SCCT
T ss_pred             HHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHh-chhh
Confidence            777533 45678777765    7766654 35444 56788888887655         6889999999999987 2111


Q ss_pred             CChhcHHHHHHHH-------------HcCCCHHHHHHHHHH---------------------------------------
Q 017234          177 PNSKTYDAFISGF-------------SSLGNVDAMNKWYAA---------------------------------------  204 (375)
Q Consensus       177 ~~~~~~~~ll~~~-------------~~~~~~~~a~~~~~~---------------------------------------  204 (375)
                      +....|.......             .+.+++..|..++.+                                       
T Consensus       163 ~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~  242 (530)
T 2ooe_A          163 NIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKS  242 (530)
T ss_dssp             THHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHc
Confidence            1123444322210             012233344433332                                       


Q ss_pred             ---------------------HHHCCCCcCHHhHHHHHHHHHc-------cCChH-------HHHHHHHHHHHCCCCCCH
Q 017234          205 ---------------------NIAAGFSVNVQTYESLIHGSLK-------ARDFD-------SVDRFYEEMMSLGIIPSI  249 (375)
Q Consensus       205 ---------------------m~~~~~~~~~~~~~~ll~~~~~-------~g~~~-------~a~~~~~~m~~~~~~p~~  249 (375)
                                           .....+ .+...|..+...+..       .|+++       +|..+|++..+.-.+-+.
T Consensus       243 ~~~~~~~~~~~~~~a~~~y~~al~~~p-~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~  321 (530)
T 2ooe_A          243 NPLRTEDQTLITKRVMFAYEQCLLVLG-HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNM  321 (530)
T ss_dssp             CSSCCSCSHHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCH
T ss_pred             CCccCCcchhHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccH
Confidence                                 222211 134444444444443       46655       666666666542112345


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC-H-HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN-E-NMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGI  327 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  327 (375)
                      ..|..++..+.+.|++++|..+|+++++.  .|+ . .+|..++..+.+.|++++|..+|++..+.... ....  |...
T Consensus       322 ~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~--~~~~  396 (530)
T 2ooe_A          322 LLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHV--YVTA  396 (530)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHH--HHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHH--HHHH
Confidence            56666666666667777777777666653  232 2 35666666666666677777777666653221 1111  1111


Q ss_pred             H-HHHHhhCCHHHHHHHHHHHHhC
Q 017234          328 I-RLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       328 i-~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      . ..+...|++++|..+|++..+.
T Consensus       397 a~~~~~~~~~~~~A~~~~e~al~~  420 (530)
T 2ooe_A          397 ALMEYYCSKDKSVAFKIFELGLKK  420 (530)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCChhHHHHHHHHHHHH
Confidence            1 1123466677777777666654

>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=99.38  E-value=7.3e-11  Score=93.94  Aligned_cols=130  Identities=15%  Similarity=0.094  Sum_probs=54.4

Q ss_pred             HhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 017234          215 QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCY  294 (375)
Q Consensus       215 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  294 (375)
                      .++..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus        43 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~  120 (186)
T 3as5_A           43 DVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVAL  120 (186)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHH
Confidence            333333344444444444444444433321 1223334444444444444444444444443321 22334444444444


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          295 CELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       295 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      ...|++++|...+++..+.... +...  +..+...+...|++++|...+++..+
T Consensus       121 ~~~~~~~~A~~~~~~~~~~~~~-~~~~--~~~la~~~~~~~~~~~A~~~~~~~~~  172 (186)
T 3as5_A          121 DNLGRFDEAIDSFKIALGLRPN-EGKV--HRAIAFSYEQMGRHEEALPHFKKANE  172 (186)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHH--HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHcCcHHHHHHHHHHHHhcCcc-chHH--HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4445555555544444443211 1111  44444555555555555555555443

>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=99.37  E-value=8.2e-10  Score=110.18  Aligned_cols=205  Identities=7%  Similarity=0.046  Sum_probs=141.0

Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          106 SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       106 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      .+..+|..+..++.+.|++++|.+.|.+.      -|...|..++.++.+.|++++|.+.|...++ .  .+++...+.+
T Consensus      1103 n~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk-~--~~e~~Idt~L 1173 (1630)
T 1xi4_A         1103 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARK-K--ARESYVETEL 1173 (1630)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHh-h--cccccccHHH
Confidence            35677777888888888888888877553      3677777788888888888888888877665 2  2444444457


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      +.+|.+.+++++.....    +   .++...|..+...|...|++++|..+|...         ..|..+..++.+.|++
T Consensus      1174 afaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~ 1237 (1630)
T 1xi4_A         1174 IFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEY 1237 (1630)
T ss_pred             HHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCH
Confidence            77777777777533332    2   245566667777788888888888888774         3677888888888888


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHH
Q 017234          266 DRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVG  345 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  345 (375)
                      ++|.+.+++.      .+..+|..+..+|...|++..|......+.     .+...  +..++..|.+.|.+++|+.+++
T Consensus      1238 q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~de--Leeli~yYe~~G~feEAI~LlE 1304 (1630)
T 1xi4_A         1238 QAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADE--LEELINYYQDRGYFEELITMLE 1304 (1630)
T ss_pred             HHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCHHH--HHHHHHHHHHcCCHHHHHHHHH
Confidence            8888877765      245666666666666677666666554321     12222  6677888888888888888886


Q ss_pred             HHH
Q 017234          346 RMG  348 (375)
Q Consensus       346 ~m~  348 (375)
                      ...
T Consensus      1305 ~aL 1307 (1630)
T 1xi4_A         1305 AAL 1307 (1630)
T ss_pred             HHh
Confidence            655

>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=99.37  E-value=6.9e-11  Score=94.09  Aligned_cols=167  Identities=13%  Similarity=0.098  Sum_probs=146.4

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHH
Q 017234          143 SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIH  222 (375)
Q Consensus       143 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  222 (375)
                      ...+..+...+...|++++|...++++.+.  .+.+..++..+...+...|++++|.+.+++..+... .+...+..+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~   84 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDA--DAFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP-DNVKVATVLGL   84 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCT--TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            456788889999999999999999999862  345677888999999999999999999999988754 37888999999


Q ss_pred             HHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHH
Q 017234          223 GSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDE  302 (375)
Q Consensus       223 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  302 (375)
                      .+...|++++|.+.+++..... +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  162 (186)
T 3as5_A           85 TYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEE  162 (186)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999998864 4567888999999999999999999999998764 4567889999999999999999


Q ss_pred             HHHHHHHHHhCC
Q 017234          303 LEEQLETLTKCN  314 (375)
Q Consensus       303 a~~~~~~~~~~~  314 (375)
                      |...+++..+..
T Consensus       163 A~~~~~~~~~~~  174 (186)
T 3as5_A          163 ALPHFKKANELD  174 (186)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC
Confidence            999999987643

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.37  E-value=1.7e-11  Score=111.11  Aligned_cols=268  Identities=9%  Similarity=0.004  Sum_probs=201.5

Q ss_pred             HHHhhcCCcc-hHHHHHHHhhhccCCCCc-----ccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC--CCHHHHHHH
Q 017234           44 ISRLLQVPVS-QIKTTLDSVDIFAFNSSQ-----FSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE--SCLDEYACL  114 (375)
Q Consensus        44 l~~l~~~~~~-~~~~~~~~m~~~~~~p~~-----~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~--~~~~~~~~l  114 (375)
                      -..+...++. ++...++.....  .|+.     ..|..+... ...|++++|...++..+......+.  ....++..+
T Consensus        55 g~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  132 (411)
T 4a1s_A           55 GERLCNAGDCRAGVAFFQAAIQA--GTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNL  132 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhCcHHHHHHHHHHHHHh--cccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHH
Confidence            3555666765 778888888664  3332     356666666 6999999999998777665544443  356788899


Q ss_pred             HHHHhccCChhHHHHHHHHHHHC----CC-CcCHhHHHHHHHHHHcCCC-----------------hHHHHHHHHHHHhC
Q 017234          115 IALSGKVQNVPFAMHVFTSMEAQ----GI-KPDSAVFNSLICACLCSGD-----------------VVTALSLFEIMVSS  172 (375)
Q Consensus       115 i~~~~~~~~~~~a~~~~~~m~~~----g~-~p~~~~~~~li~~~~~~g~-----------------~~~a~~~~~~m~~~  172 (375)
                      ...|...|++++|...+++..+.    +- +....++..+...+...|+                 +++|.+.+++..+.
T Consensus       133 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  212 (411)
T 4a1s_A          133 GNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKL  212 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHH
Confidence            99999999999999999987653    11 2235588889999999999                 99999998887541


Q ss_pred             ---CCC-CCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-cC----HHhHHHHHHHHHccCChHHHHHHHHHHHHC
Q 017234          173 ---EEY-KPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFS-VN----VQTYESLIHGSLKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       173 ---~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  243 (375)
                         .+- .....++..+...+...|++++|.+.+++..+.... ++    ..++..+...|...|++++|...+++..+.
T Consensus       213 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  292 (411)
T 4a1s_A          213 MRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLAL  292 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence               011 112347778889999999999999999987654211 11    347888999999999999999999888653


Q ss_pred             CC----C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          244 GI----I-PSIPILEKVLEGLCARRKLDRVKSFLKFLLGG----GW-KINENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       244 ~~----~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      ..    . ....++..+...+...|++++|...+++..+.    +. .....++..+...|...|++++|...+++..+.
T Consensus       293 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          293 AVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            11    0 11467888889999999999999999988653    11 112457888999999999999999999988763

>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=99.34  E-value=3.9e-11  Score=102.42  Aligned_cols=207  Identities=9%  Similarity=0.058  Sum_probs=99.8

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHHHhCC-----C-CCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC------C-
Q 017234          143 SAVFNSLICACLCSGDVVTALSLFEIMVSSE-----E-YKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAA------G-  209 (375)
Q Consensus       143 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~-  209 (375)
                      ..++..+...+...|++++|...+++..+..     + .+....++..+...|...|++++|.+.|++..+.      . 
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            3344455555555555555555555544310     0 0112334455555555555555555555554432      0 


Q ss_pred             CCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----
Q 017234          210 FSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL------GIIP-SIPILEKVLEGLCARRKLDRVKSFLKFLLGG----  278 (375)
Q Consensus       210 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~------~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----  278 (375)
                      .+....++..+...|...|++++|...+++..+.      +-.| ...++..+...+...|++++|...++++.+.    
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            1123445556666666666666666666665543      1112 2345566666666666666666666666442    


Q ss_pred             ---CCCcC-HHHHHHHHHHHHHcCChHHHHHHHHH---HHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          279 ---GWKIN-ENMAQKLVKCYCELGRVDELEEQLET---LTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       279 ---~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~---~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                         ...+. ...+..+...+...+....+......   ....+.........+..+...|...|++++|..+|++..+
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          203 EFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               11111 12233233333332222222211111   1111112222223377788888888888888888887765

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.34  E-value=6e-11  Score=114.61  Aligned_cols=165  Identities=10%  Similarity=0.082  Sum_probs=101.1

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHH
Q 017234          143 SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIH  222 (375)
Q Consensus       143 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  222 (375)
                      ..+|+.+...+.+.|++++|++.|++..+..  +-+..++..+..+|.+.|++++|.+.|++..+.... +..+|..+..
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~--P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~   85 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            4566666666666677777777666666521  223455666666666666666666666666665433 4566666666


Q ss_pred             HHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHH
Q 017234          223 GSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDE  302 (375)
Q Consensus       223 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  302 (375)
                      +|...|++++|++.|++..+.. +-+...|+.+..++...|++++|...|++.++.. +-+...+..+..+|...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHH
Confidence            6666666666666666666543 2335566666666666666666666666665543 2245556666666666666666


Q ss_pred             HHHHHHHHHh
Q 017234          303 LEEQLETLTK  312 (375)
Q Consensus       303 a~~~~~~~~~  312 (375)
                      |.+.+++..+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666655544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.33  E-value=3.2e-11  Score=105.57  Aligned_cols=269  Identities=12%  Similarity=0.035  Sum_probs=198.2

Q ss_pred             HHhhcCCcc-hHHHHHHHhhhccCCCC---cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC--CCHHHHHHHHHH
Q 017234           45 SRLLQVPVS-QIKTTLDSVDIFAFNSS---QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE--SCLDEYACLIAL  117 (375)
Q Consensus        45 ~~l~~~~~~-~~~~~~~~m~~~~~~p~---~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~--~~~~~~~~li~~  117 (375)
                      ..+...++. ++...++..........   ...|..+... ...|++++|.+.++..+......+.  ....++..+...
T Consensus        13 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~   92 (338)
T 3ro2_A           13 ERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNT   92 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence            445566655 77888888866432211   3456666666 6999999999998776665544443  246778899999


Q ss_pred             HhccCChhHHHHHHHHHHHCCC-CcC----HhHHHHHHHHHHcCCC--------------------hHHHHHHHHHHHhC
Q 017234          118 SGKVQNVPFAMHVFTSMEAQGI-KPD----SAVFNSLICACLCSGD--------------------VVTALSLFEIMVSS  172 (375)
Q Consensus       118 ~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~--------------------~~~a~~~~~~m~~~  172 (375)
                      +...|++++|...+++..+... .++    ..++..+...+...|+                    +++|.+.+++..+.
T Consensus        93 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~  172 (338)
T 3ro2_A           93 LKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSL  172 (338)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            9999999999999988764311 112    3478889999999999                    99999999887541


Q ss_pred             ---CC-CCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCC-----CcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC
Q 017234          173 ---EE-YKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGF-----SVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       173 ---~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-----~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  243 (375)
                         .+ ......++..+...+...|++++|.+.+++..+...     .....++..+...+...|++++|...+++....
T Consensus       173 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  252 (338)
T 3ro2_A          173 VTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLL  252 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence               11 111234677888899999999999999998765311     112347888899999999999999999887653


Q ss_pred             CC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          244 GI-IPS----IPILEKVLEGLCARRKLDRVKSFLKFLLGG----GWK-INENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       244 ~~-~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      .. .++    ..++..+...+...|++++|...+++..+.    +-. ....++..+...|...|++++|...+++..+.
T Consensus       253 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          253 ARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            10 111    457788888999999999999999988653    111 12446788999999999999999999998764

>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=99.32  E-value=5.1e-10  Score=92.79  Aligned_cols=205  Identities=9%  Similarity=-0.001  Sum_probs=157.4

Q ss_pred             cCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHH
Q 017234          141 PDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESL  220 (375)
Q Consensus       141 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  220 (375)
                      .|+..+......+.+.|++++|+..|++..+ ..-+++...+..+..++...|++++|.+.|++..+..+. +...+..+
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~-~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l   82 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLK-LTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGK   82 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-HTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHh-ccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHH
Confidence            4678899999999999999999999999987 322267777777999999999999999999999987654 77889999


Q ss_pred             HHHHHccCChHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC---HHHHHHH
Q 017234          221 IHGSLKARDFDSVDRFYEEMMSLGIIPSI-------PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN---ENMAQKL  290 (375)
Q Consensus       221 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l  290 (375)
                      ...|...|++++|...|++..+.. +.+.       ..|..+...+...|++++|...+++..+.  .|+   ...+..+
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l  159 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHH
Confidence            999999999999999999998864 2334       45777888888999999999999999875  354   5677777


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHH
Q 017234          291 VKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEM  362 (375)
Q Consensus       291 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~  362 (375)
                      ..+|...|     ...++++...+... ...  |....  ....+.+++|...|++..+.  .|+.++....
T Consensus       160 ~~~~~~~~-----~~~~~~a~~~~~~~-~~~--~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~~~~~~  219 (228)
T 4i17_A          160 GVLFYNNG-----ADVLRKATPLASSN-KEK--YASEK--AKADAAFKKAVDYLGEAVTL--SPNRTEIKQM  219 (228)
T ss_dssp             HHHHHHHH-----HHHHHHHGGGTTTC-HHH--HHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHHHH-----HHHHHHHHhcccCC-HHH--HHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCHHHHHH
Confidence            78875544     44556665543222 222  44443  44567799999999999875  4555544333

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.32  E-value=1e-09  Score=98.07  Aligned_cols=266  Identities=13%  Similarity=0.045  Sum_probs=167.9

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCH----HHHHHHHHHHhccCChhHHHHHHHHHHHCCC-CcC----HhHHHHHHH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCL----DEYACLIALSGKVQNVPFAMHVFTSMEAQGI-KPD----SAVFNSLIC  151 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~  151 (375)
                      ...|++++|...++..+...   ...+.    .+++.+...+...|+++.|...+++..+... .++    ..++..+..
T Consensus        25 ~~~g~~~~A~~~~~~al~~~---~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           25 INDGNPDEAERLAKLALEEL---PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHTC---CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHcC---CCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            47788888888854433321   11222    2456667777888888888888887654210 011    234566777


Q ss_pred             HHHcCCChHHHHHHHHHHHhC---CCCC--C-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC----cCHHhHHHHH
Q 017234          152 ACLCSGDVVTALSLFEIMVSS---EEYK--P-NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFS----VNVQTYESLI  221 (375)
Q Consensus       152 ~~~~~g~~~~a~~~~~~m~~~---~~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~----~~~~~~~~ll  221 (375)
                      .+...|++++|...+++..+.   .+..  | ...++..+...+...|++++|...+++.......    ....++..+.
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            788888888888888877652   1111  2 2334556777788888888888888877654221    1235677777


Q ss_pred             HHHHccCChHHHHHHHHHHHHCCCCCC--HHHHH----HHHHHHHhcCCHHHHHHHHHHHHhCCCCc---CHHHHHHHHH
Q 017234          222 HGSLKARDFDSVDRFYEEMMSLGIIPS--IPILE----KVLEGLCARRKLDRVKSFLKFLLGGGWKI---NENMAQKLVK  292 (375)
Q Consensus       222 ~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~----~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~li~  292 (375)
                      ..+...|++++|...+++.......++  .....    ..+..+...|++++|...+++.......+   ....+..+..
T Consensus       182 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~  261 (373)
T 1hz4_A          182 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR  261 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHH
Confidence            888888888888888887764311111  11111    22334668888888888888876543211   1334566778


Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCC---CchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          293 CYCELGRVDELEEQLETLTKCNQS---PEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       293 ~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      .+...|++++|...+++.......   +......+..+..++...|+.++|...+++..+
T Consensus       262 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          262 AQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            888888888888888776542111   111111256667778888888888888877664

>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=99.32  E-value=1.4e-10  Score=112.07  Aligned_cols=166  Identities=11%  Similarity=0.064  Sum_probs=145.8

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      +..+|+.+...+.+.|++++|++.|++..+.. +-+..+|+.+..+|.+.|++++|++.|++..+..  +-+...|..+.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~--P~~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS--PTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHH
Confidence            57889999999999999999999999998874 2357899999999999999999999999998721  33467899999


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLD  266 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  266 (375)
                      .++.+.|++++|.+.|++..+.... +..+|+.+..+|...|++++|++.|++..+.. +-+...+..+..++...|+++
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 NTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHH
Confidence            9999999999999999999887654 78899999999999999999999999998864 345788999999999999999


Q ss_pred             HHHHHHHHHHh
Q 017234          267 RVKSFLKFLLG  277 (375)
Q Consensus       267 ~a~~~~~~~~~  277 (375)
                      +|.+.++++.+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988765

>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=99.30  E-value=5.1e-11  Score=101.69  Aligned_cols=230  Identities=13%  Similarity=0.097  Sum_probs=162.9

Q ss_pred             hcCChHHHHHHHHHHHHHhhcC---C-CCCHHHHHHHHHHHhccCChhHHHHHHHHHHHC------CC-CcCHhHHHHHH
Q 017234           82 QSSSPKKAQLVLEWRLDKMLKG---N-ESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQ------GI-KPDSAVFNSLI  150 (375)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~m~~~---~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~-~p~~~~~~~li  150 (375)
                      ..|++++|...++..++...+.   . +....++..+...+...|++++|...+++..+.      +- +....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            6788888888877766654433   2 235778899999999999999999999988754      22 23456899999


Q ss_pred             HHHHcCCChHHHHHHHHHHHhCC-----C-CCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC------C-CCcCHHhH
Q 017234          151 CACLCSGDVVTALSLFEIMVSSE-----E-YKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAA------G-FSVNVQTY  217 (375)
Q Consensus       151 ~~~~~~g~~~~a~~~~~~m~~~~-----~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~-~~~~~~~~  217 (375)
                      ..+...|++++|.+.+++..+..     . .+....++..+...|...|++++|.+.+++..+.      + .+....++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            99999999999999999987620     1 1234567888999999999999999999988765      1 12246788


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHC-------CCCCC-HHHHHHHHHHHHhcCCHHHH------HHHHHHHHhCCCCcC
Q 017234          218 ESLIHGSLKARDFDSVDRFYEEMMSL-------GIIPS-IPILEKVLEGLCARRKLDRV------KSFLKFLLGGGWKIN  283 (375)
Q Consensus       218 ~~ll~~~~~~g~~~~a~~~~~~m~~~-------~~~p~-~~~~~~li~~~~~~g~~~~a------~~~~~~~~~~~~~~~  283 (375)
                      ..+...|...|++++|...+++..+.       ...+. ...+..+.......+....+      ...++.... ..+..
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  251 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPTV  251 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHHH
Confidence            89999999999999999999988753       11222 23333333333333332222      222221111 11233


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          284 ENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       284 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      ..++..+...|...|++++|...+++..+
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            55788899999999999999999998765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.30  E-value=4.5e-10  Score=100.82  Aligned_cols=234  Identities=9%  Similarity=-0.002  Sum_probs=175.7

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHCCC-Cc----CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCC-----Chh
Q 017234          111 YACLIALSGKVQNVPFAMHVFTSMEAQGI-KP----DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKP-----NSK  180 (375)
Q Consensus       111 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-----~~~  180 (375)
                      |......+...|++++|...|++..+... .+    ...++..+...|...|+++.|...+++..+...-.+     ...
T Consensus       104 ~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  183 (378)
T 3q15_A          104 LFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQ  183 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHH
T ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHH
Confidence            34455567889999999999999875421 12    245788999999999999999999998775211111     245


Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHC----CCC-cCHHhHHHHHHHHHccCChHHHHHHHHHHHH-----CCCCCCHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAA----GFS-VNVQTYESLIHGSLKARDFDSVDRFYEEMMS-----LGIIPSIP  250 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~  250 (375)
                      +++.+...|...|++++|.+.|++..+.    +.. ....++..+...|...|++++|.+.|++..+     .. +....
T Consensus       184 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~  262 (378)
T 3q15_A          184 SLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPK  262 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHH
Confidence            6788999999999999999999987653    211 1245788899999999999999999999877     43 22367


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCcCHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhCCCCCchHHHH
Q 017234          251 ILEKVLEGLCARRKLDRVKSFLKFLLGGG----WKINENMAQKLVKCYCELGR---VDELEEQLETLTKCNQSPEVLLHF  323 (375)
Q Consensus       251 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~  323 (375)
                      ++..+...+.+.|++++|...+++..+..    -+.....+..+...|...|+   +++|...+++   .+..|.... .
T Consensus       263 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~-~  338 (378)
T 3q15_A          263 VLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEA-C  338 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHH-H
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHH-H
Confidence            88889999999999999999999987632    12223446666677777888   6666666665   333333332 2


Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          324 FSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       324 ~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      +..+...|...|++++|...|++..+
T Consensus       339 ~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          339 ARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77899999999999999999998865

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.29  E-value=2.8e-10  Score=102.27  Aligned_cols=229  Identities=13%  Similarity=0.044  Sum_probs=172.2

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCC-C-CHHHHHHHHHHHhccCChhHHHHHHHHHHHC----CC--CcCHhHHHHHHHH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNE-S-CLDEYACLIALSGKVQNVPFAMHVFTSMEAQ----GI--KPDSAVFNSLICA  152 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~-~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~--~p~~~~~~~li~~  152 (375)
                      ...|++++|...++..+......+. + ...+|..+...+...|+++.|...+++..+.    +-  +....+++.+..+
T Consensus       114 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  193 (383)
T 3ulq_A          114 LDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATN  193 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHH
Confidence            5899999999997655544333222 1 4678899999999999999999999987643    11  1124578899999


Q ss_pred             HHcCCChHHHHHHHHHHHhCCCCCCC----hhcHHHHHHHHHcCCCHHHHHHHHHHHHHC----CC-CcCHHhHHHHHHH
Q 017234          153 CLCSGDVVTALSLFEIMVSSEEYKPN----SKTYDAFISGFSSLGNVDAMNKWYAANIAA----GF-SVNVQTYESLIHG  223 (375)
Q Consensus       153 ~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~~~~~ll~~  223 (375)
                      |...|++++|...|++..+...-.++    ..++..+...|...|++++|.+.|++..+.    +. +....++..+...
T Consensus       194 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  273 (383)
T 3ulq_A          194 FLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQI  273 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Confidence            99999999999999988762110111    247888999999999999999999988762    22 3357789999999


Q ss_pred             HHccCChHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCcC-HHHHHHHHHHHH
Q 017234          224 SLKARDFDSVDRFYEEMMSL----GIIPSIPILEKVLEGLCARRK---LDRVKSFLKFLLGGGWKIN-ENMAQKLVKCYC  295 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~~----~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~  295 (375)
                      |...|++++|...+++..+.    +-+.....+..+...+...|+   +++|..+++..   +..|+ ...+..+...|.
T Consensus       274 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~  350 (383)
T 3ulq_A          274 HYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYH  350 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHH
Confidence            99999999999999887653    111122345667778888898   66666666654   33333 446778899999


Q ss_pred             HcCChHHHHHHHHHHHh
Q 017234          296 ELGRVDELEEQLETLTK  312 (375)
Q Consensus       296 ~~g~~~~a~~~~~~~~~  312 (375)
                      ..|++++|...+++..+
T Consensus       351 ~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          351 ERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            99999999999998764

>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=99.26  E-value=1.4e-09  Score=90.10  Aligned_cols=200  Identities=10%  Similarity=-0.019  Sum_probs=157.2

Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          106 SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       106 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      .|+..+......+.+.|++++|...|++..+...+++...+..+..++.+.|++++|++.|++..+.  -+.+..++..+
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l   82 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGK   82 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHH
Confidence            4678899999999999999999999999998764478888888999999999999999999999972  13355778899


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCH-------HhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCC---HHHHHHH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNV-------QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPS---IPILEKV  255 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~-------~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~l  255 (375)
                      ...+...|++++|.+.+++..+..+. +.       ..|..+...+...|++++|.+.|++..+.  .|+   ...+..+
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l  159 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHH
Confidence            99999999999999999999887543 45       56888888999999999999999999876  454   4667777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchH
Q 017234          256 LEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVL  320 (375)
Q Consensus       256 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  320 (375)
                      ...+...|     ...++.+...+ ..+...|....  ....+.+++|...+++..+..  |+..
T Consensus       160 ~~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~--p~~~  214 (228)
T 4i17_A          160 GVLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLS--PNRT  214 (228)
T ss_dssp             HHHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHC--TTCH
T ss_pred             HHHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcC--CCCH
Confidence            77775544     44455555543 33444454443  334567899999999998854  5443

>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=99.20  E-value=1.5e-08  Score=101.44  Aligned_cols=233  Identities=14%  Similarity=0.118  Sum_probs=174.3

Q ss_pred             CcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHH
Q 017234           70 SQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNS  148 (375)
Q Consensus        70 ~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  148 (375)
                      +..+|..+-.+ ...|++++|++.|    .+-     .|...|..++..+.+.|++++|.+.+....+..  +++...+.
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsY----iKA-----dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~ 1172 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSY----IKA-----DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETE 1172 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHH----Hhc-----CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHH
Confidence            36668888888 7999999999995    321     578889999999999999999999999877764  44444556


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccC
Q 017234          149 LICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKAR  228 (375)
Q Consensus       149 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g  228 (375)
                      ++.+|++.+++++...+    .+    .++...|..+...|...|++++|..+|...         ..|..+..+|.+.|
T Consensus      1173 LafaYAKl~rleele~f----I~----~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLg 1235 (1630)
T 1xi4_A         1173 LIFALAKTNRLAELEEF----IN----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLG 1235 (1630)
T ss_pred             HHHHHHhhcCHHHHHHH----Hh----CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhC
Confidence            99999999998864443    33    366677888999999999999999999884         47999999999999


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHH
Q 017234          229 DFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLE  308 (375)
Q Consensus       229 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  308 (375)
                      ++++|.+.+++.      .+..+|..+..+|...|++..|....-.     +..++..+..++..|.+.|.+++|..+++
T Consensus      1236 e~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE 1304 (1630)
T 1xi4_A         1236 EYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLE 1304 (1630)
T ss_pred             CHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999876      3457788888888888888887776543     33456667788888888888888888887


Q ss_pred             HHHhCCCCCchHHHHHHHHHHHHHhh--CCHHHHHHHH
Q 017234          309 TLTKCNQSPEVLLHFFSGIIRLYALS--DRLDDVEYSV  344 (375)
Q Consensus       309 ~~~~~~~~~~~~~~~~~~li~~~~~~--g~~~~A~~~~  344 (375)
                      .....+  + .....|.-+...|.+.  ++..++.++|
T Consensus      1305 ~aL~Le--r-aH~gmftELaiLyaKy~peklmEhlk~f 1339 (1630)
T 1xi4_A         1305 AALGLE--R-AHMGMFTELAILYSKFKPQKMREHLELF 1339 (1630)
T ss_pred             HHhccC--h-hHhHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            665432  2 2222355555555543  2334444444

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.19  E-value=9e-09  Score=91.95  Aligned_cols=240  Identities=12%  Similarity=-0.025  Sum_probs=171.1

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHCCCCcCH----hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh----hcH
Q 017234          111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDS----AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS----KTY  182 (375)
Q Consensus       111 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----~~~  182 (375)
                      +......+...|++++|...+++..+.....+.    .+++.+...+...|++++|...+++..+...-..+.    .++
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            344555677899999999999998775422222    256777788889999999999999877521101122    235


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHC----CCC--c-CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCC--C--CHHH
Q 017234          183 DAFISGFSSLGNVDAMNKWYAANIAA----GFS--V-NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGII--P--SIPI  251 (375)
Q Consensus       183 ~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~--~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~--p--~~~~  251 (375)
                      ..+...+...|++++|.+.+++..+.    +..  | ....+..+...+...|++++|...+++.......  +  ...+
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            66778899999999999999987653    221  2 3456677888999999999999999988764211  1  2356


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc--CHHHHH----HHHHHHHHcCChHHHHHHHHHHHhCCCCCc-hHHHHH
Q 017234          252 LEKVLEGLCARRKLDRVKSFLKFLLGGGWKI--NENMAQ----KLVKCYCELGRVDELEEQLETLTKCNQSPE-VLLHFF  324 (375)
Q Consensus       252 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~----~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~  324 (375)
                      +..+...+...|++++|...+++.....-.+  ......    ..+..+...|++++|...+++.......+. .....+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            7788888999999999999999886531111  122111    233457899999999999998876443221 111126


Q ss_pred             HHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          325 SGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       325 ~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ..+...+...|++++|...+++..+.
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~  282 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNEN  282 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            77888999999999999999988654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.18  E-value=3.4e-09  Score=95.03  Aligned_cols=228  Identities=7%  Similarity=-0.075  Sum_probs=170.6

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCC--CCHHHHHHHHHHHhccCChhHHHHHHHHHHHC----CC-Cc-CHhHHHHHHHH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNE--SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQ----GI-KP-DSAVFNSLICA  152 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~-~p-~~~~~~~li~~  152 (375)
                      ...|++++|...++.+.......+.  ....++..+...|...|+++.|...+++..+.    +- .+ ...+++.+..+
T Consensus       112 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  191 (378)
T 3q15_A          112 FDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGN  191 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHH
Confidence            5899999999997654443333222  23667889999999999999999999887643    11 11 25578899999


Q ss_pred             HHcCCChHHHHHHHHHHHhCC---CCCC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHH-----CCCCcCHHhHHHHHHH
Q 017234          153 CLCSGDVVTALSLFEIMVSSE---EYKP-NSKTYDAFISGFSSLGNVDAMNKWYAANIA-----AGFSVNVQTYESLIHG  223 (375)
Q Consensus       153 ~~~~g~~~~a~~~~~~m~~~~---~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-----~~~~~~~~~~~~ll~~  223 (375)
                      |...|++++|.+.|++..+..   +-.+ ...++..+...|...|++++|.+.|++..+     .... ...++..+...
T Consensus       192 y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~-~~~~~~~la~~  270 (378)
T 3q15_A          192 YDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDL-LPKVLFGLSWT  270 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGG-HHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChh-HHHHHHHHHHH
Confidence            999999999999999887621   1111 234677889999999999999999999877     4433 47888999999


Q ss_pred             HHccCChHHHHHHHHHHHHCCC---CCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCcC-HHHHHHHHHHHH
Q 017234          224 SLKARDFDSVDRFYEEMMSLGI---IPS-IPILEKVLEGLCARRK---LDRVKSFLKFLLGGGWKIN-ENMAQKLVKCYC  295 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~~~~---~p~-~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~  295 (375)
                      +.+.|++++|...+++..+...   .|. ...+..+...+...++   +++|...++.   .+..|+ ...+..+...|.
T Consensus       271 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~  347 (378)
T 3q15_A          271 LCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFE  347 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHH
Confidence            9999999999999999876421   122 3455666666677788   6666666665   333333 345677889999


Q ss_pred             HcCChHHHHHHHHHHHh
Q 017234          296 ELGRVDELEEQLETLTK  312 (375)
Q Consensus       296 ~~g~~~~a~~~~~~~~~  312 (375)
                      ..|++++|...|++..+
T Consensus       348 ~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          348 SSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            99999999999988754

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.17  E-value=2.2e-09  Score=80.25  Aligned_cols=24  Identities=8%  Similarity=-0.065  Sum_probs=10.2

Q ss_pred             HHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          325 SGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       325 ~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      ..+...+.+.|++++|...++++.
T Consensus       107 ~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A          107 YNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccHHHHHHHHHHHH
Confidence            334444444444444444444433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.14  E-value=7.3e-09  Score=87.69  Aligned_cols=193  Identities=9%  Similarity=-0.043  Sum_probs=120.0

Q ss_pred             cCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC----hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-c-CH
Q 017234          141 PDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN----SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFS-V-NV  214 (375)
Q Consensus       141 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~-~~  214 (375)
                      .+...+..+...+.+.|++++|...|+++.+.   .|+    ...+..+..+|.+.|++++|...|++..+..+. | ..
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~   89 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTY---GRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVP   89 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGG---CSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh---CCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhH
Confidence            35667777788888888888888888888873   233    456777788888888888888888888876431 1 24


Q ss_pred             HhHHHHHHHHHc--------cCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHH
Q 017234          215 QTYESLIHGSLK--------ARDFDSVDRFYEEMMSLGIIPS-IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINEN  285 (375)
Q Consensus       215 ~~~~~ll~~~~~--------~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  285 (375)
                      .++..+..++..        .|++++|...|++..+..  |+ ......+.              .+..+...    -..
T Consensus        90 ~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~--------------~~~~~~~~----~~~  149 (261)
T 3qky_A           90 QAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQ--------------KIRELRAK----LAR  149 (261)
T ss_dssp             HHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHH--------------HHHHHHHH----HHH
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHH--------------HHHHHHHH----HHH
Confidence            556677777777        888888888888887753  32 12221110              00000000    011


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhh----------CCHHHHHHHHHHHHhCCCCcc
Q 017234          286 MAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALS----------DRLDDVEYSVGRMGKQGLSFK  355 (375)
Q Consensus       286 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~~~~~~  355 (375)
                      .+..+...|.+.|++++|...|+++.+...........+..+..+|...          |++++|...|+++.+.  .|+
T Consensus       150 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~  227 (261)
T 3qky_A          150 KQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPD  227 (261)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCC
Confidence            1345566677777777777777777664433222222255666666655          6777777777777654  344


Q ss_pred             Cch
Q 017234          356 SAE  358 (375)
Q Consensus       356 ~~~  358 (375)
                      .+.
T Consensus       228 ~~~  230 (261)
T 3qky_A          228 SPL  230 (261)
T ss_dssp             CTH
T ss_pred             ChH
Confidence            443

>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=99.12  E-value=5e-09  Score=78.27  Aligned_cols=131  Identities=14%  Similarity=0.190  Sum_probs=115.1

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLC  260 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  260 (375)
                      .+..+...+...|++++|..+++++.+.... +...+..+...+...|++++|...++++...+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            5677888999999999999999999887543 78889999999999999999999999998765 456778888999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          261 ARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      ..|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.+
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            9999999999999998764 4467888999999999999999999999987744

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.11  E-value=4.8e-09  Score=88.82  Aligned_cols=191  Identities=10%  Similarity=-0.032  Sum_probs=134.2

Q ss_pred             CCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcC---HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC-hh
Q 017234          105 ESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPD---SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN-SK  180 (375)
Q Consensus       105 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~  180 (375)
                      ..+...+......+.+.|++++|...|+++.+.. +-+   ...+..+..++.+.|++++|+..|++..+...-.|. ..
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            3567888889999999999999999999999874 223   678889999999999999999999999983211122 34


Q ss_pred             cHHHHHHHHHc--------CCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHH
Q 017234          181 TYDAFISGFSS--------LGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPIL  252 (375)
Q Consensus       181 ~~~~ll~~~~~--------~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  252 (375)
                      .+..+..++..        .|++++|...|++..+..+. +......+...              ......    ....+
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~--------------~~~~~~----~~~~~  151 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKI--------------RELRAK----LARKQ  151 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHH--------------HHHHHH----HHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHH--------------HHHHHH----HHHHH
Confidence            56677888888        99999999999999886533 33333222111              111000    01124


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCC--cCHHHHHHHHHHHHHc----------CChHHHHHHHHHHHhCCC
Q 017234          253 EKVLEGLCARRKLDRVKSFLKFLLGGGWK--INENMAQKLVKCYCEL----------GRVDELEEQLETLTKCNQ  315 (375)
Q Consensus       253 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~  315 (375)
                      ..+...|.+.|++++|...++.+.+..-.  .....+..+..+|...          |++++|...++++.+..+
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p  226 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP  226 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC
Confidence            55667777888888888888887764211  1244566677777765          778888888888877543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.10  E-value=3.1e-09  Score=91.71  Aligned_cols=194  Identities=8%  Similarity=-0.006  Sum_probs=111.4

Q ss_pred             HHHHhccCChhHHHHHHHHHHHC----CCCcC-HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC----hhcHHHH
Q 017234          115 IALSGKVQNVPFAMHVFTSMEAQ----GIKPD-SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN----SKTYDAF  185 (375)
Q Consensus       115 i~~~~~~~~~~~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~~l  185 (375)
                      ...|...|++++|...|.+..+.    |-+++ ..+|+.+..+|.+.|++++|+..|++..+...-..+    ..+++.+
T Consensus        44 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~l  123 (292)
T 1qqe_A           44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (292)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44566778888887777766542    22222 457777777888888888887777776651100001    2356666


Q ss_pred             HHHHHcC-CCHHHHHHHHHHHHHCCCCc-C----HHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCH------HHHH
Q 017234          186 ISGFSSL-GNVDAMNKWYAANIAAGFSV-N----VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSI------PILE  253 (375)
Q Consensus       186 l~~~~~~-~~~~~a~~~~~~m~~~~~~~-~----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~------~~~~  253 (375)
                      ...|... |++++|...|++..+..... +    ..+++.+...+...|++++|...|++..+.......      ..|.
T Consensus       124 g~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  203 (292)
T 1qqe_A          124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (292)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHH
Confidence            7777774 77777777777665432110 1    345666677777777777777777777665322211      1455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH------HHHHHHHHHHH--HcCChHHHHHHHHHH
Q 017234          254 KVLEGLCARRKLDRVKSFLKFLLGGGWKINE------NMAQKLVKCYC--ELGRVDELEEQLETL  310 (375)
Q Consensus       254 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~--~~g~~~~a~~~~~~~  310 (375)
                      .+..++...|++++|...+++..+.  .|+.      ..+..++.++.  ..+++++|...|+.+
T Consensus       204 ~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~  266 (292)
T 1qqe_A          204 KKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence            5666666777777777777766542  2221      12333444443  234455555555444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.10  E-value=4.2e-09  Score=90.90  Aligned_cols=210  Identities=12%  Similarity=-0.019  Sum_probs=153.9

Q ss_pred             ChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhC---CCCCCC-hhcHHHHHHHHHcCCCHHHH
Q 017234          123 NVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSS---EEYKPN-SKTYDAFISGFSSLGNVDAM  198 (375)
Q Consensus       123 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~-~~~~~~ll~~~~~~~~~~~a  198 (375)
                      ++++|...+++.               ...|...|++++|...|++..+.   .+-+++ ..+|+.+...|.+.|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            488888888776               44677899999999999988652   121122 46889999999999999999


Q ss_pred             HHHHHHHHHCCCC---c--CHHhHHHHHHHHHcc-CChHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCHHH
Q 017234          199 NKWYAANIAAGFS---V--NVQTYESLIHGSLKA-RDFDSVDRFYEEMMSLGII-PS----IPILEKVLEGLCARRKLDR  267 (375)
Q Consensus       199 ~~~~~~m~~~~~~---~--~~~~~~~ll~~~~~~-g~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~  267 (375)
                      ...|++..+....   +  -..+++.+...|... |++++|...|++..+.... .+    ..++..+...+...|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            9999987653211   1  145788999999996 9999999999988764211 11    3568889999999999999


Q ss_pred             HHHHHHHHHhCCCCcCH------HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHH----HHHHHHHHHHH--hhC
Q 017234          268 VKSFLKFLLGGGWKINE------NMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLL----HFFSGIIRLYA--LSD  335 (375)
Q Consensus       268 a~~~~~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~----~~~~~li~~~~--~~g  335 (375)
                      |...+++..+.......      ..+..+..++...|++++|...+++..+..  |+...    ..+..++.+|.  ..+
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~l~~l~~~~~~~~~~  254 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED--PNFADSRESNFLKSLIDAVNEGDSE  254 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCCCcHHHHHHHHHHHHHHcCCHH
Confidence            99999999875422211      256778889999999999999999987643  32211    11445566664  457


Q ss_pred             CHHHHHHHHHHHHh
Q 017234          336 RLDDVEYSVGRMGK  349 (375)
Q Consensus       336 ~~~~A~~~~~~m~~  349 (375)
                      ++++|+..|+++..
T Consensus       255 ~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          255 QLSEHCKEFDNFMR  268 (292)
T ss_dssp             THHHHHHHHTTSSC
T ss_pred             HHHHHHHHhccCCc
Confidence            79999998877653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.09  E-value=6e-08  Score=82.95  Aligned_cols=254  Identities=10%  Similarity=-0.002  Sum_probs=167.3

Q ss_pred             HHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCC
Q 017234           78 ITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSG  157 (375)
Q Consensus        78 i~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  157 (375)
                      =+.+-.|.+..++.-    ...+..  ..+...-.-..+++...|++....         .-.|....+..+.. |...+
T Consensus        21 kn~fy~G~yq~~i~e----~~~~~~--~~~~~~~~~~~Rs~iAlg~~~~~~---------~~~~~~~a~~~la~-~~~~~   84 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQE----IEKFSK--VTDNTLLFYKAKTLLALGQYQSQD---------PTSKLGKVLDLYVQ-FLDTK   84 (310)
T ss_dssp             HHHHTTTCHHHHTHH----HHTSSC--CCCHHHHHHHHHHHHHTTCCCCCC---------SSSTTHHHHHHHHH-HHTTT
T ss_pred             HHHHHhhHHHHHHHH----HHhcCc--cchHHHHHHHHHHHHHcCCCccCC---------CCCHHHHHHHHHHH-Hhccc
Confidence            333788888887775    443322  122233344567777777776421         12334334333333 33322


Q ss_pred             ChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCC-CcCHHhHHHHHHHHHccCChHHHHHH
Q 017234          158 DVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGF-SVNVQTYESLIHGSLKARDFDSVDRF  236 (375)
Q Consensus       158 ~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~g~~~~a~~~  236 (375)
                          |+..|++..+ .+ .++..+...+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.
T Consensus        85 ----a~~~l~~l~~-~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~  158 (310)
T 3mv2_B           85 ----NIEELENLLK-DK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTI  158 (310)
T ss_dssp             ----CCHHHHHTTT-TS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ----HHHHHHHHHh-cC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence                6788887776 33 45566666888889999999999999998877664 22677888889999999999999999


Q ss_pred             HHHHHHCCCCC-----CHHHHHHHHHHH--HhcC--CHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHH
Q 017234          237 YEEMMSLGIIP-----SIPILEKVLEGL--CARR--KLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQL  307 (375)
Q Consensus       237 ~~~m~~~~~~p-----~~~~~~~li~~~--~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  307 (375)
                      +++|.+.  .|     +..+...+..++  ...|  +.+.|..+|+++.+.  .|+..+-..++.++.+.|++++|++.+
T Consensus       159 l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L  234 (310)
T 3mv2_B          159 FDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIV  234 (310)
T ss_dssp             HHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHH
Confidence            9999875  46     356667777663  3334  899999999998765  355334444555888999999999999


Q ss_pred             HHHHhCC-----C---CCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHH
Q 017234          308 ETLTKCN-----Q---SPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEM  362 (375)
Q Consensus       308 ~~~~~~~-----~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~  362 (375)
                      +.+.+..     .   .|+.... ...+|......|+  +|.++++++++.  .|+.|-...+
T Consensus       235 ~~l~~~~p~~~~k~~~~p~~~~~-LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~hp~i~d~  292 (310)
T 3mv2_B          235 ELLLSDYYSVEQKENAVLYKPTF-LANQITLALMQGL--DTEDLTNQLVKL--DHEHAFIKHH  292 (310)
T ss_dssp             HHHHSHHHHTTTCHHHHSSHHHH-HHHHHHHHHHTTC--TTHHHHHHHHHT--TCCCHHHHHH
T ss_pred             HHHHHhcccccccccCCCCCHHH-HHHHHHHHHHhCh--HHHHHHHHHHHh--CCCChHHHHH
Confidence            8766531     1   2443332 4344545555676  889999999865  4666655444

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.08  E-value=2.6e-08  Score=85.22  Aligned_cols=184  Identities=13%  Similarity=0.084  Sum_probs=133.2

Q ss_pred             HHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCC-CCChhcHHHHHHHHHcCCCHHHHHHHHHHH
Q 017234          127 AMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEY-KPNSKTYDAFISGFSSLGNVDAMNKWYAAN  205 (375)
Q Consensus       127 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  205 (375)
                      |...|++..+.+ .++..++..+..++...|++++|++++.+... .+- .-+...+..++..+.+.|+.+.|.+.+++|
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~-~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGID-NDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT-SSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhc-cCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            677777777655 45666677888899999999999999998865 221 135566778889999999999999999999


Q ss_pred             HHCCCCc-----CHHhHHHHHHHH--HccC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 017234          206 IAAGFSV-----NVQTYESLIHGS--LKAR--DFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLL  276 (375)
Q Consensus       206 ~~~~~~~-----~~~~~~~ll~~~--~~~g--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  276 (375)
                      .+.  .|     +..+...+..++  ...|  ++.+|..+|+++.+.  .|+..+-..++.++.+.|++++|...++.+.
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            875  34     355555666553  3334  899999999998765  4653344445558889999999999998766


Q ss_pred             hC-----CC----CcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchH
Q 017234          277 GG-----GW----KINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVL  320 (375)
Q Consensus       277 ~~-----~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  320 (375)
                      +.     ..    +-|+.+...+|......|+  +|.+++.++.+.  .|+..
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~hp  287 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEHA  287 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCCH
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCCh
Confidence            53     11    3356667566666666776  888999999884  46544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.07  E-value=3.3e-08  Score=90.81  Aligned_cols=225  Identities=8%  Similarity=-0.016  Sum_probs=138.2

Q ss_pred             HHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCC---ChHHHHHHHHHHHhCCCCCCChhcHHHH
Q 017234          109 DEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSG---DVVTALSLFEIMVSSEEYKPNSKTYDAF  185 (375)
Q Consensus       109 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~~~~~~~~~~l  185 (375)
                      ..+..+...|...+.++.+..-...+.+.-...++..+..+...|.+.|   +.++|++.|++..+ .| .++...+..+
T Consensus       142 ~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~-~g-~~~a~~~~~L  219 (452)
T 3e4b_A          142 EAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVS-RG-TVTAQRVDSV  219 (452)
T ss_dssp             THHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-TT-CSCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHH-CC-CHHHHHHHHH
Confidence            3444555555555544444443333322222234447777777777777   77778887777776 32 3444444555


Q ss_pred             HHHHHcC----CCHHHHHHHHHHHHHCCCCcCHHhHHHHHHH-H--HccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 017234          186 ISGFSSL----GNVDAMNKWYAANIAAGFSVNVQTYESLIHG-S--LKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEG  258 (375)
Q Consensus       186 l~~~~~~----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~--~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  258 (375)
                      ...|...    +++++|.++|++.. .   -+...+..+... +  ...+++++|.+.|++..+.|   +...+..+...
T Consensus       220 g~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~  292 (452)
T 3e4b_A          220 ARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKL  292 (452)
T ss_dssp             HHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence            5566544    57778888887766 2   355556666555 3  45677888888888777765   45566666666


Q ss_pred             HHhcC-----CHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 017234          259 LCARR-----KLDRVKSFLKFLLGGGWKINENMAQKLVKCYCE----LGRVDELEEQLETLTKCNQSPEVLLHFFSGIIR  329 (375)
Q Consensus       259 ~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~  329 (375)
                      |. .|     ++++|...|++.. .|   +...+..|...|..    ..++++|...|++..+.|...   .  ...|..
T Consensus       293 y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~---A--~~~Lg~  362 (452)
T 3e4b_A          293 YY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNS---A--DFAIAQ  362 (452)
T ss_dssp             HH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTT---H--HHHHHH
T ss_pred             HH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHH---H--HHHHHH
Confidence            65 44     7788888777766 33   55666666666665    337778888887777655322   1  344555


Q ss_pred             HHHh----hCCHHHHHHHHHHHHhCCC
Q 017234          330 LYAL----SDRLDDVEYSVGRMGKQGL  352 (375)
Q Consensus       330 ~~~~----~g~~~~A~~~~~~m~~~~~  352 (375)
                      .|..    ..+.++|...|++..+.|.
T Consensus       363 ~y~~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          363 LFSQGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             HHHSCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             HHHhCCCCCCCHHHHHHHHHHHHHCCC
Confidence            5553    3477788888888777765

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.06  E-value=3.6e-07  Score=83.85  Aligned_cols=156  Identities=13%  Similarity=0.080  Sum_probs=78.3

Q ss_pred             cHHHHHHHHHcCC---CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHcc----CChHHHHHHHHHHHHCCCCCCHHHHH
Q 017234          181 TYDAFISGFSSLG---NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKA----RDFDSVDRFYEEMMSLGIIPSIPILE  253 (375)
Q Consensus       181 ~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~----g~~~~a~~~~~~m~~~~~~p~~~~~~  253 (375)
                      .+..+...|...|   +.++|++.|++..+.|.. +...+..+...|...    +++++|...|++.. .|   +...+.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~  252 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWV  252 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHH
Confidence            5555555555555   556666666666555532 444334444444433    45666666666555 22   223333


Q ss_pred             HHHHH-H--HhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcC-----ChHHHHHHHHHHHhCCCCCchHHHHHH
Q 017234          254 KVLEG-L--CARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELG-----RVDELEEQLETLTKCNQSPEVLLHFFS  325 (375)
Q Consensus       254 ~li~~-~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~~  325 (375)
                      .+... +  ...++.++|...|++..+.|   +...+..|...|. .|     ++++|...|++.. .|   +...  +.
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A--~~  322 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAA--DY  322 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHH--HH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHH--HH
Confidence            44433 2  24556666666666665554   4445555555554 33     5666666665554 11   1111  33


Q ss_pred             HHHHHHHh----hCCHHHHHHHHHHHHhCC
Q 017234          326 GIIRLYAL----SDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       326 ~li~~~~~----~g~~~~A~~~~~~m~~~~  351 (375)
                      .|...|..    ..++++|...|++..+.|
T Consensus       323 ~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  352 (452)
T 3e4b_A          323 YLGQIYRRGYLGKVYPQKALDHLLTAARNG  352 (452)
T ss_dssp             HHHHHHHTTTTSSCCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHCCCCCCcCHHHHHHHHHHHHhhC
Confidence            34444443    225666666666555544

>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=99.02  E-value=5e-09  Score=101.33  Aligned_cols=174  Identities=10%  Similarity=-0.018  Sum_probs=140.1

Q ss_pred             HcCCChHHHHHHHHHHH--------hCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHH
Q 017234          154 LCSGDVVTALSLFEIMV--------SSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSL  225 (375)
Q Consensus       154 ~~~g~~~~a~~~~~~m~--------~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  225 (375)
                      ...|++++|++.+++..        +  ..+.+...+..+..++...|++++|.+.|++..+.... +...|..+..++.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~--~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGV--DFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC---------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccc--ccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHH
Confidence            67899999999999987        3  12345567888888999999999999999999887644 7888999999999


Q ss_pred             ccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHH
Q 017234          226 KARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEE  305 (375)
Q Consensus       226 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  305 (375)
                      ..|++++|...|++..+.. +-+...+..+..++.+.|++++ ...|++..+.. +.+...|..+..++.+.|++++|..
T Consensus       479 ~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          479 LTGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999998864 3356788889999999999999 99999998764 4467889999999999999999999


Q ss_pred             HHHHHHhCCCCCchHHHHHHHHHHHHHhhCC
Q 017234          306 QLETLTKCNQSPEVLLHFFSGIIRLYALSDR  336 (375)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  336 (375)
                      .|++..+  ..|+.... +..+..++...|+
T Consensus       556 ~~~~al~--l~P~~~~a-~~~~~~~~~~~~~  583 (681)
T 2pzi_A          556 TLDEVPP--TSRHFTTA-RLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTSCT--TSTTHHHH-HHHHHHHTC----
T ss_pred             HHHhhcc--cCcccHHH-HHHHHHHHHccCC
Confidence            9998877  44654333 6677777766555

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.02  E-value=2.7e-08  Score=81.21  Aligned_cols=178  Identities=15%  Similarity=0.119  Sum_probs=78.2

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh-hcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHH
Q 017234          144 AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS-KTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIH  222 (375)
Q Consensus       144 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  222 (375)
                      ..+......+...|++++|+..|++..+.   .|+. ..|...     ....              ...........+..
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~-----~~~~--------------~~~~~~~~~~~lg~   62 (208)
T 3urz_A            5 DEMLQKVSAAIEAGQNGQAVSYFRQTIAL---NIDRTEMYYWT-----NVDK--------------NSEISSKLATELAL   62 (208)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CHHHHHHHHHH-----HSCT--------------TSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCChHHHHHh-----hhcc--------------hhhhhHHHHHHHHH
Confidence            33444455566777777777777777662   3432 233330     0000              00001111122445


Q ss_pred             HHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCC--h
Q 017234          223 GSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGR--V  300 (375)
Q Consensus       223 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--~  300 (375)
                      +|...|++++|...|++..+.. +-+...+..+...+...|++++|...|++.++.. +.+..++..+..+|...|+  .
T Consensus        63 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~  140 (208)
T 3urz_A           63 AYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEK  140 (208)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHH
Confidence            5555555555555555555443 2234455555555555555555555555555432 2234445555444443332  2


Q ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          301 DELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      +.+...++....    |+.....+.....++...|++++|...|++..+
T Consensus       141 ~~~~~~~~~~~~----~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~  185 (208)
T 3urz_A          141 KKLETDYKKLSS----PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL  185 (208)
T ss_dssp             HHHHHHHC---C----CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhC----CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            223333333221    211111122233344445555555555555553

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.01  E-value=5.1e-08  Score=80.55  Aligned_cols=190  Identities=8%  Similarity=-0.006  Sum_probs=123.0

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC-hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCH--HhHH
Q 017234          142 DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN-SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNV--QTYE  218 (375)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~  218 (375)
                      +...+..+...+.+.|++++|+..|+++.+...-.|. ...+..+..++.+.|++++|.+.|+++.+..+....  .++.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            4556667777888999999999999998873211121 246777888899999999999999998876543111  2444


Q ss_pred             HHHHHHHc------------------cCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 017234          219 SLIHGSLK------------------ARDFDSVDRFYEEMMSLGIIPSI-PILEKVLEGLCARRKLDRVKSFLKFLLGGG  279 (375)
Q Consensus       219 ~ll~~~~~------------------~g~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  279 (375)
                      .+..++..                  .|++++|...|+++.+..  |+. ........    .+      .+...+    
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~----l~------~~~~~~----  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKR----LV------FLKDRL----  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHH----HH------HHHHHH----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHH----HH------HHHHHH----
Confidence            44444443                  355666666666666542  221 11111100    00      000000    


Q ss_pred             CCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCC
Q 017234          280 WKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQG  351 (375)
Q Consensus       280 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  351 (375)
                          ......+...|.+.|++++|...|+++.+..+........+..+..+|.+.|++++|.+.++.+...+
T Consensus       147 ----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 ----AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                01123456778899999999999999988654433222337788999999999999999999988764

>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=99.00  E-value=2.2e-08  Score=96.80  Aligned_cols=173  Identities=10%  Similarity=-0.048  Sum_probs=143.1

Q ss_pred             hccCChhHHHHHHHHHH--------HCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHH
Q 017234          119 GKVQNVPFAMHVFTSME--------AQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFS  190 (375)
Q Consensus       119 ~~~~~~~~a~~~~~~m~--------~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~  190 (375)
                      ...|++++|++.+++..        +.. +.+...+..+..++.+.|++++|++.|++..+..  +.+...|..+..++.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV--GWRWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--CCCHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC--cchHHHHHHHHHHHH
Confidence            78899999999999988        432 3466789999999999999999999999998731  345678888999999


Q ss_pred             cCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 017234          191 SLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKS  270 (375)
Q Consensus       191 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  270 (375)
                      ..|++++|.+.|++..+.... +...|..+..++...|++++ .+.|++..+.+ +.+...|..+..++.+.|++++|..
T Consensus       479 ~~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          479 LTGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999987654 77889999999999999999 99999998865 4467889999999999999999999


Q ss_pred             HHHHHHhCCCCcC-HHHHHHHHHHHHHcCC
Q 017234          271 FLKFLLGGGWKIN-ENMAQKLVKCYCELGR  299 (375)
Q Consensus       271 ~~~~~~~~~~~~~-~~~~~~li~~~~~~g~  299 (375)
                      .++++.+.  .|+ ...+..+..++...|+
T Consensus       556 ~~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          556 TLDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            99988765  354 5667777777766554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.99  E-value=3e-08  Score=80.92  Aligned_cols=179  Identities=12%  Similarity=0.039  Sum_probs=95.3

Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcC-HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          108 LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPD-SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       108 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      ...+......+.+.|++++|...|++..+.  .|+ ...|...     ....               ...........+.
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~-----~~~~---------------~~~~~~~~~~~lg   61 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWT-----NVDK---------------NSEISSKLATELA   61 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHH-----HSCT---------------TSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHh-----hhcc---------------hhhhhHHHHHHHH
Confidence            444555667788999999999999999876  343 3334330     0000               0011112233455


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC--
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRK--  264 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~--  264 (375)
                      .+|.+.|++++|...|++..+..+. +...+..+...+...|++++|...|++..+.. +.+...+..+...|...|+  
T Consensus        62 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~  139 (208)
T 3urz_A           62 LAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQE  139 (208)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHH
Confidence            5566666666666666666655433 55666666666666666666666666666543 2334555555555544332  


Q ss_pred             HHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          265 LDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       265 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      .+.+...++....  ..|....+.....++...|++++|...|++..+
T Consensus       140 ~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~  185 (208)
T 3urz_A          140 KKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL  185 (208)
T ss_dssp             HHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            2233333333321  112222233334445556666666666666665

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.97  E-value=9.6e-09  Score=81.44  Aligned_cols=163  Identities=12%  Similarity=-0.004  Sum_probs=104.5

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-H
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEG-L  259 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~  259 (375)
                      .+......+.+.|++++|...|++..+..+. +...+..+...+...|++++|...|++.....  |+...+...... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQS-RGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHT-SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            3445556667777777777777776654332 56667777777777777777777777765543  243332222111 1


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCc-hHHHHHHHHHHHHHhhCCHH
Q 017234          260 CARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPE-VLLHFFSGIIRLYALSDRLD  338 (375)
Q Consensus       260 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~  338 (375)
                      ...++...+...+++..+.. +-+...+..+..++...|++++|...|+++.+..+.+. ...  +..+...+...|+.+
T Consensus        85 ~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a--~~~l~~~~~~~g~~~  161 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEV--KKTFMDILSALGQGN  161 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHH--HHHHHHHHHHHCSSC
T ss_pred             HhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHH--HHHHHHHHHHhCCCC
Confidence            12223334667777776643 33567778888888888888888888888877654432 223  677788888888888


Q ss_pred             HHHHHHHHHHh
Q 017234          339 DVEYSVGRMGK  349 (375)
Q Consensus       339 ~A~~~~~~m~~  349 (375)
                      +|...|++...
T Consensus       162 ~A~~~y~~al~  172 (176)
T 2r5s_A          162 AIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHH
T ss_pred             cHHHHHHHHHH
Confidence            88888877653

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.97  E-value=1.9e-08  Score=86.58  Aligned_cols=160  Identities=9%  Similarity=-0.059  Sum_probs=75.4

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHH
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEK-VLEGLC  260 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~-li~~~~  260 (375)
                      +..+...+.+.|++++|...|++..+..+. +...+..+...+...|++++|...+++....  .|+...... ....+.
T Consensus       120 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~  196 (287)
T 3qou_A          120 XAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELL  196 (287)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHH
Confidence            334444444555555555555554444322 4444555555555555555555555544433  223221111 112233


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCc-hHHHHHHHHHHHHHhhCCHHH
Q 017234          261 ARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPE-VLLHFFSGIIRLYALSDRLDD  339 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~  339 (375)
                      ..++.+.|...+++..+.. +.+...+..+...+...|++++|...++++.+.+.... ...  +..++..|...|+.++
T Consensus       197 ~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a--~~~l~~~~~~~g~~~~  273 (287)
T 3qou_A          197 XQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQT--RXTFQEILAALGTGDA  273 (287)
T ss_dssp             HHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHH--HHHHHHHHHHHCTTCH
T ss_pred             hhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchH--HHHHHHHHHHcCCCCc
Confidence            4444455555555554432 33445555555555555555555555555555332211 111  5555555555565555


Q ss_pred             HHHHHHHH
Q 017234          340 VEYSVGRM  347 (375)
Q Consensus       340 A~~~~~~m  347 (375)
                      |...|++.
T Consensus       274 a~~~~r~a  281 (287)
T 3qou_A          274 LASXYRRQ  281 (287)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555543

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.95  E-value=1.9e-07  Score=76.30  Aligned_cols=128  Identities=9%  Similarity=-0.028  Sum_probs=53.1

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCC----CHHHHHHHHHHHHHCCCCcCHHhH
Q 017234          142 DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLG----NVDAMNKWYAANIAAGFSVNVQTY  217 (375)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~~m~~~~~~~~~~~~  217 (375)
                      ++..+..+...|...+++++|++.|++..+ .   -+...+..|...|.. +    ++++|.++|++..+.|   +..++
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~-~---g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~   88 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAA-Q---GDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGE   88 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-T---TCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-c---CCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            344444444444444444444444444444 1   123333334433433 3    4444444444444332   33334


Q ss_pred             HHHHHHHHc----cCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHh
Q 017234          218 ESLIHGSLK----ARDFDSVDRFYEEMMSLGII-PSIPILEKVLEGLCA----RRKLDRVKSFLKFLLG  277 (375)
Q Consensus       218 ~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~  277 (375)
                      ..|...|..    .+++++|...|++..+.|.. .+...+..|...|..    .++.++|...+++..+
T Consensus        89 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~  157 (212)
T 3rjv_A           89 IVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSS  157 (212)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            444444443    44444444444444443210 013334444444443    3444444444444443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.93  E-value=2.2e-06  Score=73.79  Aligned_cols=218  Identities=8%  Similarity=-0.012  Sum_probs=133.5

Q ss_pred             hhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCC--ChHHHHHHHHHHHhCCCCCCChhcHHHHHHHH----HcC---CC
Q 017234          124 VPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSG--DVVTALSLFEIMVSSEEYKPNSKTYDAFISGF----SSL---GN  194 (375)
Q Consensus       124 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~----~~~---~~  194 (375)
                      .++|+++++.+...+ +-+..+|+.--.++...|  ++++++++++.+...  .+-+..+|+.--..+    ...   ++
T Consensus        49 s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~--nPk~y~aW~~R~~iL~~~~~~l~~~~~  125 (306)
T 3dra_A           49 SERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALD--NEKNYQIWNYRQLIIGQIMELNNNDFD  125 (306)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHH--CTTCCHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             CHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHH--CcccHHHHHHHHHHHHHHHHhccccCC
Confidence            346777776666653 224455666666666666  677777777777652  123334444332222    333   56


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC------HH
Q 017234          195 VDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFD--SVDRFYEEMMSLGIIPSIPILEKVLEGLCARRK------LD  266 (375)
Q Consensus       195 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~--~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~------~~  266 (375)
                      +++++++++.+.+...+ |..+|+--.-.+.+.|.++  ++++.++++.+.+ .-|-..|+.-.....+.+.      ++
T Consensus       126 ~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~  203 (306)
T 3dra_A          126 PYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTID  203 (306)
T ss_dssp             THHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHH
Confidence            77777777777766544 6667766666666667666  7777777777665 3455666666555555555      67


Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-CCC-chHHHHHHHHHHHHHhhCCHHHHHHH
Q 017234          267 RVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDE-LEEQLETLTKCN-QSP-EVLLHFFSGIIRLYALSDRLDDVEYS  343 (375)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~-~~~-~~~~~~~~~li~~~~~~g~~~~A~~~  343 (375)
                      ++.+.++.++... +-|...|+.+-..+.+.|+... +..+..++.+.+ ..| +...  +..+.+.|.+.|+.++|.++
T Consensus       204 eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~a--l~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          204 EELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFA--LETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHH--HHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHH--HHHHHHHHHccCCHHHHHHH
Confidence            7777777776654 4467777777777777766333 444555554432 112 1222  66777777777888888888


Q ss_pred             HHHHHh
Q 017234          344 VGRMGK  349 (375)
Q Consensus       344 ~~~m~~  349 (375)
                      ++.+.+
T Consensus       281 ~~~l~~  286 (306)
T 3dra_A          281 YDLLKS  286 (306)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            887764

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.93  E-value=3.4e-08  Score=93.54  Aligned_cols=157  Identities=9%  Similarity=-0.029  Sum_probs=120.0

Q ss_pred             CCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHH
Q 017234          156 SGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDR  235 (375)
Q Consensus       156 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~  235 (375)
                      .|++++|.+.|++..+.  -+.+...+..+...+...|++++|.+.|++..+.... +...+..+...|...|++++|.+
T Consensus         2 ~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHH
Confidence            47889999999998862  2345678889999999999999999999999887644 78889999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHc---CChHHHHHHHHHHHh
Q 017234          236 FYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCEL---GRVDELEEQLETLTK  312 (375)
Q Consensus       236 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~~~~  312 (375)
                      .|++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++...   |+.++|.+.+++..+
T Consensus        79 ~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           79 LLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            999998865 4457889999999999999999999999998764 44678889999999999   999999999999988


Q ss_pred             CCCCC
Q 017234          313 CNQSP  317 (375)
Q Consensus       313 ~~~~~  317 (375)
                      .+...
T Consensus       157 ~~p~~  161 (568)
T 2vsy_A          157 QGVGA  161 (568)
T ss_dssp             HTCCC
T ss_pred             cCCcc
Confidence            66544

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.93  E-value=7.2e-08  Score=83.77  Aligned_cols=130  Identities=8%  Similarity=-0.015  Sum_probs=61.4

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHC----CCCc-CHHhHHHHHHHHHccCChHHHHHHHHHHHHC----CCCC-CHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAA----GFSV-NVQTYESLIHGSLKARDFDSVDRFYEEMMSL----GIIP-SIP  250 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~  250 (375)
                      +|+.+...|...|++++|...|++..+.    |-.. -..+++.+...|.. |++++|+..|++..+.    +-.+ ...
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~  156 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAE  156 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHH
Confidence            4444455555555555555555543321    1000 12344555555555 5565555555554432    1000 023


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCcC-HHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          251 ILEKVLEGLCARRKLDRVKSFLKFLLGG----GWKIN-ENMAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       251 ~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                      ++..+...+...|++++|...+++..+.    +..+. ...+..+..++...|++++|...|++..
T Consensus       157 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          157 LIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            4555555566666666666666555432    11111 1234444455555566666666666555

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.93  E-value=4e-07  Score=74.43  Aligned_cols=178  Identities=10%  Similarity=0.042  Sum_probs=145.6

Q ss_pred             HHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccC----ChHHHHH
Q 017234          160 VTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKAR----DFDSVDR  235 (375)
Q Consensus       160 ~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g----~~~~a~~  235 (375)
                      .+|++.|++..+    .-+...+..+...|...+++++|.++|++..+.|   +...+..|-..|.. +    ++++|.+
T Consensus         3 ~eA~~~~~~aa~----~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~   74 (212)
T 3rjv_A            3 TEPGSQYQQQAE----AGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQ   74 (212)
T ss_dssp             -CTTHHHHHHHH----TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHH
T ss_pred             chHHHHHHHHHH----CCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHH
Confidence            357788888887    2567788889999999999999999999998875   67778888888888 7    8999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCC-cCHHHHHHHHHHHHH----cCChHHHHHH
Q 017234          236 FYEEMMSLGIIPSIPILEKVLEGLCA----RRKLDRVKSFLKFLLGGGWK-INENMAQKLVKCYCE----LGRVDELEEQ  306 (375)
Q Consensus       236 ~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~~  306 (375)
                      .|++..+.|   +...+..|...|..    .+++++|..++++..+.|.. .++..+..|...|..    .+++++|...
T Consensus        75 ~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~  151 (212)
T 3rjv_A           75 LAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEY  151 (212)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHH
T ss_pred             HHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            999998765   56678888888877    88999999999999987621 127788889999988    8899999999


Q ss_pred             HHHHHhCCCCCchHHHHHHHHHHHHHhh-C-----CHHHHHHHHHHHHhCCC
Q 017234          307 LETLTKCNQSPEVLLHFFSGIIRLYALS-D-----RLDDVEYSVGRMGKQGL  352 (375)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~li~~~~~~-g-----~~~~A~~~~~~m~~~~~  352 (375)
                      |++..+.+-.+  ..  +..|...|... |     ++++|...|++..+.|.
T Consensus       152 ~~~A~~~~~~~--~a--~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          152 FKGSSSLSRTG--YA--EYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHTSCTT--HH--HHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHcCCCH--HH--HHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            99998863223  23  56677777654 3     89999999999999886

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.93  E-value=4.9e-08  Score=84.84  Aligned_cols=199  Identities=11%  Similarity=0.037  Sum_probs=139.9

Q ss_pred             cCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHc-CCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHH
Q 017234          121 VQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLC-SGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMN  199 (375)
Q Consensus       121 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  199 (375)
                      .|++++|.+++++..+.. +..          +.+ .+++++|...|++.                ...|...|++++|.
T Consensus         4 ~~~~~eA~~~~~~a~k~~-~~~----------~~~~~~~~~~A~~~~~~a----------------~~~~~~~g~~~~A~   56 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL-KTS----------FMKWKPDYDSAASEYAKA----------------AVAFKNAKQLEQAK   56 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH-CCC----------SSSCSCCHHHHHHHHHHH----------------HHHHHHTTCHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc-ccc----------ccCCCCCHHHHHHHHHHH----------------HHHHHHcCCHHHHH
Confidence            456677777777665431 111          112 46777777776654                34566778888888


Q ss_pred             HHHHHHHHC----CCCc-CHHhHHHHHHHHHccCChHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHhcCCHHHH
Q 017234          200 KWYAANIAA----GFSV-NVQTYESLIHGSLKARDFDSVDRFYEEMMSL----GIIPS--IPILEKVLEGLCARRKLDRV  268 (375)
Q Consensus       200 ~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~~p~--~~~~~~li~~~~~~g~~~~a  268 (375)
                      +.|.+..+.    +-.+ -..+|+.+...|...|++++|...|++..+.    | .+.  ..++..+...|.. |++++|
T Consensus        57 ~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g-~~~~~a~~~~~lg~~~~~-g~~~~A  134 (307)
T 2ifu_A           57 DAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENG-TPDTAAMALDRAGKLMEP-LDLSKA  134 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHHTT-TCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHHHc-CCHHHH
Confidence            888776543    1111 1457888889999999999999999887643    2 122  3577888888888 999999


Q ss_pred             HHHHHHHHhC----CCCc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC---CchHHHHHHHHHHHHHhhCCHHHH
Q 017234          269 KSFLKFLLGG----GWKI-NENMAQKLVKCYCELGRVDELEEQLETLTKCNQS---PEVLLHFFSGIIRLYALSDRLDDV  340 (375)
Q Consensus       269 ~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A  340 (375)
                      ...+++..+.    |-.+ ...++..+...|...|++++|...|++..+....   +......+..+..++...|++++|
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            9999988653    1111 1467888999999999999999999988763211   111111367777788888999999


Q ss_pred             HHHHHHHH
Q 017234          341 EYSVGRMG  348 (375)
Q Consensus       341 ~~~~~~m~  348 (375)
                      ...|++..
T Consensus       215 ~~~~~~al  222 (307)
T 2ifu_A          215 QKCVRESY  222 (307)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHh
Confidence            99999988

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.92  E-value=1.7e-06  Score=74.46  Aligned_cols=235  Identities=9%  Similarity=0.028  Sum_probs=180.6

Q ss_pred             hcCC-hHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccC--ChhHHHHHHHHHHHCCCCcCHhHHHHHHHHH----H
Q 017234           82 QSSS-PKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQ--NVPFAMHVFTSMEAQGIKPDSAVFNSLICAC----L  154 (375)
Q Consensus        82 ~~~~-~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~----~  154 (375)
                      +.+. .++|++.    .+.+...++.+..+|+.--..+...|  +++++++.++.+.... +-+..+|+.--..+    .
T Consensus        44 ~~~e~s~~aL~~----t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~  118 (306)
T 3dra_A           44 KAEEYSERALHI----TELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIME  118 (306)
T ss_dssp             HTTCCSHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHH----HHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHH
Confidence            4444 4688888    66777777778888998888888888  9999999999998875 33566676655555    4


Q ss_pred             cC---CChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHH--HHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCC
Q 017234          155 CS---GDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVD--AMNKWYAANIAAGFSVNVQTYESLIHGSLKARD  229 (375)
Q Consensus       155 ~~---g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~--~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~  229 (375)
                      +.   +++++++++++.+.+.  -+-+..+|+.-.-.+.+.|.++  ++++.++++.+..+. |-.+|+.-...+...|.
T Consensus       119 ~l~~~~~~~~EL~~~~~~l~~--~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~  195 (306)
T 3dra_A          119 LNNNDFDPYREFDILEAMLSS--DPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKH  195 (306)
T ss_dssp             HTTTCCCTHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGG
T ss_pred             hccccCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccc
Confidence            55   7899999999999873  2567778887777777888887  999999999998765 88888887777777776


Q ss_pred             ------hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhCC--CCcCHHHHHHHHHHHHHcCCh
Q 017234          230 ------FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL-DRVKSFLKFLLGGG--WKINENMAQKLVKCYCELGRV  300 (375)
Q Consensus       230 ------~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~  300 (375)
                            ++++++.++++.... +-|...|+.+-..+.+.|+. +.+..+..++.+.+  -..+...+..+...|.+.|+.
T Consensus       196 ~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~  274 (306)
T 3dra_A          196 LATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKY  274 (306)
T ss_dssp             GCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCH
T ss_pred             cchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCH
Confidence                  889999999988876 56788898888888888874 44556666665432  134778899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHH
Q 017234          301 DELEEQLETLTKCNQSPEVLLHFFSGI  327 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~~~l  327 (375)
                      ++|.++++.+.+. ..|...-+ |+..
T Consensus       275 ~~A~~~~~~l~~~-~Dpir~~y-W~~~  299 (306)
T 3dra_A          275 NESRTVYDLLKSK-YNPIRSNF-WDYQ  299 (306)
T ss_dssp             HHHHHHHHHHHHT-TCGGGHHH-HHHH
T ss_pred             HHHHHHHHHHHhc-cChHHHHH-HHHH
Confidence            9999999999863 34544442 5443

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.91  E-value=4e-07  Score=78.42  Aligned_cols=162  Identities=7%  Similarity=-0.026  Sum_probs=81.5

Q ss_pred             HHHHHHcCCChHHHHHHHHHHHhCCCCCCChh----cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-cC----HHhHHH
Q 017234          149 LICACLCSGDVVTALSLFEIMVSSEEYKPNSK----TYDAFISGFSSLGNVDAMNKWYAANIAAGFS-VN----VQTYES  219 (375)
Q Consensus       149 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~  219 (375)
                      .+..+...|++++|.+++++..+.....|+..    .+..+...+...+++++|...|++..+.... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            35566667777777777777665222222211    2223445555556666666666666553221 11    224566


Q ss_pred             HHHHHHccCChHHHHHHHHHHHH----C-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCcC-HHHHH
Q 017234          220 LIHGSLKARDFDSVDRFYEEMMS----L-GIIPS-IPILEKVLEGLCARRKLDRVKSFLKFLLGG----GWKIN-ENMAQ  288 (375)
Q Consensus       220 ll~~~~~~g~~~~a~~~~~~m~~----~-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~  288 (375)
                      +...|...|++++|...|++..+    . +..+. ..++..+...|.+.|++++|...+++..+.    +..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            66666666666666666666552    1 11111 124555555555566666665555554321    11111 34455


Q ss_pred             HHHHHHHHcCC-hHHHHHHHHHH
Q 017234          289 KLVKCYCELGR-VDELEEQLETL  310 (375)
Q Consensus       289 ~li~~~~~~g~-~~~a~~~~~~~  310 (375)
                      .+..+|.+.|+ +++|...+++.
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHH
Confidence            55555555553 35555555443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.91  E-value=2.1e-07  Score=76.83  Aligned_cols=186  Identities=11%  Similarity=-0.015  Sum_probs=131.5

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCC-c-CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChh----
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIK-P-DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSK----  180 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~----  180 (375)
                      +...+..+...+.+.|++++|...|+++.+.... | ....+..+..++.+.|++++|+..|++..+.   .|+..    
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~---~P~~~~~~~   79 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL---NPTHPNIDY   79 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCTTHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH---CcCCCcHHH
Confidence            3456677788899999999999999999876321 1 1357888999999999999999999999873   34432    


Q ss_pred             cHHHHHHHHHc------------------CCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHH
Q 017234          181 TYDAFISGFSS------------------LGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       181 ~~~~ll~~~~~------------------~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  242 (375)
                      .+..+..++..                  .|++++|...|+++.+..+. +...+.+....-          .+...+. 
T Consensus        80 a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l~----------~~~~~~~-  147 (225)
T 2yhc_A           80 VMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRLV----------FLKDRLA-  147 (225)
T ss_dssp             HHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHHH----------HHHHHHH-
T ss_pred             HHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHHH----------HHHHHHH-
Confidence            34444555543                  57899999999999987533 333333221110          0111111 


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC
Q 017234          243 LGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN----ENMAQKLVKCYCELGRVDELEEQLETLTKCNQS  316 (375)
Q Consensus       243 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  316 (375)
                             .....+...+.+.|++++|...++.+++..  |+    ...+..+..+|.+.|++++|.+.++.+...++.
T Consensus       148 -------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          148 -------KYEYSVAEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             -------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             -------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence                   112345667888999999999999988753  33    256788889999999999999999988876543

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.90  E-value=4.9e-08  Score=92.49  Aligned_cols=154  Identities=12%  Similarity=-0.019  Sum_probs=119.4

Q ss_pred             cCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHH
Q 017234          121 VQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNK  200 (375)
Q Consensus       121 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  200 (375)
                      .|++++|.+.+++..+.. +-+...|..+...+.+.|++++|.+.|++..+.  -+.+...+..+...|...|++++|.+
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            478999999999988763 335789999999999999999999999999972  24457788899999999999999999


Q ss_pred             HHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHh
Q 017234          201 WYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCAR---RKLDRVKSFLKFLLG  277 (375)
Q Consensus       201 ~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---g~~~~a~~~~~~~~~  277 (375)
                      .+++..+.... +...+..+..+|...|++++|.+.|++..+.. +.+...+..+...+...   |+.++|...+++..+
T Consensus        79 ~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           79 LLQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            99999887644 78899999999999999999999999998875 34578889999999999   999999999999987


Q ss_pred             CC
Q 017234          278 GG  279 (375)
Q Consensus       278 ~~  279 (375)
                      .+
T Consensus       157 ~~  158 (568)
T 2vsy_A          157 QG  158 (568)
T ss_dssp             HT
T ss_pred             cC
Confidence            65

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.90  E-value=9.6e-09  Score=79.15  Aligned_cols=108  Identities=6%  Similarity=0.004  Sum_probs=46.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 017234          192 LGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSF  271 (375)
Q Consensus       192 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  271 (375)
                      .|++++|++.++........ +...+..+...|.+.|++++|.+.|++..+.. +-+...|..+..++...|++++|...
T Consensus        10 ~~~~e~ai~~~~~a~~~~p~-~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~   87 (150)
T 4ga2_A           10 KADVERYIASVQGSTPSPRQ-KSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVEC   87 (150)
T ss_dssp             HHHHHHHHHHHHHHSCSHHH-HHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cChHHHHHHHHHHhcccCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHHH
Confidence            34444444444443332111 22333344444444444444444444444432 22344444444444444555555555


Q ss_pred             HHHHHhCCCCcCHHHHHHHHHHHHHcCChHH
Q 017234          272 LKFLLGGGWKINENMAQKLVKCYCELGRVDE  302 (375)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  302 (375)
                      |++..+.. +-+..++..+...|.+.|++++
T Consensus        88 ~~~al~~~-p~~~~~~~~la~~~~~~~~~~~  117 (150)
T 4ga2_A           88 YRRSVELN-PTQKDLVLKIAELLCKNDVTDG  117 (150)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHCSSSS
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCChHH
Confidence            44444432 1234444444444555554443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.88  E-value=7.2e-08  Score=82.88  Aligned_cols=164  Identities=8%  Similarity=-0.010  Sum_probs=90.2

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHH-HH
Q 017234          142 DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYE-SL  220 (375)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-~l  220 (375)
                      +...+..+...+.+.|++++|...|++..+..  +-+...+..+...+.+.|++++|...+++.....  |+..... ..
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~  191 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS--NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVA  191 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHH
Confidence            34455555556666666666666666665521  2234455556666666666666666666655443  2322222 12


Q ss_pred             HHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-cCHHHHHHHHHHHHHcCC
Q 017234          221 IHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWK-INENMAQKLVKCYCELGR  299 (375)
Q Consensus       221 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~  299 (375)
                      ...+...++.++|...+++..... +.+...+..+...+...|++++|...+.++.+..-. .+...+..+...+...|+
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence            222445555666666666665543 334556666666666666666666666666554211 124556666666666666


Q ss_pred             hHHHHHHHHHH
Q 017234          300 VDELEEQLETL  310 (375)
Q Consensus       300 ~~~a~~~~~~~  310 (375)
                      .++|...+++.
T Consensus       271 ~~~a~~~~r~a  281 (287)
T 3qou_A          271 GDALASXYRRQ  281 (287)
T ss_dssp             TCHHHHHHHHH
T ss_pred             CCcHHHHHHHH
Confidence            66666665543

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.87  E-value=1.2e-08  Score=78.67  Aligned_cols=138  Identities=12%  Similarity=-0.015  Sum_probs=68.5

Q ss_pred             cCCChHHHHHHHHHHHhCCCCCC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHH
Q 017234          155 CSGDVVTALSLFEIMVSSEEYKP-NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSV  233 (375)
Q Consensus       155 ~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a  233 (375)
                      ..|++++|+..++....   ..| +...+-.+...|.+.|++++|.+.|++..+..+. +..+|..+..+|...|++++|
T Consensus         9 ~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            9 SKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             CHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchHHH
Confidence            34455555555555543   122 2233444555555556666666666555554432 455555555556666666666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH-HHHHHHhCCCCcCHHHHHHHHHHHHHcC
Q 017234          234 DRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKS-FLKFLLGGGWKINENMAQKLVKCYCELG  298 (375)
Q Consensus       234 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~-~~~~~~~~~~~~~~~~~~~li~~~~~~g  298 (375)
                      ...|++..+.+ +-+...+..+...|.+.|+.+++.. ++++..+.. +-++.+|......+...|
T Consensus        85 ~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           85 VECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            66665555543 2234555555555555555544333 234444422 223444444444444443

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.86  E-value=4.8e-07  Score=86.59  Aligned_cols=220  Identities=7%  Similarity=0.011  Sum_probs=167.8

Q ss_pred             HHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHH-HHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHH
Q 017234          126 FAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTAL-SLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAA  204 (375)
Q Consensus       126 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~-~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  204 (375)
                      .+..+|++.... .+-+...|-..+..+...|+.++|. ++|++...  .++.+...|-..+....+.|+++.|.++|++
T Consensus       327 Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~--~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek  403 (679)
T 4e6h_A          327 RMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQ--CIPNSAVLAFSLSEQYELNTKIPEIETTILS  403 (679)
T ss_dssp             HHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            345667776654 2446778888888888889999997 99999986  2445555677788888899999999999999


Q ss_pred             HHHCCC---------Cc------------CHHhHHHHHHHHHccCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhc
Q 017234          205 NIAAGF---------SV------------NVQTYESLIHGSLKARDFDSVDRFYEEMMSL-GIIPSIPILEKVLEGLCAR  262 (375)
Q Consensus       205 m~~~~~---------~~------------~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~  262 (375)
                      +.+...         .|            ...+|...+....+.|+.+.|..+|....+. + .+....|...+..-.+.
T Consensus       404 ~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~  482 (679)
T 4e6h_A          404 CIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHI  482 (679)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHh
Confidence            876420         13            2346888888888899999999999999876 3 12223343333333344


Q ss_pred             -CCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHH
Q 017234          263 -RKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVE  341 (375)
Q Consensus       263 -g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  341 (375)
                       ++.+.|..+|+..++. ++-+...+...++.....|+.+.|..+|++.......+......|...+.--.+.|+.+.+.
T Consensus       483 ~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~  561 (679)
T 4e6h_A          483 SKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVR  561 (679)
T ss_dssp             TSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHH
T ss_pred             CCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence             4599999999999886 45567778889998889999999999999998865543344445999999889999999999


Q ss_pred             HHHHHHHhC
Q 017234          342 YSVGRMGKQ  350 (375)
Q Consensus       342 ~~~~~m~~~  350 (375)
                      .+.+++.+.
T Consensus       562 ~v~~R~~~~  570 (679)
T 4e6h_A          562 TLEKRFFEK  570 (679)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999999886

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.86  E-value=4.4e-08  Score=77.58  Aligned_cols=161  Identities=9%  Similarity=-0.024  Sum_probs=83.2

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHH-H
Q 017234          111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISG-F  189 (375)
Q Consensus       111 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~-~  189 (375)
                      +......+.+.|++++|...|++..+.. +-+...+..+..++.+.|++++|...+++..+.   .|+...+...... +
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLEL   84 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHH
Confidence            3344455555666666666665554432 224455556666666666666666666655441   2222222111111 1


Q ss_pred             HcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHH
Q 017234          190 SSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIP-SIPILEKVLEGLCARRKLDRV  268 (375)
Q Consensus       190 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a  268 (375)
                      ...+...+|...+++..+..+. +...+..+...+...|++++|...|++..+....+ +...+..+...+...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            1111222345566665554332 45666666666666666666666666666553222 234555666666666666666


Q ss_pred             HHHHHHHH
Q 017234          269 KSFLKFLL  276 (375)
Q Consensus       269 ~~~~~~~~  276 (375)
                      ...|++.+
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66665543

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.84  E-value=3.1e-06  Score=72.78  Aligned_cols=209  Identities=8%  Similarity=0.001  Sum_probs=143.7

Q ss_pred             HHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhc---HHHHHHHHHcCCCHHHHHHHHHHHH
Q 017234          130 VFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKT---YDAFISGFSSLGNVDAMNKWYAANI  206 (375)
Q Consensus       130 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~---~~~ll~~~~~~~~~~~a~~~~~~m~  206 (375)
                      .+..+......|+..+...+...+.-.-+     .++..     ....+...   +...+..+...|++++|.+++++..
T Consensus        33 ~~s~~e~g~~~~~~~~l~~i~~~l~~~~~-----~~~~~-----~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l  102 (293)
T 3u3w_A           33 EVSRIESGAVYPSMDILQGIAAKLQIPII-----HFYEV-----LIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNEL  102 (293)
T ss_dssp             HHHHHHTTSCCCCHHHHHHHHHHHTCCTH-----HHHHT-----TTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHhCcCHH-----HHhCC-----CCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHh
Confidence            44444444446777777777666543221     11111     11222222   3334677899999999999999988


Q ss_pred             HCCC-CcCH----HhHHHHHHHHHccCChHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 017234          207 AAGF-SVNV----QTYESLIHGSLKARDFDSVDRFYEEMMSLGII-PS----IPILEKVLEGLCARRKLDRVKSFLKFLL  276 (375)
Q Consensus       207 ~~~~-~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~  276 (375)
                      +... .|+.    ..+..+...+...|++++|...|++....... ++    ..+++.+...|...|++++|...++++.
T Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al  182 (293)
T 3u3w_A          103 KKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQIL  182 (293)
T ss_dssp             TTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7532 2232    23445777777888999999999999874322 22    3368999999999999999999999987


Q ss_pred             h----C-CCCcC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhC----CCCCchHHHHHHHHHHHHHhhCC-HHHHHHHHH
Q 017234          277 G----G-GWKIN-ENMAQKLVKCYCELGRVDELEEQLETLTKC----NQSPEVLLHFFSGIIRLYALSDR-LDDVEYSVG  345 (375)
Q Consensus       277 ~----~-~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~  345 (375)
                      +    . +..+. ..++..+...|.+.|++++|...+++..+.    +..+. ....|..+..+|.+.|+ +++|.+.++
T Consensus       183 ~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~-~~~~~~~lg~~~~~~g~~~~~A~~~~~  261 (293)
T 3u3w_A          183 KQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL-IGQLYYQRGECLRKLEYEEAEIEDAYK  261 (293)
T ss_dssp             HHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTT-HHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHH-HHHHHHHHHHHHHHhCCcHHHHHHHHH
Confidence            4    1 22222 347888999999999999999999887642    22222 22338899999999995 699999998


Q ss_pred             HHHh
Q 017234          346 RMGK  349 (375)
Q Consensus       346 ~m~~  349 (375)
                      +...
T Consensus       262 ~Al~  265 (293)
T 3u3w_A          262 KASF  265 (293)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.79  E-value=6.3e-07  Score=72.92  Aligned_cols=128  Identities=12%  Similarity=0.008  Sum_probs=79.8

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHH
Q 017234          145 VFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGS  224 (375)
Q Consensus       145 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~  224 (375)
                      .+..+...+...|++++|...|++..     .|+...+..+...+...|++++|.+.|++..+... .+...+..+..++
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~lg~~~   81 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHH
Confidence            34555666667777777777776553     35666677777777777777777777777666543 2566666677777


Q ss_pred             HccCChHHHHHHHHHHHHCCCCC---------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 017234          225 LKARDFDSVDRFYEEMMSLGIIP---------------SIPILEKVLEGLCARRKLDRVKSFLKFLLGG  278 (375)
Q Consensus       225 ~~~g~~~~a~~~~~~m~~~~~~p---------------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  278 (375)
                      ...|++++|...|++..+.....               ....+..+..++...|++++|...++...+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            77777777777777766643111               0144555555555666666666666665543

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.76  E-value=5.4e-07  Score=73.31  Aligned_cols=130  Identities=11%  Similarity=0.019  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHH
Q 017234          109 DEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISG  188 (375)
Q Consensus       109 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~  188 (375)
                      ..+..+...+...|++++|...|++..    .|+...|..+..++.+.|++++|...|++..+.  .+.+...+..+..+
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~   80 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHH
Confidence            345566677778888888888887663    567778888888888888888888888887762  13455677778888


Q ss_pred             HHcCCCHHHHHHHHHHHHHCCCCc---------------CHHhHHHHHHHHHccCChHHHHHHHHHHHHCC
Q 017234          189 FSSLGNVDAMNKWYAANIAAGFSV---------------NVQTYESLIHGSLKARDFDSVDRFYEEMMSLG  244 (375)
Q Consensus       189 ~~~~~~~~~a~~~~~~m~~~~~~~---------------~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~  244 (375)
                      +...|++++|.+.|++..+.....               +...+..+..++...|++++|...|++..+..
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            888888888888888877764321               12667777888888888888888888887653

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.76  E-value=1.8e-06  Score=82.59  Aligned_cols=218  Identities=10%  Similarity=0.029  Sum_probs=165.7

Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHhccCChhHHH-HHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCC--
Q 017234           97 LDKMLKGNESCLDEYACLIALSGKVQNVPFAM-HVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSE--  173 (375)
Q Consensus        97 ~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~-~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--  173 (375)
                      +++.....+.+...|-..+..+.+.|+.+.|. ++|++.... .+.+...|-..+...-+.|++++|.++|+.+.+..  
T Consensus       332 Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~  410 (679)
T 4e6h_A          332 YMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHL  410 (679)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Confidence            55655556668888999999999999999996 999998865 34567778888888999999999999999998620  


Q ss_pred             ------CCCCC------------hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHcc-CChHHHH
Q 017234          174 ------EYKPN------------SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKA-RDFDSVD  234 (375)
Q Consensus       174 ------~~~~~------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-g~~~~a~  234 (375)
                            .-.|+            ..+|...+....+.|..+.|..+|.+..+.-..+....|...+..-.+. ++.+.|.
T Consensus       411 ~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar  490 (679)
T 4e6h_A          411 DLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTAC  490 (679)
T ss_dssp             HHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHH
T ss_pred             HhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHH
Confidence                  00132            2367788888888999999999999998861112233343333333333 5599999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc--CHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          235 RFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKI--NENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       235 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      ++|+...+. .+-+...+...+......|+.+.|..+|+........+  ....|...+..-.+.|+.+.+.++.+++.+
T Consensus       491 ~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~  569 (679)
T 4e6h_A          491 KVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFE  569 (679)
T ss_dssp             HHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999886 23456667778887888999999999999998864322  346788999999999999999999999988


Q ss_pred             CCCC
Q 017234          313 CNQS  316 (375)
Q Consensus       313 ~~~~  316 (375)
                      ..+.
T Consensus       570 ~~P~  573 (679)
T 4e6h_A          570 KFPE  573 (679)
T ss_dssp             HSTT
T ss_pred             hCCC
Confidence            6543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.75  E-value=2.3e-06  Score=73.53  Aligned_cols=168  Identities=7%  Similarity=-0.024  Sum_probs=100.6

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh----hcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC---cC--
Q 017234          143 SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS----KTYDAFISGFSSLGNVDAMNKWYAANIAAGFS---VN--  213 (375)
Q Consensus       143 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~---~~--  213 (375)
                      ...+...+..+...|++++|.+.+++..+.....++.    ..+..+...+...|++++|...+++..+....   +.  
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            3445556677778888888888887776622111111    12333455566677777777777776643211   11  


Q ss_pred             HHhHHHHHHHHHccCChHHHHHHHHHHHHC-CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCc-
Q 017234          214 VQTYESLIHGSLKARDFDSVDRFYEEMMSL-GIIPS-----IPILEKVLEGLCARRKLDRVKSFLKFLLGGG----WKI-  282 (375)
Q Consensus       214 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~-  282 (375)
                      ..+|+.+...|...|++++|...|++..+. ...|+     ..++..+...|...|++++|...+++..+..    ... 
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            346777777777777777777777776521 00111     1466677777777777777777777665321    111 


Q ss_pred             CHHHHHHHHHHHHHcCChHHH-HHHHHHH
Q 017234          283 NENMAQKLVKCYCELGRVDEL-EEQLETL  310 (375)
Q Consensus       283 ~~~~~~~li~~~~~~g~~~~a-~~~~~~~  310 (375)
                      -..+|..+..+|.+.|++++| ...+++.
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence            145666677777777777777 5555554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.74  E-value=3.7e-06  Score=72.31  Aligned_cols=170  Identities=8%  Similarity=-0.035  Sum_probs=126.7

Q ss_pred             hcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcC-----HHhHHHHHHHHHccCChHHHHHHHHHHHHCCC---CCC--H
Q 017234          180 KTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVN-----VQTYESLIHGSLKARDFDSVDRFYEEMMSLGI---IPS--I  249 (375)
Q Consensus       180 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~---~p~--~  249 (375)
                      ..+...+..+...|++++|.+.+++..+.....+     ...+..+...+...|++++|...+++..+...   .+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            4555677888999999999999998877543211     12344566677888999999999999875321   222  4


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHh---C-CCCc--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC---CCCchH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLG---G-GWKI--NENMAQKLVKCYCELGRVDELEEQLETLTKCN---QSPEVL  320 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~---~-~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~  320 (375)
                      .+++.+...|...|++++|...+++..+   . +-.+  ...++..+...|...|++++|...+++..+..   -.+...
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            5888999999999999999999999873   2 1111  12588899999999999999999999876431   111122


Q ss_pred             HHHHHHHHHHHHhhCCHHHH-HHHHHHHHh
Q 017234          321 LHFFSGIIRLYALSDRLDDV-EYSVGRMGK  349 (375)
Q Consensus       321 ~~~~~~li~~~~~~g~~~~A-~~~~~~m~~  349 (375)
                      ...|..+...|.+.|++++| ...+++...
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            33388899999999999999 777877654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.74  E-value=2.9e-07  Score=74.16  Aligned_cols=136  Identities=11%  Similarity=-0.040  Sum_probs=64.9

Q ss_pred             HHhHHHHHHHHHccCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCc--
Q 017234          214 VQTYESLIHGSLKARDFDSVDRFYEEMMSL----GIIP-SIPILEKVLEGLCARRKLDRVKSFLKFLLGG----GWKI--  282 (375)
Q Consensus       214 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~--  282 (375)
                      ..++..+...+...|++++|...+++..+.    +..| ...++..+...+...|++++|...+++..+.    +-.|  
T Consensus        26 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  105 (203)
T 3gw4_A           26 SGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLA  105 (203)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHH
Confidence            344444555555555555555555444331    1111 1234444555555555555555555554332    1011  


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhC---CCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          283 NENMAQKLVKCYCELGRVDELEEQLETLTKC---NQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       283 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      ...++..+...+...|++++|...+++..+.   ...+......+..+...+...|++++|...+++..+
T Consensus       106 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          106 ASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            1233455555566666666666666554321   111111122245566666666666666666665554

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.73  E-value=5.2e-08  Score=83.49  Aligned_cols=195  Identities=7%  Similarity=-0.048  Sum_probs=105.4

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHH
Q 017234          142 DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLI  221 (375)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll  221 (375)
                      +...+..+...+.+.|++++|+..|++..+..  +.+...|..+..+|.+.|++++|...+++..+.... +...+..+.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            34556666666777777777777777666521  224556666667777777777777777776665433 566677777


Q ss_pred             HHHHccCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCh
Q 017234          222 HGSLKARDFDSVDRFYEEMMSLGIIPSI-PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRV  300 (375)
Q Consensus       222 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  300 (375)
                      .+|...|++++|...|++..+.+  |+. ..+...+....+.   .+.. -+..........+......+...  ..|+.
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~~i~~~l~~l--~~~~~  151 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRI---AKKK-RWNSIEERRIHQESELHSYLTRL--IAAER  151 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHH---HHHH-HHHHHHHTCCCCCCHHHHHHHHH--HHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHH---HHHH-HHHHHHHHHHhhhHHHHHHHHHH--HHHHH
Confidence            77777777777777776665432  100 0011111111111   1111 11122222334444444433222  25777


Q ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhh-CCHHHHHHHHHHHHhC
Q 017234          301 DELEEQLETLTKCNQSPEVLLHFFSGIIRLYALS-DRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~  350 (375)
                      ++|.+.++...+.  .|+.... ...+-..+.+. +.+++|.++|.+..+.
T Consensus       152 ~~A~~~~~~al~~--~p~~~~~-~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          152 ERELEECQRNHEG--HEDDGHI-RAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHTTTSGGGTT--TSCHHHH-THHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHhhhcc--ccchhhh-hhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            7777777766553  3443321 33333334444 5677788888777654

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.72  E-value=7.5e-07  Score=69.10  Aligned_cols=131  Identities=9%  Similarity=0.003  Sum_probs=80.5

Q ss_pred             HhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 017234          215 QTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCY  294 (375)
Q Consensus       215 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  294 (375)
                      ..+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+..++
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            345555666666677777777666666543 2345666666666777777777777777766543 33566677777777


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          295 CELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       295 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      ...|++++|...+++..+..... .....+-.....+.+.|++++|...+.+..
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHD-KDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCC-HHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            77777777777777776643322 112112333334666777777777776654

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.71  E-value=7.5e-07  Score=69.10  Aligned_cols=127  Identities=9%  Similarity=-0.023  Sum_probs=74.8

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLC  260 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  260 (375)
                      .+..+...+...|++++|...|++..+.... +..++..+...+...|++++|...+++..+.. +.+...+..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            3445555566666666666666666554332 45566666666666666666666666666543 234556666666666


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCcCHHHHH--HHHHHHHHcCChHHHHHHHHHH
Q 017234          261 ARRKLDRVKSFLKFLLGGGWKINENMAQ--KLVKCYCELGRVDELEEQLETL  310 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~--~li~~~~~~g~~~~a~~~~~~~  310 (375)
                      ..|++++|...+++..+.. +.+...+.  .....+...|++++|...+...
T Consensus        93 ~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            7777777777776666542 22333332  2333355667777777666654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.69  E-value=8.1e-07  Score=65.01  Aligned_cols=13  Identities=23%  Similarity=0.432  Sum_probs=4.6

Q ss_pred             cCCChHHHHHHHH
Q 017234          155 CSGDVVTALSLFE  167 (375)
Q Consensus       155 ~~g~~~~a~~~~~  167 (375)
                      ..|++++|.+.++
T Consensus        21 ~~~~~~~A~~~~~   33 (125)
T 1na0_A           21 KQGDYDEAIEYYQ   33 (125)
T ss_dssp             HTTCHHHHHHHHH
T ss_pred             HcCCHHHHHHHHH
Confidence            3333333333333

>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=98.66  E-value=2.2e-05  Score=68.49  Aligned_cols=221  Identities=10%  Similarity=0.050  Sum_probs=146.0

Q ss_pred             hcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccC-ChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcC-C-C
Q 017234           82 QSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQ-NVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCS-G-D  158 (375)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-g-~  158 (375)
                      +....++|++.    .+++...++.+..+|+.--..+...| ++++++++++.+.... +-+..+|+.-..++.+. + +
T Consensus        66 ~~e~se~AL~l----t~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~  140 (349)
T 3q7a_A           66 KEEKSERALEL----TEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQD  140 (349)
T ss_dssp             TTCCSHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSC
T ss_pred             hCCCCHHHHHH----HHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCC
Confidence            34445678888    66777777778888888877777778 5899999999988775 33777888777766665 6 7


Q ss_pred             hHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHH--------HHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCC-
Q 017234          159 VVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVD--------AMNKWYAANIAAGFSVNVQTYESLIHGSLKARD-  229 (375)
Q Consensus       159 ~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~--------~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~-  229 (375)
                      +++++++++.+.+.  -+.|..+|+.-.-.+.+.|.++        ++++.++++.+..+. |..+|+.....+.+.++ 
T Consensus       141 ~~~EL~~~~k~L~~--dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          141 PVSEIEYIHGSLLP--DPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             CHHHHHHHHHHTSS--CTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTC
T ss_pred             hHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcccc
Confidence            88999999988862  2445666665444444444444        888888888887665 88888888877777775 


Q ss_pred             ------hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH--------------------HHHHHHHHHHHhCC----
Q 017234          230 ------FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL--------------------DRVKSFLKFLLGGG----  279 (375)
Q Consensus       230 ------~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~~~~~~----  279 (375)
                            ++++++.+++..... +-|...|+.+-..+.+.|+.                    .....+...+...+    
T Consensus       218 ~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  296 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPED  296 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSS
T ss_pred             ccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccc
Confidence                  577788887777654 45667777766666655543                    12222222222111    


Q ss_pred             -CCcCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          280 -WKINENMAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       280 -~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                       -.++......+++.|...|+.++|.++++.+.
T Consensus       297 ~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~  329 (349)
T 3q7a_A          297 TPLPVPLALEYLADSFIEQNRVDDAAKVFEKLS  329 (349)
T ss_dssp             CCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence             02455566666666666666666666666664

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.65  E-value=1e-06  Score=64.39  Aligned_cols=95  Identities=13%  Similarity=0.221  Sum_probs=44.7

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLC  260 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  260 (375)
                      .+..+...+...|++++|.+.++++.+... .+..++..+...+...|++++|...++++.+.. +.+..++..+...+.
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~   88 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            344444444555555555555555444322 134444444455555555555555555444432 223444444444455


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 017234          261 ARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~  277 (375)
                      ..|++++|...++++.+
T Consensus        89 ~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHH
Confidence            55555555555554443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.64  E-value=1.2e-06  Score=64.75  Aligned_cols=10  Identities=0%  Similarity=-0.017  Sum_probs=3.5

Q ss_pred             cCChHHHHHH
Q 017234          227 ARDFDSVDRF  236 (375)
Q Consensus       227 ~g~~~~a~~~  236 (375)
                      .|++++|...
T Consensus        59 ~~~~~~A~~~   68 (131)
T 2vyi_A           59 LGNYAGAVQD   68 (131)
T ss_dssp             TTCHHHHHHH
T ss_pred             hhchHHHHHH
Confidence            3333333333

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.63  E-value=1.2e-06  Score=64.95  Aligned_cols=21  Identities=19%  Similarity=0.113  Sum_probs=7.9

Q ss_pred             HHHHHHcCCChHHHHHHHHHH
Q 017234          149 LICACLCSGDVVTALSLFEIM  169 (375)
Q Consensus       149 li~~~~~~g~~~~a~~~~~~m  169 (375)
                      ....+.+.|++++|++.|++.
T Consensus        19 ~G~~~~~~g~~~~A~~~~~~a   39 (126)
T 4gco_A           19 KGNEYFKKGDYPTAMRHYNEA   39 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH
Confidence            333333333333333333333

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.63  E-value=1.1e-06  Score=65.20  Aligned_cols=12  Identities=0%  Similarity=-0.011  Sum_probs=4.2

Q ss_pred             HcCChHHHHHHH
Q 017234          296 ELGRVDELEEQL  307 (375)
Q Consensus       296 ~~g~~~~a~~~~  307 (375)
                      ..|++++|.+.+
T Consensus        96 ~~~~~~~A~~~~  107 (133)
T 2lni_A           96 AMKDYTKAMDVY  107 (133)
T ss_dssp             HTTCHHHHHHHH
T ss_pred             HHhhHHHHHHHH
Confidence            333333333333

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.61  E-value=1e-06  Score=67.62  Aligned_cols=95  Identities=12%  Similarity=0.073  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHH
Q 017234          145 VFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGS  224 (375)
Q Consensus       145 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~  224 (375)
                      .+..+...+.+.|++++|+..|++..+..  +.+...|..+..+|...|++++|.+.|++..+..+. ++..|..+..+|
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~~  114 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD--FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHH
Confidence            33344444444444444444444444311  122333444444444444444444444444443322 333444444444


Q ss_pred             HccCChHHHHHHHHHHHH
Q 017234          225 LKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       225 ~~~g~~~~a~~~~~~m~~  242 (375)
                      ...|++++|...|++..+
T Consensus       115 ~~lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQ  132 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            444444444444444443

>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=98.61  E-value=5e-05  Score=66.19  Aligned_cols=231  Identities=10%  Similarity=0.010  Sum_probs=167.7

Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCC-ChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHH
Q 017234          112 ACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSG-DVVTALSLFEIMVSSEEYKPNSKTYDAFISGFS  190 (375)
Q Consensus       112 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~  190 (375)
                      +.+-....+.+..++|+++++.+...+ +-+..+|+.--.++...| .+++++++++.+...  .+-+..+|+.-...+.
T Consensus        58 ~~~r~~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~--nPKny~aW~hR~wlL~  134 (349)
T 3q7a_A           58 DYFRAIAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQ--NLKSYQVWHHRLLLLD  134 (349)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHT--TCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHH
Confidence            333333444556678999999999875 336778888888888888 599999999999972  3456677876666665


Q ss_pred             cC-C-CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 017234          191 SL-G-NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFD--------SVDRFYEEMMSLGIIPSIPILEKVLEGLC  260 (375)
Q Consensus       191 ~~-~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~--------~a~~~~~~m~~~~~~p~~~~~~~li~~~~  260 (375)
                      +. + ++++++++++.+.+...+ |..+|+--.-.+.+.|.++        ++++.++++.+.+ .-|...|+.....+.
T Consensus       135 ~l~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~  212 (349)
T 3q7a_A          135 RISPQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRV  212 (349)
T ss_dssp             HHCCSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHT
T ss_pred             HhcCCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            55 6 889999999999988755 8888887766666666666        8999999999876 467888888888888


Q ss_pred             hcCC-------HHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCh--------------------HHHHHHHHHHHhC
Q 017234          261 ARRK-------LDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRV--------------------DELEEQLETLTKC  313 (375)
Q Consensus       261 ~~g~-------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~~~~~  313 (375)
                      +.++       ++++.+.++++.... +-|...|+-+-..+.+.|..                    ........++...
T Consensus       213 ~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  291 (349)
T 3q7a_A          213 SRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSD  291 (349)
T ss_dssp             TSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-
T ss_pred             hccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhc
Confidence            8776       688888888888764 45788888777777776654                    2233333333222


Q ss_pred             C----C-CCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          314 N----Q-SPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       314 ~----~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      +    . .+....  ..-+++.|...|+.++|.++++.+.++
T Consensus       292 ~~~~~~~~~s~~a--l~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          292 PLPEDTPLPVPLA--LEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             CCCSSCCSCCHHH--HHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             ccccccCCCcHHH--HHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            1    1 122333  788999999999999999999998654

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.61  E-value=5.5e-07  Score=77.07  Aligned_cols=194  Identities=8%  Similarity=-0.040  Sum_probs=129.2

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      +...+..+...+.+.|++++|...|++..+.. +-+...|..+..++.+.|++++|...+++..+.  -+.+...+..+.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            45677888889999999999999999988763 337888999999999999999999999998862  234567788888


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLD  266 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  266 (375)
                      .++...|++++|...|++..+.... +...+...+....+   ...+. -+..........+......+ ..+ ..|+.+
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~~i~~~l-~~l-~~~~~~  152 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALR---IAKKK-RWNSIEERRIHQESELHSYL-TRL-IAAERE  152 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHH---HHHHH-HHHHHHHTCCCCCCHHHHHH-HHH-HHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHH---HHHHH-HHHHHHHHHHhhhHHHHHHH-HHH-HHHHHH
Confidence            9999999999999999988765321 11111111221111   11111 12223333334444443333 222 368888


Q ss_pred             HHHHHHHHHHhCCCCcCH-HHHHHHHHHHHHc-CChHHHHHHHHHHHh
Q 017234          267 RVKSFLKFLLGGGWKINE-NMAQKLVKCYCEL-GRVDELEEQLETLTK  312 (375)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~-g~~~~a~~~~~~~~~  312 (375)
                      +|.+.++...+.  .|+. .....+-..+.+. +.+++|.++|....+
T Consensus       153 ~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          153 RELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            998888887765  3443 3444444445554 668889999987765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.60  E-value=1e-06  Score=65.06  Aligned_cols=117  Identities=9%  Similarity=0.047  Sum_probs=56.9

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHH
Q 017234          143 SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIH  222 (375)
Q Consensus       143 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  222 (375)
                      ...+..+...+...|++++|...|++..+.  .+.+...+..+...+...|++++|.+.+++..+.... +...+..+..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~   88 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHHHHHHHHH
Confidence            334444555555555555555555555441  1223444455555555555555555555555544322 3445555555


Q ss_pred             HHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 017234          223 GSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARR  263 (375)
Q Consensus       223 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  263 (375)
                      .+...|++++|...|++..+.. +.+...+..+..++...|
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLR  128 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHh
Confidence            5555555555555555554432 123344444444444444

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.60  E-value=5.2e-07  Score=72.69  Aligned_cols=157  Identities=11%  Similarity=-0.054  Sum_probs=93.9

Q ss_pred             HcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC----CCC-cCHHhHHHHHHHHHccC
Q 017234          154 LCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAA----GFS-VNVQTYESLIHGSLKAR  228 (375)
Q Consensus       154 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~~~~~g  228 (375)
                      ...|++++|.++++.+..  .......++..+...+...|++++|...+++..+.    +.. ....++..+...+...|
T Consensus         3 ~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA--HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             ----CHHHHHHHHHHHHT--STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             cccccHHHHHHHHHHhcC--ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            345666777664444433  11123455666666677777777777777665541    111 13456667777777778


Q ss_pred             ChHHHHHHHHHHHHC----CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-cCHHHHHHHHHHHHHc
Q 017234          229 DFDSVDRFYEEMMSL----GIIP--SIPILEKVLEGLCARRKLDRVKSFLKFLLGG----GWK-INENMAQKLVKCYCEL  297 (375)
Q Consensus       229 ~~~~a~~~~~~m~~~----~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~  297 (375)
                      ++++|...+++..+.    +-.|  ....+..+...+...|++++|...+++..+.    +.. .-..++..+...+...
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  160 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQE  160 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHC
Confidence            888877777766542    1111  1345666777777888888888888776532    211 1123456777888888


Q ss_pred             CChHHHHHHHHHHHh
Q 017234          298 GRVDELEEQLETLTK  312 (375)
Q Consensus       298 g~~~~a~~~~~~~~~  312 (375)
                      |++++|...+++..+
T Consensus       161 g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          161 KNLLEAQQHWLRARD  175 (203)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            888888887776543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.59  E-value=2e-06  Score=63.83  Aligned_cols=91  Identities=10%  Similarity=0.035  Sum_probs=34.9

Q ss_pred             HHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCC
Q 017234          220 LIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGR  299 (375)
Q Consensus       220 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  299 (375)
                      ....|.+.|++++|.+.|++..+.. +.+...|..+..++.+.|++++|...+++.++.. +.+...|..+..+|...|+
T Consensus        19 ~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~   96 (126)
T 4gco_A           19 KGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVAMRE   96 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHCCC
Confidence            3333444444444444444333322 1223333333334444444444444444433322 1223333344444444444


Q ss_pred             hHHHHHHHHHHHh
Q 017234          300 VDELEEQLETLTK  312 (375)
Q Consensus       300 ~~~a~~~~~~~~~  312 (375)
                      +++|.+.|++..+
T Consensus        97 ~~~A~~~~~~al~  109 (126)
T 4gco_A           97 WSKAQRAYEDALQ  109 (126)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444444333

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.59  E-value=2e-06  Score=63.82  Aligned_cols=118  Identities=14%  Similarity=0.047  Sum_probs=74.5

Q ss_pred             ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 017234          178 NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLE  257 (375)
Q Consensus       178 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  257 (375)
                      +...+..+...+...|++++|.+.|++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            3455666666777777777777777776665432 56666777777777777777777777766653 334566666667


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcC
Q 017234          258 GLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELG  298 (375)
Q Consensus       258 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  298 (375)
                      .+...|++++|...+++..+.. +.+...+..+..++...|
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            7777777777777777766542 223344555555554443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.56  E-value=1.9e-06  Score=72.75  Aligned_cols=189  Identities=10%  Similarity=-0.112  Sum_probs=131.8

Q ss_pred             ccCChhHHHHHHHHHHHCCCCcCHhHHHHH-------HHHHHcCCChHHHHHHHHHHHhCCCCCCChh------------
Q 017234          120 KVQNVPFAMHVFTSMEAQGIKPDSAVFNSL-------ICACLCSGDVVTALSLFEIMVSSEEYKPNSK------------  180 (375)
Q Consensus       120 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l-------i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~------------  180 (375)
                      ..++...|.+.|.+..+.. +-....|+.+       ...+.+.++..+++..+..-.+   +.|+..            
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~---l~p~~l~a~~~~~g~y~~   93 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ---ISMSTLNARIAIGGLYGD   93 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT---CCGGGGCCEEECCTTTCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc---CChhhhhhhhccCCcccc
Confidence            5789999999999998874 2256678777       4555555556666655555443   333321            


Q ss_pred             ----------cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCC--
Q 017234          181 ----------TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPS--  248 (375)
Q Consensus       181 ----------~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~--  248 (375)
                                ..-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  
T Consensus        94 ~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~  170 (282)
T 4f3v_A           94 ITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLA  170 (282)
T ss_dssp             CEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHH
T ss_pred             cccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccH
Confidence                      12235566778899999999998887765  333366666678888999999999997554321 111  


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC
Q 017234          249 IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN--ENMAQKLVKCYCELGRVDELEEQLETLTKCNQ  315 (375)
Q Consensus       249 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  315 (375)
                      ...+..+-.++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...++
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P  239 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHP  239 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            23567777888899999999999998875443253  34566677788889999999999999888553

>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=98.56  E-value=1.6e-06  Score=68.30  Aligned_cols=118  Identities=11%  Similarity=0.015  Sum_probs=52.0

Q ss_pred             CCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCH--HHH
Q 017234          192 LGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEG-LCARRKL--DRV  268 (375)
Q Consensus       192 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~g~~--~~a  268 (375)
                      .|++++|...+++..+.... +...+..+...|...|++++|...|++..+.. +.+...+..+..+ +...|++  ++|
T Consensus        23 ~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             ----CCCCHHHHHHHHHCCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             ccCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            34444444444444443321 34444444444445555555555554444332 1233344444444 3444444  555


Q ss_pred             HHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          269 KSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       269 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      ...++++.+.. +.+...+..+...|...|++++|...+++..+
T Consensus       101 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          101 RAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            55555544432 22344444455555555555555555555544

>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=98.54  E-value=6.6e-07  Score=70.59  Aligned_cols=120  Identities=12%  Similarity=0.144  Sum_probs=62.1

Q ss_pred             ccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHH-HHcCCCH--H
Q 017234          120 KVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISG-FSSLGNV--D  196 (375)
Q Consensus       120 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~-~~~~~~~--~  196 (375)
                      ..|++++|...++...+.. +.+...|..+...+...|++++|...|++..+..  +.+...+..+..+ +...|++  +
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcchH
Confidence            3455555555555555442 2244555556666666666666666666555411  2233444445555 4455555  6


Q ss_pred             HHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC
Q 017234          197 AMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       197 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  243 (375)
                      +|...|++..+..+. +...+..+...+...|++++|...|++..+.
T Consensus        99 ~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            666666655554322 4455555555566666666666666655554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.54  E-value=3.9e-06  Score=64.31  Aligned_cols=95  Identities=8%  Similarity=0.075  Sum_probs=44.2

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYC  295 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  295 (375)
                      .+..+...+.+.|++++|...|++..... +.+...|..+..++...|++++|...|++..+.. +.++..|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHH
Confidence            34444444444555555555555444432 2234444444444445555555555555444432 223344444444555


Q ss_pred             HcCChHHHHHHHHHHHh
Q 017234          296 ELGRVDELEEQLETLTK  312 (375)
Q Consensus       296 ~~g~~~~a~~~~~~~~~  312 (375)
                      ..|++++|...|++..+
T Consensus       116 ~lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQ  132 (151)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555544444

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.54  E-value=7.1e-06  Score=74.49  Aligned_cols=167  Identities=8%  Similarity=-0.052  Sum_probs=79.0

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-cCH----HhHHHHHHHHHccCChHHHHHHHHHHHH----CCCCCC-HHH
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAGFS-VNV----QTYESLIHGSLKARDFDSVDRFYEEMMS----LGIIPS-IPI  251 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~----~~~~~ll~~~~~~g~~~~a~~~~~~m~~----~~~~p~-~~~  251 (375)
                      +..+...|...|++++|.+.+......-.. ++.    .+.+.+-..+...|+++.|..+++....    .+..+. ..+
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            444555555566666665555544331100 011    1122222233344556666655555432    122222 344


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC--CC---CcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC---CCCC-chHHH
Q 017234          252 LEKVLEGLCARRKLDRVKSFLKFLLGG--GW---KINENMAQKLVKCYCELGRVDELEEQLETLTKC---NQSP-EVLLH  322 (375)
Q Consensus       252 ~~~li~~~~~~g~~~~a~~~~~~~~~~--~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~-~~~~~  322 (375)
                      +..+...+...|++++|..+++++...  +.   .....++..+++.|...|++++|...+++....   ...| .....
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            555566666666666666666655331  11   111334555666666666666666666554321   1111 11122


Q ss_pred             HHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          323 FFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       323 ~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                      .+..+...+...|++++|...|.+..
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            24555555566666666666655554

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.54  E-value=2e-06  Score=75.63  Aligned_cols=142  Identities=13%  Similarity=0.016  Sum_probs=77.5

Q ss_pred             CChHHHHHHHHHHHhCCCCCC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcC--------------HHhHHHHH
Q 017234          157 GDVVTALSLFEIMVSSEEYKP-NSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVN--------------VQTYESLI  221 (375)
Q Consensus       157 g~~~~a~~~~~~m~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------~~~~~~ll  221 (375)
                      +++++|...|+...+.   .| +...+..+...+.+.|++++|...|++..+......              ...|..+.
T Consensus       127 ~~~~~A~~~~~~a~~~---~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla  203 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEE---KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLA  203 (336)
T ss_dssp             EEEECCCCGGGCCHHH---HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHH---HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHH
Confidence            4455565555544331   23 455677777788888888888888888776543321              34555555


Q ss_pred             HHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChH
Q 017234          222 HGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVD  301 (375)
Q Consensus       222 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  301 (375)
                      .+|.+.|++++|...|++..+.. +.+...+..+..+|...|++++|...|+++++.. +.+..++..+..++.+.|+.+
T Consensus       204 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~  281 (336)
T 1p5q_A          204 MCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQL  281 (336)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555555443 2234445555555555555555555555554432 223444444555555555555


Q ss_pred             HH
Q 017234          302 EL  303 (375)
Q Consensus       302 ~a  303 (375)
                      +|
T Consensus       282 ~a  283 (336)
T 1p5q_A          282 AR  283 (336)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.52  E-value=0.00032  Score=64.84  Aligned_cols=124  Identities=8%  Similarity=-0.001  Sum_probs=82.1

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA-RRKLDRVKSFLKFLLGGGWKINENMAQKLVKCY  294 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  294 (375)
                      .|...+....+.++.+.|..+|+.. ... ..+...|......-.. .++.+.|..+|+...+.- +-++..+...++..
T Consensus       288 lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e  364 (493)
T 2uy1_A          288 LRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFL  364 (493)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            3444455555667788888898888 321 2233444332222222 336888999998887752 23455566677777


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          295 CELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       295 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      .+.|+.+.|..+|+++.+     ....  |...+.-=...|+.+.+..+++++.+
T Consensus       365 ~~~~~~~~aR~l~er~~k-----~~~l--w~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          365 LRIGDEENARALFKRLEK-----TSRM--WDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHTCHHHHHHHHHHSCC-----BHHH--HHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH-----HHHH--HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            888999999999988721     2333  88888777788999999888887764

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.52  E-value=8.5e-07  Score=67.91  Aligned_cols=97  Identities=10%  Similarity=0.086  Sum_probs=47.2

Q ss_pred             HHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 017234          214 VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKC  293 (375)
Q Consensus       214 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  293 (375)
                      ...+..+...+...|++++|...|++..... +.+...|..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            3344444445555555555555555554432 2234444445555555555555555555554432 2233444445555


Q ss_pred             HHHcCChHHHHHHHHHHHh
Q 017234          294 YCELGRVDELEEQLETLTK  312 (375)
Q Consensus       294 ~~~~g~~~~a~~~~~~~~~  312 (375)
                      |...|++++|...|+...+
T Consensus        99 ~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555444

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.51  E-value=2.6e-06  Score=74.92  Aligned_cols=148  Identities=11%  Similarity=0.024  Sum_probs=104.7

Q ss_pred             CChhHHHHHHHHHHHCCCCc-CHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC----------------hhcHHH
Q 017234          122 QNVPFAMHVFTSMEAQGIKP-DSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN----------------SKTYDA  184 (375)
Q Consensus       122 ~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----------------~~~~~~  184 (375)
                      +++++|...++...+.  .| +...+..+...+.+.|++++|+..|++..+.   .|+                ..+|..
T Consensus       127 ~~~~~A~~~~~~a~~~--~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~~~~~~~~~~~~~~~~~~~n  201 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEE--KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSW---LEYESSFSNEEAQKAQALRLASHLN  201 (336)
T ss_dssp             EEEECCCCGGGCCHHH--HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---TTTCCCCCSHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHH--HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---hhccccCChHHHHHHHHHHHHHHHH
Confidence            3444455444433322  22 4567778888888888888888888888762   343                367778


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 017234          185 FISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRK  264 (375)
Q Consensus       185 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  264 (375)
                      +..+|.+.|++++|...+++..+.... +...|..+..+|...|++++|...|++..+.. +.+...+..+..++...|+
T Consensus       202 la~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~  279 (336)
T 1p5q_A          202 LAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRR  279 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHH
Confidence            888888888888888888888776543 67788888888888888888888888887764 3456677777777778887


Q ss_pred             HHHH-HHHHHHHH
Q 017234          265 LDRV-KSFLKFLL  276 (375)
Q Consensus       265 ~~~a-~~~~~~~~  276 (375)
                      .+++ ...++.|.
T Consensus       280 ~~~a~~~~~~~~~  292 (336)
T 1p5q_A          280 QLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777 44555554

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.49  E-value=1.4e-06  Score=66.74  Aligned_cols=95  Identities=12%  Similarity=-0.002  Sum_probs=45.3

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLC  260 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  260 (375)
                      .+..+...+.+.|++++|...|++.....+. +...|..+..+|...|++++|...|++....+ +.+...+..+..++.
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            3344444455555555555555554444322 44444455555555555555555555544432 122344444444555


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 017234          261 ARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~  277 (375)
                      ..|++++|...|+...+
T Consensus       101 ~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555554443

>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=98.45  E-value=1e-05  Score=58.33  Aligned_cols=21  Identities=19%  Similarity=0.101  Sum_probs=7.8

Q ss_pred             HHHHHHHcCChHHHHHHHHHH
Q 017234          290 LVKCYCELGRVDELEEQLETL  310 (375)
Q Consensus       290 li~~~~~~g~~~~a~~~~~~~  310 (375)
                      +..++...|++++|...+++.
T Consensus        78 ~a~~~~~~~~~~~A~~~~~~~   98 (118)
T 1elw_A           78 KAAALEFLNRFEEAKRTYEEG   98 (118)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHH
Confidence            333333333333333333333

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.45  E-value=4.2e-07  Score=73.29  Aligned_cols=98  Identities=15%  Similarity=0.050  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIR  329 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~  329 (375)
                      ..+..+..++...|++++|...++...+.. +.+...+..+..+|...|++++|...|++..+..  |+.... +..+..
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~-~~~l~~  164 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN--PNNLDI-RNSYEL  164 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHH-HHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHH-HHHHHH
Confidence            556666677777777777777777776653 3456677777777777777777777777776643  332221 566666


Q ss_pred             HHHhhCCHHHHH-HHHHHHHhCC
Q 017234          330 LYALSDRLDDVE-YSVGRMGKQG  351 (375)
Q Consensus       330 ~~~~~g~~~~A~-~~~~~m~~~~  351 (375)
                      ++...|+.+++. ..+..|...+
T Consensus       165 ~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          165 CVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             HHHHHHHHHC-------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhccc
Confidence            666666666665 5555555443

>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=98.44  E-value=4.1e-07  Score=73.32  Aligned_cols=127  Identities=10%  Similarity=0.024  Sum_probs=77.1

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCCc---------------CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCC
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAGFSV---------------NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGII  246 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~---------------~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  246 (375)
                      +..+...+...|++++|...|++..+.....               ....+..+..+|...|++++|...+++..+.. +
T Consensus        41 ~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p  119 (198)
T 2fbn_A           41 IKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-K  119 (198)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-c
Confidence            4444444555555555555555544432110               12567777777888888888888888777654 3


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHH-HHHHHH
Q 017234          247 PSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELE-EQLETL  310 (375)
Q Consensus       247 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~-~~~~~~  310 (375)
                      .+...+..+..++...|++++|...+++..+.. +.+..++..+..++...++.+++. ..+..+
T Consensus       120 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  183 (198)
T 2fbn_A          120 NNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGM  183 (198)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC---------
T ss_pred             ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456777777788888888888888888877653 335666777777777766666655 444444

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.43  E-value=5.3e-06  Score=69.99  Aligned_cols=189  Identities=7%  Similarity=-0.089  Sum_probs=133.4

Q ss_pred             cCCChHHHHHHHHHHHhCCCCCCChhcHHHH-------HHHHHcCCCHHHHHHHHHHHHHCCCCcC--------------
Q 017234          155 CSGDVVTALSLFEIMVSSEEYKPNSKTYDAF-------ISGFSSLGNVDAMNKWYAANIAAGFSVN--------------  213 (375)
Q Consensus       155 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~l-------l~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------  213 (375)
                      ..++.+.|.+.|.+..+..  +-....|..+       ...+.+.++..+++..+..-.  ++.|+              
T Consensus        18 ~~~d~~~A~~~F~~a~~~d--P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l--~l~p~~l~a~~~~~g~y~~   93 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD--ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSV--QISMSTLNARIAIGGLYGD   93 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTT--TCCGGGGCCEEECCTTTCC
T ss_pred             cCCCHHHHHHHHHHHHHhC--hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHh--cCChhhhhhhhccCCcccc
Confidence            6899999999999999832  2334566665       333333333444444333332  22221              


Q ss_pred             --------HHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC--
Q 017234          214 --------VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN--  283 (375)
Q Consensus       214 --------~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--  283 (375)
                              ....-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..++...... .|.  
T Consensus        94 ~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~  170 (282)
T 4f3v_A           94 ITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLA  170 (282)
T ss_dssp             CEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHH
T ss_pred             cccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccH
Confidence                    2234456778889999999999999988754  554455556668889999999999998654432 111  


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          284 ENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       284 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      ...+..+-.++...|++++|+..|++.......|............++.+.|+.++|..+|+++...
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3467788899999999999999999998543325433323566778899999999999999999986

>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=98.40  E-value=1.3e-05  Score=57.70  Aligned_cols=93  Identities=14%  Similarity=0.116  Sum_probs=37.2

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHH
Q 017234          146 FNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSL  225 (375)
Q Consensus       146 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  225 (375)
                      +..+...+...|++++|...|++..+.  .+.+...+..+...+...|++++|...+++..+.... +...+..+..++.
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~   83 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHH
Confidence            333444444444444444444444331  1122333333444444444444444444444333221 3333444444444


Q ss_pred             ccCChHHHHHHHHHHH
Q 017234          226 KARDFDSVDRFYEEMM  241 (375)
Q Consensus       226 ~~g~~~~a~~~~~~m~  241 (375)
                      ..|++++|.+.+++..
T Consensus        84 ~~~~~~~A~~~~~~~~   99 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGL   99 (118)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHH
Confidence            4444444444444443

>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=98.40  E-value=0.0005  Score=59.59  Aligned_cols=170  Identities=9%  Similarity=-0.038  Sum_probs=96.2

Q ss_pred             hcCCh-HHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCC----------hhHHHHHHHHHHHCCCCcCHhHHHHHH
Q 017234           82 QSSSP-KKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQN----------VPFAMHVFTSMEAQGIKPDSAVFNSLI  150 (375)
Q Consensus        82 ~~~~~-~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~g~~p~~~~~~~li  150 (375)
                      +.|.. ++|++.    .+.+...++.+..+|+.--..+...+.          +++++.+++.+.... +-+..+|+.-.
T Consensus        41 ~~~e~s~eaL~~----t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~  115 (331)
T 3dss_A           41 QAGELDESVLEL----TSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRC  115 (331)
T ss_dssp             HTTCCSHHHHHH----HHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HcCCCCHHHHHH----HHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            44444 366666    566666666666666554444433332          456666776666554 33666666666


Q ss_pred             HHHHcCC--ChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCC-HHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHcc
Q 017234          151 CACLCSG--DVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGN-VDAMNKWYAANIAAGFSVNVQTYESLIHGSLKA  227 (375)
Q Consensus       151 ~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  227 (375)
                      .++.+.|  .+++++.+++.+.+..  +-|..+|+.-.-.+...|. ++++++.++++.+..+. |..+|+.....+...
T Consensus       116 wlL~~l~~~~~~~EL~~~~k~l~~d--prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l  192 (331)
T 3dss_A          116 WLLSRLPEPNWARELELCARFLEAD--ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQL  192 (331)
T ss_dssp             HHHHHCSSCCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHH
T ss_pred             HHHhccCcccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHh
Confidence            6666666  3667777777776622  3455566655555555665 46777777777766554 666666655554443


Q ss_pred             --------------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 017234          228 --------------RDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLC  260 (375)
Q Consensus       228 --------------g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  260 (375)
                                    +.++++++.++...... +-|...|+.+-..+.
T Consensus       193 ~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~  238 (331)
T 3dss_A          193 HPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLG  238 (331)
T ss_dssp             SCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHH
T ss_pred             hhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence                          23555666665555543 334455554443333

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.40  E-value=6e-06  Score=58.99  Aligned_cols=13  Identities=15%  Similarity=0.386  Sum_probs=4.7

Q ss_pred             ccCChHHHHHHHH
Q 017234          226 KARDFDSVDRFYE  238 (375)
Q Consensus       226 ~~g~~~~a~~~~~  238 (375)
                      ..|++++|...|+
T Consensus        18 ~~~~~~~A~~~~~   30 (112)
T 2kck_A           18 DAGNYTESIDLFE   30 (112)
T ss_dssp             SSCCHHHHHHHHH
T ss_pred             HhhhHHHHHHHHH
Confidence            3333333333333

>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=98.37  E-value=1.3e-05  Score=59.03  Aligned_cols=17  Identities=12%  Similarity=-0.123  Sum_probs=6.1

Q ss_pred             HHHHHccCChHHHHHHH
Q 017234          221 IHGSLKARDFDSVDRFY  237 (375)
Q Consensus       221 l~~~~~~g~~~~a~~~~  237 (375)
                      ..++...|++++|...|
T Consensus        45 a~~~~~~~~~~~A~~~~   61 (126)
T 3upv_A           45 AAALAKLMSFPEAIADC   61 (126)
T ss_dssp             HHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHH
Confidence            33333333333333333

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.35  E-value=1.1e-05  Score=57.59  Aligned_cols=97  Identities=10%  Similarity=-0.037  Sum_probs=42.5

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-cCHHhHHHHHH
Q 017234          144 AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFS-VNVQTYESLIH  222 (375)
Q Consensus       144 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~  222 (375)
                      ..+..+...+.+.|++++|...|++..+.  .+.+...+..+...+...|++++|.+.|++..+.... .+...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            34444444444555555555555444431  1223334444444444444444444444444443211 02344444444


Q ss_pred             HHHcc-CChHHHHHHHHHHHH
Q 017234          223 GSLKA-RDFDSVDRFYEEMMS  242 (375)
Q Consensus       223 ~~~~~-g~~~~a~~~~~~m~~  242 (375)
                      ++... |++++|.+.+++...
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhh
Confidence            44444 444444444444443

>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=98.35  E-value=1.5e-05  Score=58.72  Aligned_cols=95  Identities=7%  Similarity=-0.054  Sum_probs=47.1

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYC  295 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  295 (375)
                      .+..+...+...|++++|...|++..+.. +.+...|..+..++.+.|++++|...+++..+.. +.+...+..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34444445555555555555555554432 2234445555555555555555555555554432 223444555555555


Q ss_pred             HcCChHHHHHHHHHHHh
Q 017234          296 ELGRVDELEEQLETLTK  312 (375)
Q Consensus       296 ~~g~~~~a~~~~~~~~~  312 (375)
                      ..|++++|...|++..+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            55555555555555444

>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=98.34  E-value=0.00029  Score=61.05  Aligned_cols=221  Identities=9%  Similarity=-0.075  Sum_probs=160.0

Q ss_pred             hccCChh-HHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCC----------hHHHHHHHHHHHhCCCCCCChhcHHHHHH
Q 017234          119 GKVQNVP-FAMHVFTSMEAQGIKPDSAVFNSLICACLCSGD----------VVTALSLFEIMVSSEEYKPNSKTYDAFIS  187 (375)
Q Consensus       119 ~~~~~~~-~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~~~~~~~~~~~~~ll~  187 (375)
                      .+.|.++ +|+++++.+...+ +-+..+|+.--..+...|.          +++++.+++.+...  -+-+..+|+.-..
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~--~PKny~aW~hR~w  116 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCW  116 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            4566665 7999999999874 2245566654444433333          67899999998873  2556778887666


Q ss_pred             HHHcCC--CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCC-hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--
Q 017234          188 GFSSLG--NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARD-FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCAR--  262 (375)
Q Consensus       188 ~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~-~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~--  262 (375)
                      .+.+.+  .+++++++++.+.+..+. |..+|+--.-.+...|. ++++++.++++.+.+ +-|...|+.....+.+.  
T Consensus       117 lL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~  194 (331)
T 3dss_A          117 LLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHP  194 (331)
T ss_dssp             HHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSC
T ss_pred             HHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhh
Confidence            677777  489999999999998765 88899888888888888 589999999999876 46777887777666655  


Q ss_pred             ------------CCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHc-----------CChHHHHHHHHHHHhCCCCCch
Q 017234          263 ------------RKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCEL-----------GRVDELEEQLETLTKCNQSPEV  319 (375)
Q Consensus       263 ------------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~  319 (375)
                                  +.++++.+.+....... +-|...|+-+-..+.+.           +.++++.+.++++.+..  |+.
T Consensus       195 ~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~--pd~  271 (331)
T 3dss_A          195 QPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE--PEN  271 (331)
T ss_dssp             CC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC--TTC
T ss_pred             ccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC--ccc
Confidence                        45788889998888764 45777777555555544           45788999999998844  554


Q ss_pred             HHHHHHHHHH-----HHHhhCCHHHHHHHHHHHHhC
Q 017234          320 LLHFFSGIIR-----LYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       320 ~~~~~~~li~-----~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .   |..+-.     +....|..+++...+.++++-
T Consensus       272 ~---w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          272 K---WCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             H---HHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             c---hHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            3   432222     222467788999999999864

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.33  E-value=2.3e-05  Score=59.20  Aligned_cols=96  Identities=11%  Similarity=-0.007  Sum_probs=42.4

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC----hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHH
Q 017234          143 SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN----SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYE  218 (375)
Q Consensus       143 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  218 (375)
                      ...+..+...+.+.|++++|.+.|++..+   ..|+    ...+..+...|...|++++|...+++..+.... +...+.
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~  103 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALY  103 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHH
Confidence            33444444444444444444444444443   1233    233444444444444444444444444443221 334444


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHH
Q 017234          219 SLIHGSLKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       219 ~ll~~~~~~g~~~~a~~~~~~m~~  242 (375)
                      .+..++...|++++|...|++..+
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444444444444444444444443

>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=98.32  E-value=1.2e-05  Score=59.67  Aligned_cols=56  Identities=14%  Similarity=0.183  Sum_probs=23.3

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 017234          184 AFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       184 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      .+...+.+.|++++|++.|++..+..+. +...|..+..+|...|++++|++.+++.
T Consensus        13 ~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~a   68 (127)
T 4gcn_A           13 DLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKA   68 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHH
Confidence            3344444444444444444444433221 3334444444444444444444444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.31  E-value=3.3e-05  Score=70.07  Aligned_cols=131  Identities=6%  Similarity=-0.186  Sum_probs=54.6

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHCC-CCcCH----hHHHHHHHHHHcCCChHHHHHHHHHHHhC---CCCCCC-hhc
Q 017234          111 YACLIALSGKVQNVPFAMHVFTSMEAQG-IKPDS----AVFNSLICACLCSGDVVTALSLFEIMVSS---EEYKPN-SKT  181 (375)
Q Consensus       111 ~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~-~~~  181 (375)
                      +..+...|.+.|++++|.+.+....+.- ..++.    .+.+.+-..+...|+.+.|.++++.....   .+..+. ..+
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            4445555555555555555555443210 00111    11122222222334555555555544321   111111 223


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHC--CCC--c-CHHhHHHHHHHHHccCChHHHHHHHHHHH
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAA--GFS--V-NVQTYESLIHGSLKARDFDSVDRFYEEMM  241 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~--~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  241 (375)
                      +..+...|...|++++|..++++....  +..  + ...++..++..|...|++++|..++++..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al  202 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAAR  202 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence            444455555555555555555544322  110  0 12344445555555555555555554443

>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=98.30  E-value=7.2e-06  Score=60.40  Aligned_cols=19  Identities=21%  Similarity=0.153  Sum_probs=7.1

Q ss_pred             HHHHcCCChHHHHHHHHHH
Q 017234          151 CACLCSGDVVTALSLFEIM  169 (375)
Q Consensus       151 ~~~~~~g~~~~a~~~~~~m  169 (375)
                      ..+...|++++|...|++.
T Consensus        12 ~~~~~~~~~~~A~~~~~~a   30 (131)
T 1elr_A           12 NDAYKKKDFDTALKHYDKA   30 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHH
Confidence            3333333333333333333

>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=98.30  E-value=1.9e-05  Score=58.93  Aligned_cols=59  Identities=12%  Similarity=-0.013  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 017234          251 ILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETL  310 (375)
Q Consensus       251 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  310 (375)
                      .+..+..++...|++++|...++...+.. +.+...+..+..+|...|++++|...|++.
T Consensus        45 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  103 (137)
T 3q49_B           45 YYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEMESYDEAIANLQRA  103 (137)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            33333333334444444444444333322 122333334444444444444444444433

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.29  E-value=7.4e-06  Score=61.99  Aligned_cols=86  Identities=13%  Similarity=-0.019  Sum_probs=32.7

Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 017234          188 GFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDR  267 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  267 (375)
                      .+.+.|++++|...|++.....+. +...|..+..++...|++++|...|++....+ +.+...+..+..++...|++++
T Consensus        27 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~  104 (142)
T 2xcb_A           27 NQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLGDLDG  104 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHH
Confidence            333344444444444443333221 33333333344444444444444444433332 1122333333333444444444


Q ss_pred             HHHHHHHH
Q 017234          268 VKSFLKFL  275 (375)
Q Consensus       268 a~~~~~~~  275 (375)
                      |...++..
T Consensus       105 A~~~~~~a  112 (142)
T 2xcb_A          105 AESGFYSA  112 (142)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444433

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.29  E-value=9.3e-06  Score=62.17  Aligned_cols=134  Identities=7%  Similarity=-0.069  Sum_probs=77.0

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCc-CHH
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGI-IPS----IPILEKVLEGLCARRKLDRVKSFLKFLLGG----GWKI-NEN  285 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~-~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~  285 (375)
                      ++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...+++..+.    +-.+ ...
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            445555555555666666655555443210 011    134555666666666666666666665432    1111 134


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCC---CCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          286 MAQKLVKCYCELGRVDELEEQLETLTKCN---QSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       286 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      ++..+...+...|++++|...+++..+..   ..+......+..+...+...|++++|.+.+++..+
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            56666777777777777777777654321   11222223367778888888888888888877664

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.29  E-value=1.8e-05  Score=61.43  Aligned_cols=95  Identities=4%  Similarity=-0.126  Sum_probs=43.9

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLC  260 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  260 (375)
                      .+..+...+.+.|++++|.+.|++..+.... +...|..+..+|...|++++|...|++..+.. +.+...|..+..++.
T Consensus        13 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   90 (164)
T 3sz7_A           13 KLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLARF   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3444444444444444444444444443322 34444444444555555555555554444432 223444444444455


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 017234          261 ARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~  277 (375)
                      ..|++++|...|++.++
T Consensus        91 ~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           91 DMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHH
Confidence            55555555555554443

>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=98.27  E-value=1.2e-05  Score=59.19  Aligned_cols=95  Identities=9%  Similarity=0.170  Sum_probs=40.2

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CcC----HHHHHHH
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGW--KIN----ENMAQKL  290 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~----~~~~~~l  290 (375)
                      +..+...+...|++++|...|++..... +.+...+..+...+...|++++|...++...+..-  .++    ..++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3334444444444444444444444332 22333444444444444444444444444433210  011    3344444


Q ss_pred             HHHHHHcCChHHHHHHHHHHHh
Q 017234          291 VKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       291 i~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      ..++...|++++|...|++..+
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHH
Confidence            4444455555555555544444

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.27  E-value=2.6e-05  Score=60.49  Aligned_cols=100  Identities=8%  Similarity=0.064  Sum_probs=86.8

Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 017234          213 NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVK  292 (375)
Q Consensus       213 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  292 (375)
                      +...+..+...+...|++++|...|++..+.. +.+...|..+..+|...|++++|...+++.++.. +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            56678888899999999999999999998865 3467888999999999999999999999998864 446788999999


Q ss_pred             HHHHcCChHHHHHHHHHHHhCC
Q 017234          293 CYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       293 ~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      +|...|++++|...|++..+..
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC
Confidence            9999999999999999988754

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.27  E-value=1.5e-05  Score=60.24  Aligned_cols=95  Identities=9%  Similarity=0.064  Sum_probs=50.1

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYC  295 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  295 (375)
                      .+..+...+...|++++|...|++....+ +.+...|..+..++...|++++|...++...+.. +.+...+..+..+|.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            34444455555555555555555555443 2344455555555555555555555555555432 233444555555555


Q ss_pred             HcCChHHHHHHHHHHHh
Q 017234          296 ELGRVDELEEQLETLTK  312 (375)
Q Consensus       296 ~~g~~~~a~~~~~~~~~  312 (375)
                      ..|++++|...|+...+
T Consensus        98 ~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555544

>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=98.27  E-value=2.7e-05  Score=58.10  Aligned_cols=96  Identities=9%  Similarity=-0.080  Sum_probs=46.4

Q ss_pred             hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 017234          179 SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEG  258 (375)
Q Consensus       179 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  258 (375)
                      ...+..+...+...|++++|...|++..+.... +...|..+..++...|++++|...+++..+.+ +.+...+..+..+
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   86 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHH
Confidence            344444445555555555555555554444322 34445555555555555555555555544432 2234444445555


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 017234          259 LCARRKLDRVKSFLKFLL  276 (375)
Q Consensus       259 ~~~~g~~~~a~~~~~~~~  276 (375)
                      +...|++++|...+++..
T Consensus        87 ~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            555555555555555443

>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=98.25  E-value=2.3e-05  Score=58.06  Aligned_cols=96  Identities=10%  Similarity=0.106  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC--cC----HHhHH
Q 017234          145 VFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFS--VN----VQTYE  218 (375)
Q Consensus       145 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~--~~----~~~~~  218 (375)
                      .+..+...+.+.|++++|++.|++..+..  +.+...|..+..+|.+.|++++|++.+++..+....  ++    ..+|.
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~--p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD--PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            45555666666666666666666665521  233455556666666666666666666665543211  00    12444


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHH
Q 017234          219 SLIHGSLKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       219 ~ll~~~~~~g~~~~a~~~~~~m~~  242 (375)
                      .+..++...|++++|.+.|++...
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh
Confidence            555555556666666666655544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.25  E-value=4.8e-05  Score=57.34  Aligned_cols=112  Identities=13%  Similarity=-0.026  Sum_probs=84.1

Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcC----HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhc
Q 017234          106 SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPD----SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKT  181 (375)
Q Consensus       106 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  181 (375)
                      .+...+..+...+.+.|++++|...|++..+.  .|+    ...|..+..++...|++++|...+++..+.  .+.+...
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~  101 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK--DGGDVKA  101 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TSCCHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CccCHHH
Confidence            35777788888888888888888888888776  355    577888888888888999998888888762  1335667


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHH
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIH  222 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  222 (375)
                      +..+..++...|++++|...|++..+.... +...+..+..
T Consensus       102 ~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~  141 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVLDLQRCVSLEPK-NKVFQEALRN  141 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCSS-CHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHH
Confidence            778888888888999999888888776432 4444444433

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.24  E-value=5.3e-05  Score=55.76  Aligned_cols=93  Identities=11%  Similarity=-0.034  Sum_probs=41.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCcCH---HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHh
Q 017234          257 EGLCARRKLDRVKSFLKFLLGGGWKINE---NMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYAL  333 (375)
Q Consensus       257 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~  333 (375)
                      ..+...|++++|...++.+.+.. +.+.   ..+..+..++...|++++|...+++..+...........+..+..++..
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~   88 (129)
T 2xev_A           10 FDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYG   88 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHH
Confidence            34444555555555555544421 1111   2444444555555555555555555544332211111113444455555


Q ss_pred             hCCHHHHHHHHHHHHhC
Q 017234          334 SDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       334 ~g~~~~A~~~~~~m~~~  350 (375)
                      .|++++|...|+++.+.
T Consensus        89 ~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           89 EGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            55555555555555543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.16  E-value=1.6e-05  Score=60.89  Aligned_cols=96  Identities=10%  Similarity=0.057  Sum_probs=43.8

Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHCCCC-cC----HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC----hh
Q 017234          110 EYACLIALSGKVQNVPFAMHVFTSMEAQGIK-PD----SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN----SK  180 (375)
Q Consensus       110 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~  180 (375)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|.+.+++..+...-.++    ..
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            4455555555666666666666554432100 01    124555555555555555555555554431000000    22


Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAAN  205 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m  205 (375)
                      ++..+...+...|++++|.+.+++.
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a  115 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKH  115 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3334444444555555555544443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.14  E-value=2.8e-05  Score=57.01  Aligned_cols=24  Identities=8%  Similarity=-0.140  Sum_probs=8.9

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHH
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      |..+..++...|++++|...|++.
T Consensus        54 ~~~lg~~~~~~g~~~~A~~~~~~a   77 (121)
T 1hxi_A           54 WRSLGLTQAENEKDGLAIIALNHA   77 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            333333333333333333333333

>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=98.13  E-value=3.8e-05  Score=70.45  Aligned_cols=88  Identities=10%  Similarity=0.034  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIR  329 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~  329 (375)
                      ..|..+..+|.+.|++++|...++++++.. +.+...|..+..+|...|++++|...|++..+..  |+.... +..+..
T Consensus       318 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~--P~~~~a-~~~l~~  393 (457)
T 1kt0_A          318 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN--PQNKAA-RLQISM  393 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC------CH-HHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHH-HHHHHH
Confidence            344445555555555555555555554432 2234445555555555555555555555554422  222111 444455


Q ss_pred             HHHhhCCHHHHH
Q 017234          330 LYALSDRLDDVE  341 (375)
Q Consensus       330 ~~~~~g~~~~A~  341 (375)
                      ++.+.|+.+++.
T Consensus       394 ~~~~~~~~~~a~  405 (457)
T 1kt0_A          394 CQKKAKEHNERD  405 (457)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555554443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.12  E-value=1e-05  Score=58.94  Aligned_cols=85  Identities=12%  Similarity=-0.060  Sum_probs=38.3

Q ss_pred             cCCHHHHHHHHHHHHhCC--CCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHH
Q 017234          262 RRKLDRVKSFLKFLLGGG--WKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDD  339 (375)
Q Consensus       262 ~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  339 (375)
                      .|++++|...+++.++.+  -+.+...+..+..+|...|++++|...|++..+..  |+.... +..+..++.+.|++++
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~-~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF--PNHQAL-RVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHHTCHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHH-HHHHHHHHHHcCCHHH
Confidence            344555555555554432  11223344455555555555555555555555432  221111 4445555555555555


Q ss_pred             HHHHHHHHHh
Q 017234          340 VEYSVGRMGK  349 (375)
Q Consensus       340 A~~~~~~m~~  349 (375)
                      |...|++..+
T Consensus        80 A~~~~~~al~   89 (117)
T 3k9i_A           80 GVELLLKIIA   89 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.12  E-value=2.9e-05  Score=56.91  Aligned_cols=94  Identities=6%  Similarity=-0.077  Sum_probs=48.5

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHH
Q 017234          146 FNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSL  225 (375)
Q Consensus       146 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  225 (375)
                      +..+...+.+.|++++|...|++..+..  +.+...|..+..++...|++++|...|++..+..+. +...+..+..++.
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~   96 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHT   96 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            3344445555555555555555555411  223444555555555555555555555555554332 4445555555555


Q ss_pred             ccCChHHHHHHHHHHHH
Q 017234          226 KARDFDSVDRFYEEMMS  242 (375)
Q Consensus       226 ~~g~~~~a~~~~~~m~~  242 (375)
                      ..|++++|...|++..+
T Consensus        97 ~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           97 NEHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.11  E-value=9.2e-05  Score=54.40  Aligned_cols=88  Identities=10%  Similarity=0.053  Sum_probs=38.7

Q ss_pred             HHHHcCCChHHHHHHHHHHHhCCCCCCCh----hcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcC---HHhHHHHHHH
Q 017234          151 CACLCSGDVVTALSLFEIMVSSEEYKPNS----KTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVN---VQTYESLIHG  223 (375)
Q Consensus       151 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~  223 (375)
                      ..+.+.|++++|...|+...+.   .|+.    ..+..+..++.+.|++++|...|++..+..+. +   ..++..+..+
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~   85 (129)
T 2xev_A           10 FDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHH
Confidence            3444445555555555444431   1221    23334444444455555555555444443221 1   3334444444


Q ss_pred             HHccCChHHHHHHHHHHHH
Q 017234          224 SLKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~  242 (375)
                      +...|++++|...|++..+
T Consensus        86 ~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            4445555555555544444

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.08  E-value=0.0031  Score=58.22  Aligned_cols=291  Identities=10%  Similarity=-0.000  Sum_probs=151.4

Q ss_pred             cchHHHHHHhhcCCcchHHHHHHHhhhccCCCCcccHHHHHHH-HhcC-ChHHHHHHHHHHHHHhhcCCCCCHHHHHHHH
Q 017234           38 SSSNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITS-LQSS-SPKKAQLVLEWRLDKMLKGNESCLDEYACLI  115 (375)
Q Consensus        38 ~~~~~ll~~l~~~~~~~~~~~~~~m~~~~~~p~~~~~~~li~~-~~~~-~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li  115 (375)
                      .+|...+..+......++..+|+....  ..|++..|...+.- .+.+ ..+....+|+.++..+ .....+...|...+
T Consensus        16 ~vyer~l~~~P~~~~e~~~~iferal~--~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~v-g~d~~s~~iW~~Yi   92 (493)
T 2uy1_A           16 AIMEHARRLYMSKDYRSLESLFGRCLK--KSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQF-ENYWDSYGLYKEYI   92 (493)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHST--TCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHS-TTCTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHc-CCCcccHHHHHHHH
Confidence            467777777766444477888888865  35799999999988 5555 3455666765444433 12345778888888


Q ss_pred             HHHh----ccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHc-------------CCC--------------------
Q 017234          116 ALSG----KVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLC-------------SGD--------------------  158 (375)
Q Consensus       116 ~~~~----~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-------------~g~--------------------  158 (375)
                      ..+.    ..++++.+.++|++.......--...|......-..             .+.                    
T Consensus        93 ~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~  172 (493)
T 2uy1_A           93 EEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSV  172 (493)
T ss_dssp             HHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSH
T ss_pred             HHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccH
Confidence            7764    346788899999999974211111122211110000             001                    


Q ss_pred             ----------------------hHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHh
Q 017234          159 ----------------------VVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQT  216 (375)
Q Consensus       159 ----------------------~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~  216 (375)
                                            .+.+..+|+++..  ..+.+...|-..+.-+.+.|+.+.|.+++++....  +.+...
T Consensus       173 ~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~--~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l  248 (493)
T 2uy1_A          173 KNAARLIDLEMENGMKLGGRPHESRMHFIHNYILD--SFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFL  248 (493)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHH--HTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHH
T ss_pred             HHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHH
Confidence                                  1223344444443  12333444555555555566666666666665555  122222


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHCC---------CCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSLG---------IIP---SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINE  284 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~---------~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  284 (375)
                      +..    |....+.++.   ++.+...-         ..+   ....|...+....+.++.+.|..+|+.+ +.. ..+.
T Consensus       249 ~~~----y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~  319 (493)
T 2uy1_A          249 SLY----YGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGP  319 (493)
T ss_dssp             HHH----HHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCH
T ss_pred             HHH----HHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCCh
Confidence            211    1111111111   11211100         001   0123444444455566788888888877 321 1233


Q ss_pred             HHHHHHHHHHHH-cCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHH
Q 017234          285 NMAQKLVKCYCE-LGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRM  347 (375)
Q Consensus       285 ~~~~~li~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  347 (375)
                      .+|......-.. .++.+.|..+|+...+..  |+.... +...++...+.|+.+.|..+|+++
T Consensus       320 ~v~i~~A~lE~~~~~d~~~ar~ife~al~~~--~~~~~~-~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          320 HVFIYCAFIEYYATGSRATPYNIFSSGLLKH--PDSTLL-KEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--CCCHHH-HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444332222222 235888888888776643  222211 555666677778888888887775

>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=98.08  E-value=1.3e-05  Score=73.93  Aligned_cols=117  Identities=12%  Similarity=0.036  Sum_probs=52.6

Q ss_pred             HHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 017234          189 FSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRV  268 (375)
Q Consensus       189 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  268 (375)
                      +.+.|++++|.+.|++..+.... +..+|..+..+|.+.|++++|.+.+++..+.. +.+...+..+..+|...|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            33445555555555554444322 34455555555555555555555555555442 22344455555555555555555


Q ss_pred             HHHHHHHHhCCCCcCHHHHHHHHHH--HHHcCChHHHHHHHH
Q 017234          269 KSFLKFLLGGGWKINENMAQKLVKC--YCELGRVDELEEQLE  308 (375)
Q Consensus       269 ~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~~~~  308 (375)
                      ...+++..+.. +.+...+..+..+  +.+.|++++|.+.++
T Consensus        94 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            55555554432 1122223333333  445555555555554

>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=98.08  E-value=1.7e-05  Score=73.16  Aligned_cols=123  Identities=10%  Similarity=0.014  Sum_probs=96.5

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHc
Q 017234          218 ESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCEL  297 (375)
Q Consensus       218 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  297 (375)
                      ..+...+.+.|++++|.+.|++..+.. +.+...+..+..++.+.|++++|...+++..+.. +.+...+..+..+|...
T Consensus        10 ~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~   87 (477)
T 1wao_1           10 KTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMAL   87 (477)
T ss_dssp             SSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            334455678899999999999998864 3458899999999999999999999999999874 45678899999999999


Q ss_pred             CChHHHHHHHHHHHhCCCCCchHHHHHHHHHHH--HHhhCCHHHHHHHHH
Q 017234          298 GRVDELEEQLETLTKCNQSPEVLLHFFSGIIRL--YALSDRLDDVEYSVG  345 (375)
Q Consensus       298 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~~~  345 (375)
                      |++++|.+.+++..+....... .  +..+..+  +.+.|++++|++.++
T Consensus        88 g~~~eA~~~~~~al~~~p~~~~-~--~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           88 GKFRAALRDYETVVKVKPHDKD-A--KMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCTT-H--HHHHHHHHHHHHHHHHCCC-----
T ss_pred             CCHHHHHHHHHHHHHhCCCCHH-H--HHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999885433222 2  4455555  888899999999998

>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=98.07  E-value=5.6e-05  Score=69.33  Aligned_cols=90  Identities=13%  Similarity=0.134  Sum_probs=64.1

Q ss_pred             HHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 017234          214 VQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKC  293 (375)
Q Consensus       214 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  293 (375)
                      ...|..+..+|.+.|++++|+..+++..+.. +.+...|..+..+|...|++++|...|+++++.. +-+...+..+..+
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~  394 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMC  394 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4667777778888888888888888877764 3456777777888888888888888888887653 2345567777777


Q ss_pred             HHHcCChHHHHH
Q 017234          294 YCELGRVDELEE  305 (375)
Q Consensus       294 ~~~~g~~~~a~~  305 (375)
                      +.+.++.+++.+
T Consensus       395 ~~~~~~~~~a~~  406 (457)
T 1kt0_A          395 QKKAKEHNERDR  406 (457)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777777776653

>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=98.03  E-value=6.5e-05  Score=66.80  Aligned_cols=88  Identities=10%  Similarity=-0.018  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIR  329 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~  329 (375)
                      ..|..+..+|.+.|++++|...+++.++.. +.+...+..+..+|...|++++|...|++..+..  |+.... +..+..
T Consensus       274 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~--P~~~~~-~~~l~~  349 (370)
T 1ihg_A          274 SCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA--PEDKAI-QAELLK  349 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH-HHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHH-HHHHHH
Confidence            344455555555555555555555555432 2234455555555555555555555555555432  222111 444444


Q ss_pred             HHHhhCCHHHHH
Q 017234          330 LYALSDRLDDVE  341 (375)
Q Consensus       330 ~~~~~g~~~~A~  341 (375)
                      .+...++.+++.
T Consensus       350 ~~~~~~~~~~a~  361 (370)
T 1ihg_A          350 VKQKIKAQKDKE  361 (370)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            455555554443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.03  E-value=6.4e-05  Score=69.18  Aligned_cols=128  Identities=8%  Similarity=0.020  Sum_probs=97.7

Q ss_pred             HHHccCChHHHHHHHHHHHHC-----C-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCcC-HHHHH
Q 017234          223 GSLKARDFDSVDRFYEEMMSL-----G-IIPS-IPILEKVLEGLCARRKLDRVKSFLKFLLGG-----G-WKIN-ENMAQ  288 (375)
Q Consensus       223 ~~~~~g~~~~a~~~~~~m~~~-----~-~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~-~~~~-~~~~~  288 (375)
                      .+...|++++|+.++++..+.     | -.|+ ..+++.|..+|...|++++|..++++.++.     | -.|+ ..+++
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            456789999999999887652     1 1122 467999999999999999999999987542     2 1233 35688


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHh-----CCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          289 KLVKCYCELGRVDELEEQLETLTK-----CNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       289 ~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .|...|...|++++|+.++++..+     .|..-.......+.+-.++...|.+++|..+|.++++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999988643     34332223334678888888999999999999999874

>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=98.01  E-value=8e-05  Score=66.21  Aligned_cols=123  Identities=14%  Similarity=0.093  Sum_probs=87.0

Q ss_pred             hcHHHHHHHHHcCCCHHHHHHHHHHHHH----------------CCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC
Q 017234          180 KTYDAFISGFSSLGNVDAMNKWYAANIA----------------AGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       180 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~----------------~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  243 (375)
                      ..+..+...+.+.|++++|.+.|++..+                .. +.+..+|..+..+|.+.|++++|...+++..+.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~-~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  302 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQ-PVALSCVLNIGACKLKMSDWQGAVDSCLEALEI  302 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHH-HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            3466677777888888888888887765                21 124567777778888888888888888888775


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHH
Q 017234          244 GIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEE  305 (375)
Q Consensus       244 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  305 (375)
                      . +.+...+..+..+|...|++++|...+++..+.. +.+...+..+..++...++.+++.+
T Consensus       303 ~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          303 D-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            4 3356777777788888888888888888877653 2356666666677766666665543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.98  E-value=1.8e-05  Score=57.60  Aligned_cols=86  Identities=10%  Similarity=0.015  Sum_probs=45.1

Q ss_pred             cCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHH
Q 017234          227 ARDFDSVDRFYEEMMSLGI--IPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELE  304 (375)
Q Consensus       227 ~g~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  304 (375)
                      .|++++|...|++..+.+.  +.+...+..+..++...|++++|...+++..+.. +-+..++..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            3555556666665555421  1123445555555666666666666666665543 234555555666666666666666


Q ss_pred             HHHHHHHhC
Q 017234          305 EQLETLTKC  313 (375)
Q Consensus       305 ~~~~~~~~~  313 (375)
                      ..+++..+.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666665543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.95  E-value=3.3e-05  Score=67.84  Aligned_cols=149  Identities=11%  Similarity=0.022  Sum_probs=81.2

Q ss_pred             hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 017234          179 SKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEG  258 (375)
Q Consensus       179 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  258 (375)
                      ...+..+...+.+.|++++|...|++.....  |+...       +...|+.+++...+.          ...|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            4456677777788888888888888877643  33221       223334444332221          1367788888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHH-HHhhCCH
Q 017234          259 LCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRL-YALSDRL  337 (375)
Q Consensus       259 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~  337 (375)
                      +.+.|++++|...+++.++.. +.+...+..+..+|...|++++|...|++..+..  |+.... +..+... ....+..
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~--p~~~~a-~~~L~~l~~~~~~~~  315 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA--PDDKAI-RRELRALAEQEKALY  315 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHH-HHHHHHHHHHHHHHH
Confidence            889999999999999888754 3467888888999999999999999998887643  433321 4444444 3345667


Q ss_pred             HHHHHHHHHHHhC
Q 017234          338 DDVEYSVGRMGKQ  350 (375)
Q Consensus       338 ~~A~~~~~~m~~~  350 (375)
                      +.+..+|++|...
T Consensus       316 ~~a~~~~~~~l~~  328 (338)
T 2if4_A          316 QKQKEMYKGIFKG  328 (338)
T ss_dssp             -------------
T ss_pred             HHHHHHHHHhhCC
Confidence            7888888888754

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.94  E-value=0.00015  Score=55.96  Aligned_cols=62  Identities=19%  Similarity=0.197  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      ..|..+..+|.+.|++++|...++..++.. +.+...|..+..+|...|++++|...|++..+
T Consensus        64 ~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           64 PLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            445555566666666666666666665543 33455566666666666666666666666655

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.92  E-value=9.7e-05  Score=57.00  Aligned_cols=65  Identities=22%  Similarity=0.235  Sum_probs=47.1

Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 017234          213 NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG  278 (375)
Q Consensus       213 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  278 (375)
                      +...|..+..+|.+.|++++|...+++..+.+ +.+...|..+..++...|++++|...++..++.
T Consensus        62 ~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           62 NIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            34567777777777778888777777777654 345667777777777888888888877777664

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.87  E-value=8.5e-05  Score=68.34  Aligned_cols=126  Identities=6%  Similarity=-0.058  Sum_probs=96.8

Q ss_pred             HHHcCCCHHHHHHHHHHHHHC-----CC-Cc-CHHhHHHHHHHHHccCChHHHHHHHHHHHHC-----CC-CCC-HHHHH
Q 017234          188 GFSSLGNVDAMNKWYAANIAA-----GF-SV-NVQTYESLIHGSLKARDFDSVDRFYEEMMSL-----GI-IPS-IPILE  253 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~-----~~-~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-----~~-~p~-~~~~~  253 (375)
                      .+...|++++|+.++++..+.     |. .| ...+++.|..+|...|++++|..++++..+.     |. .|+ ..+++
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            356889999999999887643     21 11 3578999999999999999999999887642     21 233 46799


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh-----CCC-CcC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          254 KVLEGLCARRKLDRVKSFLKFLLG-----GGW-KIN-ENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       254 ~li~~~~~~g~~~~a~~~~~~~~~-----~~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      .|...|...|++++|..++++.++     .|- .|+ ..+.+.+-.++...+.+++|+.++.++++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999998754     231 232 334666778888999999999999998763

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.87  E-value=6.7e-05  Score=65.85  Aligned_cols=148  Identities=10%  Similarity=-0.057  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHH
Q 017234          108 LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFIS  187 (375)
Q Consensus       108 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~  187 (375)
                      ...+..+...+.+.|++++|...|++..+.  .|+...       +...|+.+++...+   .        ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~--------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K--------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H--------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H--------HHHHHHHHH
Confidence            344666677777777777777777776654  233221       11222222222111   1        125566666


Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCHH
Q 017234          188 GFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEG-LCARRKLD  266 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~g~~~  266 (375)
                      +|.+.|++++|...+++..+.... +...|..+..+|...|++++|...|++..+.. +-+...+..+... ....+..+
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            666677777777777666665432 56666666677777777777777776665442 1122333333333 22344556


Q ss_pred             HHHHHHHHHHh
Q 017234          267 RVKSFLKFLLG  277 (375)
Q Consensus       267 ~a~~~~~~~~~  277 (375)
                      .+...|..+..
T Consensus       317 ~a~~~~~~~l~  327 (338)
T 2if4_A          317 KQKEMYKGIFK  327 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHHHhhC
Confidence            66666666654

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.84  E-value=0.00038  Score=53.09  Aligned_cols=97  Identities=6%  Similarity=-0.079  Sum_probs=64.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCC------cC-----HHHHHHHHHHHHHcCChHHHHHHHHHHHhC-----CCC
Q 017234          253 EKVLEGLCARRKLDRVKSFLKFLLGGGWK------IN-----ENMAQKLVKCYCELGRVDELEEQLETLTKC-----NQS  316 (375)
Q Consensus       253 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~------~~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~  316 (375)
                      ......+.+.|++++|...|++.++..-.      .+     ...|..+..++.+.|++++|...+++..+.     .+.
T Consensus        15 ~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~   94 (159)
T 2hr2_A           15 LSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN   94 (159)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCC
Confidence            33444455555555555555555442100      01     237788888888888888888888887763     125


Q ss_pred             CchHHHHH----HHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          317 PEVLLHFF----SGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       317 ~~~~~~~~----~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      |+.... |    .....++...|++++|+..|++..+.
T Consensus        95 pd~~~A-~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           95 QDEGKL-WISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             STHHHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CchHHH-HHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            654433 6    78888999999999999999988763

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.80  E-value=0.00022  Score=54.41  Aligned_cols=93  Identities=8%  Similarity=-0.080  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCC-------------hhcHHHHHHHHHcCCCHHHHHHHHHHHHHC---
Q 017234          145 VFNSLICACLCSGDVVTALSLFEIMVSSEEYKPN-------------SKTYDAFISGFSSLGNVDAMNKWYAANIAA---  208 (375)
Q Consensus       145 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---  208 (375)
                      .+......+.+.|++++|+..|++..+.   .|+             ...|..+..++.+.|++++|+..+++..+.   
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l---~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~   89 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEI---SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   89 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH---HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhh---CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhc
Confidence            3444455556666666666666666551   232             114455555555555555555555554443   


Q ss_pred             ----CCCcCHHhH----HHHHHHHHccCChHHHHHHHHHHH
Q 017234          209 ----GFSVNVQTY----ESLIHGSLKARDFDSVDRFYEEMM  241 (375)
Q Consensus       209 ----~~~~~~~~~----~~ll~~~~~~g~~~~a~~~~~~m~  241 (375)
                          .+. +...|    .....++...|++++|+..|++..
T Consensus        90 ~~e~~pd-~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           90 RGELNQD-EGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             HCCTTST-HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cccCCCc-hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence                211 23344    444445555555555555554443

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.69  E-value=0.0027  Score=47.43  Aligned_cols=14  Identities=0%  Similarity=-0.033  Sum_probs=5.2

Q ss_pred             CHHHHHHHHHHHHh
Q 017234          336 RLDDVEYSVGRMGK  349 (375)
Q Consensus       336 ~~~~A~~~~~~m~~  349 (375)
                      ++++|...|++..+
T Consensus       112 d~~~A~~~~~~Aa~  125 (138)
T 1klx_A          112 NEKQAVKTFEKACR  125 (138)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            33333333333333

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.69  E-value=0.002  Score=60.56  Aligned_cols=171  Identities=9%  Similarity=-0.069  Sum_probs=106.1

Q ss_pred             hHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCC----------hHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCC-
Q 017234          125 PFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGD----------VVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLG-  193 (375)
Q Consensus       125 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~-  193 (375)
                      ++|++.++.+.+.. +-+..+|+.--.++.+.|+          ++++++.++.+.+.  -+-+..+|+.-.-.+.+.+ 
T Consensus        46 eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           46 ESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSS
T ss_pred             HHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHccc
Confidence            45566666666553 2244455554444444444          66777777777652  2345556666555666666 


Q ss_pred             -CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccC-ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---------
Q 017234          194 -NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKAR-DFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCAR---------  262 (375)
Q Consensus       194 -~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---------  262 (375)
                       +++++++.++++.+.... |..+|+.-.-.+.+.| .++++++.++++.+.+ +-+...|+.....+.+.         
T Consensus       123 ~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccccc
Confidence             557777777777776554 6666766666666666 6777777777776654 34556666665555542         


Q ss_pred             -----CCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChH
Q 017234          263 -----RKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVD  301 (375)
Q Consensus       263 -----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  301 (375)
                           +.++++.+.+++..... +-|...|.-+-..+.+.+..+
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCS
T ss_pred             ccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCcc
Confidence                 45678888888777654 446677777777776666633

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.67  E-value=0.0019  Score=48.31  Aligned_cols=112  Identities=8%  Similarity=-0.019  Sum_probs=95.0

Q ss_pred             CCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHH
Q 017234          193 GNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA----RRKLDRV  268 (375)
Q Consensus       193 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a  268 (375)
                      +++++|.++|++..+.|. |+..    |-..|...+.+++|.+.|++..+.|   +...+..|-..|..    .++.++|
T Consensus         9 ~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            468899999999999873 3433    7777777788999999999999875   56778888888887    8999999


Q ss_pred             HHHHHHHHhCCCCcCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCC
Q 017234          269 KSFLKFLLGGGWKINENMAQKLVKCYCE----LGRVDELEEQLETLTKCNQ  315 (375)
Q Consensus       269 ~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~  315 (375)
                      ..++++..+.|   ++..+..|...|..    .+++++|...|++..+.|.
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999999886   67888889999998    8999999999999988763

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.67  E-value=0.0045  Score=58.19  Aligned_cols=176  Identities=9%  Similarity=-0.014  Sum_probs=133.0

Q ss_pred             cCCC-hHHHHHHHHHHHhCCCCCCC-hhcHHHHHHHHHcCCC----------HHHHHHHHHHHHHCCCCcCHHhHHHHHH
Q 017234          155 CSGD-VVTALSLFEIMVSSEEYKPN-SKTYDAFISGFSSLGN----------VDAMNKWYAANIAAGFSVNVQTYESLIH  222 (375)
Q Consensus       155 ~~g~-~~~a~~~~~~m~~~~~~~~~-~~~~~~ll~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~ll~  222 (375)
                      +.|+ .++|++.++++...   .|+ ..+|+.--.++...|+          ++++++.++.+.+..++ +..+|+.-.-
T Consensus        40 ~~~~~~eeal~~~~~~l~~---nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w  115 (567)
T 1dce_A           40 QAGELDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCW  115 (567)
T ss_dssp             HTTCCSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHH---CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            3444 57889999999872   344 4556655555555555          89999999999988765 8888988888


Q ss_pred             HHHccC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHc--
Q 017234          223 GSLKAR--DFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARR-KLDRVKSFLKFLLGGGWKINENMAQKLVKCYCEL--  297 (375)
Q Consensus       223 ~~~~~g--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--  297 (375)
                      .+.+.|  +++++++.++++.+.+ +-+...|+.-...+.+.| .++++.+.++++.+.. .-|...|+.....+.+.  
T Consensus       116 ~l~~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~  193 (567)
T 1dce_A          116 LLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHP  193 (567)
T ss_dssp             HHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSC
T ss_pred             HHHHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcc
Confidence            888889  6799999999999876 457788888888888888 8999999999998875 45788888877776663  


Q ss_pred             ------------CChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHH
Q 017234          298 ------------GRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDD  339 (375)
Q Consensus       298 ------------g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  339 (375)
                                  +.++++.+.+++....+  |+.... |+.+-..+.+.++.++
T Consensus       194 ~~~~~~~~~~~~~~~~eel~~~~~ai~~~--P~~~sa-W~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          194 QPDSGPQGRLPENVLLKELELVQNAFFTD--PNDQSA-WFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCCSSSCCSSCHHHHHHHHHHHHHHHHHC--SSCSHH-HHHHHHHHSCCCCCSC
T ss_pred             cccccccccccHHHHHHHHHHHHHHHhhC--CCCccH-HHHHHHHHhcCCCccc
Confidence                        45688888888887744  433332 7777777777666433

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.60  E-value=0.00047  Score=48.85  Aligned_cols=61  Identities=7%  Similarity=-0.021  Sum_probs=26.4

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      .+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            6 KQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            33444444444444444444444444332 12333444444444444444444444444443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.56  E-value=0.00041  Score=49.84  Aligned_cols=78  Identities=13%  Similarity=0.048  Sum_probs=36.1

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          233 VDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       233 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      |...|++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+..+|...|++++|...|++..+
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334444444332 2234444444445555555555555555544432 22344444555555555555555555554433

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.54  E-value=0.00038  Score=49.39  Aligned_cols=61  Identities=11%  Similarity=0.068  Sum_probs=28.3

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHH
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  242 (375)
                      .+..+...+...|++++|.+.|++..+..+. +...+..+..++...|++++|...+++..+
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            6 KQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3444444444444444444444444443322 344444444445555555555555544444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.52  E-value=0.00031  Score=50.55  Aligned_cols=74  Identities=15%  Similarity=0.013  Sum_probs=44.2

Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHh
Q 017234           97 LDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus        97 ~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      +++.....+.+...+..+...+...|++++|...|++..+.. +.+...|..+..++...|++++|...|++..+
T Consensus         8 ~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            8 LEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444444556666666666666666666666666666543 22455666666666666666666666666554

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.49  E-value=0.0015  Score=44.27  Aligned_cols=26  Identities=23%  Similarity=0.188  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          286 MAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       286 ~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                      .+..+..++...|++++|...+++..
T Consensus        45 ~~~~l~~~~~~~~~~~~A~~~~~~a~   70 (91)
T 1na3_A           45 AWYNLGNAYYKQGDYDEAIEYYQKAL   70 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            33333334444444444444444333

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.49  E-value=0.0012  Score=44.66  Aligned_cols=21  Identities=24%  Similarity=0.218  Sum_probs=8.0

Q ss_pred             HHHHHHcCCChHHHHHHHHHH
Q 017234          149 LICACLCSGDVVTALSLFEIM  169 (375)
Q Consensus       149 li~~~~~~g~~~~a~~~~~~m  169 (375)
                      +...+.+.|++++|...|++.
T Consensus        15 la~~~~~~~~~~~A~~~~~~a   35 (91)
T 1na3_A           15 LGNAYYKQGDYDEAIEYYQKA   35 (91)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHH
Confidence            333333333333333333333

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.30  E-value=0.00066  Score=47.51  Aligned_cols=64  Identities=11%  Similarity=-0.046  Sum_probs=35.6

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHh
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      +...+..+...+.+.|++++|...|++..+.. +-+...|..+..+|.+.|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44555555555666666666666666555543 22344555555566666666666665555543

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.14  E-value=0.0016  Score=49.58  Aligned_cols=53  Identities=8%  Similarity=0.035  Sum_probs=27.3

Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHc-----------CChHHHHHHHHHHHhCCCCCchHH
Q 017234          266 DRVKSFLKFLLGGGWKINENMAQKLVKCYCEL-----------GRVDELEEQLETLTKCNQSPEVLL  321 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~~  321 (375)
                      ++|+..|++.++.. +-+..+|..+..+|...           |++++|.+.|++..+  +.|+...
T Consensus        63 ~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~  126 (158)
T 1zu2_A           63 QEAITKFEEALLID-PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTH  126 (158)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHH
T ss_pred             HHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHH
Confidence            35555555554432 22344455555555544           356666666666666  3344443

>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=97.14  E-value=0.0089  Score=54.00  Aligned_cols=110  Identities=10%  Similarity=-0.062  Sum_probs=78.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC---CCcC----HHHHHHHHHHHHHcCChHHHHHHHHHHHh-----CCCCCchHHH
Q 017234          255 VLEGLCARRKLDRVKSFLKFLLGGG---WKIN----ENMAQKLVKCYCELGRVDELEEQLETLTK-----CNQSPEVLLH  322 (375)
Q Consensus       255 li~~~~~~g~~~~a~~~~~~~~~~~---~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~  322 (375)
                      .+..+.+.|++++|..++++.++..   +.|+    ..+++.+...|...|++++|+.++++..+     .|..-.....
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            3455667889999999998887531   2222    45688889999999999999999987653     2332223333


Q ss_pred             HHHHHHHHHHhhCCHHHHHHHHHHHHh---CCCCccCchhHHHHH
Q 017234          323 FFSGIIRLYALSDRLDDVEYSVGRMGK---QGLSFKSAEDVEMES  364 (375)
Q Consensus       323 ~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~~~~~~~~  364 (375)
                      .++.|...|...|++++|..++++..+   .-+.|+.|.......
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~  417 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDLIL  417 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHHHH
Confidence            488899999999999999999987765   344456665555433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.14  E-value=0.0024  Score=44.53  Aligned_cols=21  Identities=19%  Similarity=0.025  Sum_probs=7.8

Q ss_pred             HHHHHHHHHccCChHHHHHHH
Q 017234          217 YESLIHGSLKARDFDSVDRFY  237 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~  237 (375)
                      |..+..+|...|++++|.+.|
T Consensus        44 ~~~lg~~~~~~g~~~~A~~~~   64 (100)
T 3ma5_A           44 YYHLGKLYERLDRTDDAIDTY   64 (100)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHH
Confidence            333333333333333333333

>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=97.13  E-value=0.0036  Score=56.54  Aligned_cols=102  Identities=7%  Similarity=-0.058  Sum_probs=74.4

Q ss_pred             hcCCHHHHHHHHHHHHhC---CCCcC----HHHHHHHHHHHHHcCChHHHHHHHHHHHh-----CCCCCchHHHHHHHHH
Q 017234          261 ARRKLDRVKSFLKFLLGG---GWKIN----ENMAQKLVKCYCELGRVDELEEQLETLTK-----CNQSPEVLLHFFSGII  328 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~~---~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~~~li  328 (375)
                      ..|++++|..++++.++.   -+.|+    ..+++.|..+|...|++++|+.++++..+     .|..-......++.|.
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            457899999999887542   12222    35788999999999999999999988653     3433323333499999


Q ss_pred             HHHHhhCCHHHHHHHHHHHHh---CCCCccCchhHHH
Q 017234          329 RLYALSDRLDDVEYSVGRMGK---QGLSFKSAEDVEM  362 (375)
Q Consensus       329 ~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~~~~~~  362 (375)
                      ..|...|++++|..++++..+   .-+.|+.|.....
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~l  426 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISEI  426 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHHH
Confidence            999999999999999988765   3344556654443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.10  E-value=0.0011  Score=50.42  Aligned_cols=98  Identities=11%  Similarity=0.021  Sum_probs=60.8

Q ss_pred             hcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChh----------HHHHHHHHHHHCCCCcCHhHHHHHHH
Q 017234           82 QSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVP----------FAMHVFTSMEAQGIKPDSAVFNSLIC  151 (375)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~----------~a~~~~~~m~~~g~~p~~~~~~~li~  151 (375)
                      +.+.+++|.+.    ++......+.+...|..+..++.+.++++          +|+..|++..+.. +-+..+|..+..
T Consensus        14 r~~~feeA~~~----~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~   88 (158)
T 1zu2_A           14 RILLFEQIRQD----AENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHhHHHHHHHH----HHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            44456667777    44555556667777777777777776643          6777777766653 224556777777


Q ss_pred             HHHcCC-----------ChHHHHHHHHHHHhCCCCCCChhcHHHHHH
Q 017234          152 ACLCSG-----------DVVTALSLFEIMVSSEEYKPNSKTYDAFIS  187 (375)
Q Consensus       152 ~~~~~g-----------~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~  187 (375)
                      +|...|           ++++|++.|++..+   +.|+...|...+.
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~---l~P~~~~y~~al~  132 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVD---EQPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHH
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHH---hCCCCHHHHHHHH
Confidence            776653           66777777776665   3566555544433

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.05  E-value=0.0056  Score=60.14  Aligned_cols=156  Identities=10%  Similarity=0.020  Sum_probs=93.8

Q ss_pred             HHHhccCChhHHHH-HHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCC
Q 017234          116 ALSGKVQNVPFAMH-VFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGN  194 (375)
Q Consensus       116 ~~~~~~~~~~~a~~-~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~  194 (375)
                      ......+++++|.+ ++..+      |+......++..+.+.|..++|.++.++-..             -.......|+
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~~~-------------~f~~~l~~~~  667 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQDQ-------------KFELALKVGQ  667 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCHHH-------------HHHHHHHHTC
T ss_pred             hHHHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCcch-------------heehhhhcCC
Confidence            34445677777765 44221      1122336777777777877777766532211             1223455688


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 017234          195 VDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKF  274 (375)
Q Consensus       195 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  274 (375)
                      +++|+++.+.+      .+...|..+...+.+.|+++.|.+.|..+..         |..+...+...|+.+....+-+.
T Consensus       668 ~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~  732 (814)
T 3mkq_A          668 LTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKD  732 (814)
T ss_dssp             HHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHH
Confidence            88887775332      3667788888888888888888888877653         44555556667777766666655


Q ss_pred             HHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          275 LLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       275 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                      ....|.      ++.-..+|.+.|++++|.+++.++.
T Consensus       733 a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          733 AETTGK------FNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHTTC------HHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHcCc------hHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            555441      2333444556677777776665543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.03  E-value=0.035  Score=54.42  Aligned_cols=102  Identities=11%  Similarity=0.007  Sum_probs=58.7

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHH
Q 017234          111 YACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFS  190 (375)
Q Consensus       111 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~  190 (375)
                      ...++..+.+.|.++.|.++.+.-       .     .-.......|++++|.++.+.+       .+...|..+...+.
T Consensus       632 ~~~~~~~l~~~~~~~~a~~~~~~~-------~-----~~f~~~l~~~~~~~A~~~~~~~-------~~~~~W~~la~~al  692 (814)
T 3mkq_A          632 LTKIARFLEGQEYYEEALNISPDQ-------D-----QKFELALKVGQLTLARDLLTDE-------SAEMKWRALGDASL  692 (814)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHCCCH-------H-----HHHHHHHHHTCHHHHHHHHTTC-------CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCChHHheecCCCc-------c-----hheehhhhcCCHHHHHHHHHhh-------CcHhHHHHHHHHHH
Confidence            366666777777777776654211       1     1123345567777777765433       34566777777777


Q ss_pred             cCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHH
Q 017234          191 SLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       191 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      +.++++.|.+.|.++.+         |..+...+...|+.+...++-+..
T Consensus       693 ~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a  733 (814)
T 3mkq_A          693 QRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDA  733 (814)
T ss_dssp             HTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHH
Confidence            77777777777766543         334444444455555544443333

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.91  E-value=0.0052  Score=55.54  Aligned_cols=61  Identities=18%  Similarity=0.153  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHhC-----CCCCCC-hhcHHHHHHHHHcCCCHHHHHHHHHHH
Q 017234          145 VFNSLICACLCSGDVVTALSLFEIMVSS-----EEYKPN-SKTYDAFISGFSSLGNVDAMNKWYAAN  205 (375)
Q Consensus       145 ~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m  205 (375)
                      +++.+..+|...|++++|+.++++..+.     ..-.|+ ..+++.|...|...|++++|+.++++.
T Consensus       342 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          342 MMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            4444444444444444444444444320     001111 233444455555555555555544443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.89  E-value=0.024  Score=49.49  Aligned_cols=63  Identities=8%  Similarity=-0.141  Sum_probs=30.1

Q ss_pred             CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          213 NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       213 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      +..+|.++...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.+++...
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr  338 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN  338 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            44444444444444455555555555554443  4444444444444455555555555554444

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.88  E-value=0.062  Score=41.44  Aligned_cols=129  Identities=11%  Similarity=0.009  Sum_probs=96.3

Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLD  266 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  266 (375)
                      ......|+++.|.++.+++      .+...|..|.......|+++-|.+.|.....         +..+.-.|...|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            3445789999999997765      3788999999999999999999999988763         566777788889998


Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHH
Q 017234          267 RVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGR  346 (375)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  346 (375)
                      ....+-+.....|-      ++.-...+.-.|+++++.++|.+.   |.-|        --.-.....|..+.|.++.++
T Consensus        78 ~L~kla~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~---~r~~--------eA~~~A~t~g~~~~a~~~~~~  140 (177)
T 3mkq_B           78 KLSKMQNIAQTRED------FGSMLLNTFYNNSTKERSSIFAEG---GSLP--------LAYAVAKANGDEAAASAFLEQ  140 (177)
T ss_dssp             HHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHT---TCHH--------HHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHC---CChH--------HHHHHHHHcCcHHHHHHHHHH
Confidence            88887777766652      445555677789999999998543   3222        112223456778888888877


Q ss_pred             H
Q 017234          347 M  347 (375)
Q Consensus       347 m  347 (375)
                      +
T Consensus       141 ~  141 (177)
T 3mkq_B          141 A  141 (177)
T ss_dssp             T
T ss_pred             h
Confidence            6

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.70  E-value=0.073  Score=46.44  Aligned_cols=74  Identities=15%  Similarity=-0.001  Sum_probs=49.5

Q ss_pred             CCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHH
Q 017234          176 KPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILE  253 (375)
Q Consensus       176 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  253 (375)
                      +.+..+|..+...+...|++++|...+++....+  |+...|..+-..+...|++++|.+.|++....  .|...||.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence            4555666666555555677777777777777764  56666666667777777777777777776665  45555554

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.66  E-value=0.0078  Score=54.38  Aligned_cols=92  Identities=10%  Similarity=0.016  Sum_probs=72.0

Q ss_pred             HHHHHHccCChHHHHHHHHHHHHCC---CCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCcC-HH
Q 017234          220 LIHGSLKARDFDSVDRFYEEMMSLG---IIP----SIPILEKVLEGLCARRKLDRVKSFLKFLLGG-----G-WKIN-EN  285 (375)
Q Consensus       220 ll~~~~~~g~~~~a~~~~~~m~~~~---~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~-~~~~-~~  285 (375)
                      .+..+...|++++|+.++++..+..   +.|    ...+++.+..+|...|++++|..+++++++-     | -.|+ ..
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            3555667899999999999987641   122    2467899999999999999999999987542     2 2233 34


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          286 MAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       286 ~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                      +++.|...|...|++++|+.++++..
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            68899999999999999999998864

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.41  E-value=0.22  Score=38.36  Aligned_cols=100  Identities=15%  Similarity=0.161  Sum_probs=57.4

Q ss_pred             HHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChH
Q 017234          152 ACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFD  231 (375)
Q Consensus       152 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~  231 (375)
                      ...+.|+++.|.++.+++       .+...|..|.....+.|+++-|.+.|.+..+         +..+.-.|.-.|+.+
T Consensus        14 LAL~lg~l~~A~e~a~~l-------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL-------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHhcCCHHHHHHHHHHh-------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            344566676666665443       4556677777777777777777666655433         344444555566665


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 017234          232 SVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLK  273 (375)
Q Consensus       232 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  273 (375)
                      ...++-+.....|-      ++.....+.-.|+++++.+++.
T Consensus        78 ~L~kla~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~  113 (177)
T 3mkq_B           78 KLSKMQNIAQTRED------FGSMLLNTFYNNSTKERSSIFA  113 (177)
T ss_dssp             HHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHH
Confidence            55554444444431      4444555556667766666664

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.38  E-value=0.063  Score=40.31  Aligned_cols=81  Identities=12%  Similarity=0.070  Sum_probs=48.4

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCc--CHHHHHHHHHHHHHcCChHHHH
Q 017234          230 FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARR---KLDRVKSFLKFLLGGGWKI--NENMAQKLVKCYCELGRVDELE  304 (375)
Q Consensus       230 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~  304 (375)
                      ...+.+-|.+....| .++..+...+..++++++   +.+++..+++.+.+.+ .|  +...+-.|.-+|.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            445555565555555 356666666666666666   4556667776666643 23  2344444555666777777777


Q ss_pred             HHHHHHHh
Q 017234          305 EQLETLTK  312 (375)
Q Consensus       305 ~~~~~~~~  312 (375)
                      +.++.+.+
T Consensus        92 ~y~~~lL~   99 (152)
T 1pc2_A           92 KYVRGLLQ   99 (152)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            77777666

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.35  E-value=0.034  Score=38.08  Aligned_cols=58  Identities=12%  Similarity=0.188  Sum_probs=39.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCcCHH-HHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          256 LEGLCARRKLDRVKSFLKFLLGGGWKINEN-MAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       256 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      ...+...|++++|...++++.+.. +.+.. .+..+..+|...|++++|...|++..+.+
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            445566777777777777776643 33455 66777777777777777777777776644

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.26  E-value=0.089  Score=39.51  Aligned_cols=80  Identities=10%  Similarity=-0.044  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhCCCCC-chHHHHHHHHHHHHHhhCCHHHHHH
Q 017234          267 RVKSFLKFLLGGGWKINENMAQKLVKCYCELG---RVDELEEQLETLTKCNQSP-EVLLHFFSGIIRLYALSDRLDDVEY  342 (375)
Q Consensus       267 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~  342 (375)
                      .+.+-|.+..+.| .++..+...+..++++++   +++++..+|+++.+.+ .| +..-. +-.+.-+|.+.|++++|.+
T Consensus        16 ~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~-lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           16 KFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDY-VFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHH-HHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHH-HHHHHHHHHHccCHHHHHH
Confidence            3334444433333 244444444455555544   3334555555544432 12 11111 2223334455555555555


Q ss_pred             HHHHHHh
Q 017234          343 SVGRMGK  349 (375)
Q Consensus       343 ~~~~m~~  349 (375)
                      .++.+.+
T Consensus        93 y~~~lL~   99 (152)
T 1pc2_A           93 YVRGLLQ   99 (152)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            5555543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.03  E-value=0.047  Score=37.33  Aligned_cols=53  Identities=9%  Similarity=0.109  Sum_probs=23.2

Q ss_pred             HHcCCCHHHHHHHHHHHHHCCCCcCHH-hHHHHHHHHHccCChHHHHHHHHHHHH
Q 017234          189 FSSLGNVDAMNKWYAANIAAGFSVNVQ-TYESLIHGSLKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       189 ~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~m~~  242 (375)
                      +.+.|++++|.+.|++..+.... +.. .+..+..+|...|++++|...|++..+
T Consensus        10 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A           10 LINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            33444444444444444443221 333 444444444444444444444444443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.99  E-value=0.13  Score=35.01  Aligned_cols=66  Identities=15%  Similarity=0.020  Sum_probs=34.3

Q ss_pred             cCHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          282 INENMAQKLVKCYCELGR---VDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       282 ~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .|+..+..+..++...++   .++|..++++..+.+  |+.... ...+...+.+.|++++|+..|+++.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d--p~~~rA-~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE--PYNEAA-LSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC--cCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344555555555543333   456666666665533  332222 344555556666666666666666554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.96  E-value=0.16  Score=34.63  Aligned_cols=65  Identities=6%  Similarity=-0.025  Sum_probs=39.2

Q ss_pred             CCHHHHHHHHHHHhccCC---hhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHh
Q 017234          106 SCLDEYACLIALSGKVQN---VPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus       106 ~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      .|+..+..+..++...++   .++|..++++..+.. +-++.....+...+.+.|++++|+..|+.+.+
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            445555555555543333   566777776666653 22455666666666677777777777777665

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.87  E-value=0.33  Score=35.41  Aligned_cols=63  Identities=14%  Similarity=0.197  Sum_probs=31.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC
Q 017234          252 LEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQ  315 (375)
Q Consensus       252 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  315 (375)
                      +...+......|+.++..+++..+... -+|++...-.+..+|.+.|+..+|.+++.+.-+.|+
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            334444455555555555555554332 244555555555555555555555555555555443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.76  E-value=0.078  Score=37.02  Aligned_cols=65  Identities=9%  Similarity=-0.050  Sum_probs=28.4

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHHHhCC-----CCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 017234          143 SAVFNSLICACLCSGDVVTALSLFEIMVSSE-----EYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIA  207 (375)
Q Consensus       143 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  207 (375)
                      ..-+..|...+.+.|+++.|...|+...+..     .-.+....+..+..++.+.|+++.|...+++..+
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            3334444445555555555555554444310     0012223344444444444444444444444444

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.76  E-value=0.1  Score=36.33  Aligned_cols=65  Identities=8%  Similarity=-0.079  Sum_probs=39.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC------CCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          248 SIPILEKVLEGLCARRKLDRVKSFLKFLLGGG------WKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       248 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      +..-+..+...+...|+++.|...++...+.-      -.+...++..|..+|.+.|+++.|...+++..+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            33445556666666666666666666654420      123455666666777777777777777776665

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.44  E-value=0.88  Score=41.14  Aligned_cols=53  Identities=6%  Similarity=0.090  Sum_probs=33.5

Q ss_pred             CChhHHHHHHHHHHHC-----CCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCC
Q 017234          122 QNVPFAMHVFTSMEAQ-----GIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEE  174 (375)
Q Consensus       122 ~~~~~a~~~~~~m~~~-----g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  174 (375)
                      |+++.|.+.+-.+.+.     +...+......++..|.+.|+++...+.+.-+....|
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~   87 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHG   87 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhh
Confidence            5677777766555532     2344556677777777777777777776666655333

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.43  E-value=0.51  Score=34.46  Aligned_cols=146  Identities=10%  Similarity=0.064  Sum_probs=72.3

Q ss_pred             HHHHHHH---HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHH
Q 017234           74 WDALITS---LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLI  150 (375)
Q Consensus        74 ~~~li~~---~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li  150 (375)
                      ...|+.+   ...|..++..++    +.+.....  +..-||.+|.-....-+-+-..++++.+-+.   -|..      
T Consensus         8 ~kkLmeAK~~ildG~v~qGvei----i~k~~~ss--ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDis------   72 (172)
T 1wy6_A            8 IRKLMDAKKFLLDGYIDEGVKI----VLEITKSS--TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDLD------   72 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHH----HHHHHHHS--CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCGG------
T ss_pred             HHHHHHHHHHHHhhhHHHHHHH----HHHHcCCC--CccccceeeeecchhhchhHHHHHHHHHhhh---cCcH------
Confidence            3456666   477888888888    44443322  4555666666665555555555555554321   1111      


Q ss_pred             HHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCCh
Q 017234          151 CACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDF  230 (375)
Q Consensus       151 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~  230 (375)
                          ..|++.....-+-.+-      .+...+...+......|+-+.-.+++..+... .+|++...-.+..+|.+.|+.
T Consensus        73 ----~C~NlKrVi~C~~~~n------~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~  141 (172)
T 1wy6_A           73 ----KCQNLKSVVECGVINN------TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDE  141 (172)
T ss_dssp             ----GCSCTHHHHHHHHHTT------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCH
T ss_pred             ----hhhcHHHHHHHHHHhc------chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcch
Confidence                1223333333222221      22333444455555555555555555553332 234455555555555555555


Q ss_pred             HHHHHHHHHHHHCCC
Q 017234          231 DSVDRFYEEMMSLGI  245 (375)
Q Consensus       231 ~~a~~~~~~m~~~~~  245 (375)
                      .+|.+++.+.-+.|+
T Consensus       142 r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A          142 RDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHhhh
Confidence            555555555555553

>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=94.94  E-value=0.22  Score=41.79  Aligned_cols=110  Identities=7%  Similarity=0.080  Sum_probs=80.3

Q ss_pred             HhHHHHHHHH-HHc--CCC------hHHHHHHHHHHHhCCCCCCC---hhcHHHHHHHHHcC-----CCHHHHHHHHHHH
Q 017234          143 SAVFNSLICA-CLC--SGD------VVTALSLFEIMVSSEEYKPN---SKTYDAFISGFSSL-----GNVDAMNKWYAAN  205 (375)
Q Consensus       143 ~~~~~~li~~-~~~--~g~------~~~a~~~~~~m~~~~~~~~~---~~~~~~ll~~~~~~-----~~~~~a~~~~~~m  205 (375)
                      ...|..++.+ ++.  .|.      ...|...+++..+   +.|+   ...|..+...|...     |+.++|.+.|++.
T Consensus       154 ~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferA  230 (301)
T 3u64_A          154 TLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHL  230 (301)
T ss_dssp             HHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHH
Confidence            4456665553 333  233      4677777787776   3566   45788888888885     9999999999999


Q ss_pred             HHCCCCcCHHhHHHHHHHHHcc-CChHHHHHHHHHHHHCCCC--CCHHHHHHH
Q 017234          206 IAAGFSVNVQTYESLIHGSLKA-RDFDSVDRFYEEMMSLGII--PSIPILEKV  255 (375)
Q Consensus       206 ~~~~~~~~~~~~~~ll~~~~~~-g~~~~a~~~~~~m~~~~~~--p~~~~~~~l  255 (375)
                      .+.+..-+..++......+++. |+.+++.+.+++.......  |+....+.+
T Consensus       231 L~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          231 TRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             HHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             HHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            9876543578888888888885 9999999999999987666  664444433

>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=94.81  E-value=0.26  Score=41.30  Aligned_cols=65  Identities=8%  Similarity=0.113  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCc--CHHHHHHHHHHHHHc-CChHHHHHHHHHHHhCCCC
Q 017234          250 PILEKVLEGLCAR-----RKLDRVKSFLKFLLGGGWKI--NENMAQKLVKCYCEL-GRVDELEEQLETLTKCNQS  316 (375)
Q Consensus       250 ~~~~~li~~~~~~-----g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~~~~  316 (375)
                      ..|..+...|...     |+.++|.+.|++.++.+  |  +..++....+.++.. |+.+++.+.+++.......
T Consensus       200 sA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~Ln--P~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          200 AVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYC--SAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHC--CTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhC--CCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCC
Confidence            4455555555552     56666666666555532  3  244455555555553 5556666666655554443

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=94.65  E-value=0.36  Score=35.91  Aligned_cols=58  Identities=12%  Similarity=0.143  Sum_probs=44.8

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCch
Q 017234          261 ARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEV  319 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  319 (375)
                      ..++.++|.++|+.+++.+-+. ..+|......-.+.|+++.|.+++......+.+|..
T Consensus        72 ei~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~  129 (161)
T 4h7y_A           72 AIQEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLE  129 (161)
T ss_dssp             HHHCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHH
T ss_pred             HhcCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHH
Confidence            3378888888888886654344 777777778888899999999999988887777643

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.22  E-value=0.43  Score=34.42  Aligned_cols=81  Identities=15%  Similarity=0.052  Sum_probs=36.0

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHhCCCCc--CHHHHHHHHHHHHHcCChHHHH
Q 017234          230 FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDR---VKSFLKFLLGGGWKI--NENMAQKLVKCYCELGRVDELE  304 (375)
Q Consensus       230 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~---a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~  304 (375)
                      ...+.+-|.+....| .|+..+-..+..++.++.+...   +..+++.+...+ .|  .....-.|.-++.+.|++++|.
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 LLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            334444444443333 2444444444445555444333   455555544432 12  1122233444455555555555


Q ss_pred             HHHHHHHh
Q 017234          305 EQLETLTK  312 (375)
Q Consensus       305 ~~~~~~~~  312 (375)
                      +.++.+.+
T Consensus        95 ~~~~~lL~  102 (126)
T 1nzn_A           95 KYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555554

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.94  E-value=0.0016  Score=58.36  Aligned_cols=242  Identities=16%  Similarity=0.175  Sum_probs=159.5

Q ss_pred             cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHH
Q 017234           71 QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSL  149 (375)
Q Consensus        71 ~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  149 (375)
                      ...|+.|-.+ +..+...+|++.|    -   +.  .|+..|..+|....+.|.+++-...+...++.  ..++..=+.|
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsy----I---kA--~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~--~ke~~IDteL  122 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSY----I---KA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETEL  122 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSS----C---CC--SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT--CCSTTTTHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHH----H---hC--CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccHHHH
Confidence            4458888888 7888888887774    1   11  35566888999999999999988887766655  3355666788


Q ss_pred             HHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCC--------------------
Q 017234          150 ICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAG--------------------  209 (375)
Q Consensus       150 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--------------------  209 (375)
                      +-+|++.++..+-.+++    .    .||..-...+..-|...|.++.|.-+|..+....                    
T Consensus       123 i~ayAk~~rL~elEefl----~----~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaAr  194 (624)
T 3lvg_A          123 IFALAKTNRLAELEEFI----N----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGAR  194 (624)
T ss_dssp             HHHHHTSCSSSTTTSTT----S----CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTT
T ss_pred             HHHHHhhCcHHHHHHHH----c----CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999998876543332    1    4677667777888888888877776665442111                    


Q ss_pred             CCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHH
Q 017234          210 FSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQK  289 (375)
Q Consensus       210 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  289 (375)
                      -..++.||..+-.+|...+++.-|.-.--.+.-.   ||  ....++..|-+.|.+++...+++..+... .....+|+-
T Consensus       195 KAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTE  268 (624)
T 3lvg_A          195 KANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTE  268 (624)
T ss_dssp             TCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHH
T ss_pred             hcCChhHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHH
Confidence            1237788999999999999988877665555432   22  23356777888999999999988876432 357788998


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCchHH--------HHHHHHHHHHHhhCCHHHHH
Q 017234          290 LVKCYCELGRVDELEEQLETLTKCNQSPEVLL--------HFFSGIIRLYALSDRLDDVE  341 (375)
Q Consensus       290 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--------~~~~~li~~~~~~g~~~~A~  341 (375)
                      |.-.|++-. .++..+-++.   .--..+...        ..|.-++-.|.+-.++|.|.
T Consensus       269 LaILYsKY~-PeKlmEHlkl---f~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          269 LAILYSKFK-PQKMREHLEL---FWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHHHHHSSC-TTHHHHHHTT---SSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHhcC-HHHHHHHHHH---HHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            888888753 4443333322   211111111        12555555566666666554

>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=93.63  E-value=0.74  Score=34.27  Aligned_cols=54  Identities=7%  Similarity=-0.014  Sum_probs=37.8

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc
Q 017234          228 RDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKI  282 (375)
Q Consensus       228 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  282 (375)
                      ++.++|.++|+.+...+-.. ...|....+--.+.|++..|.+++...+..+-+|
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            67888888888886642222 5555555555568888888888888888876554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=92.90  E-value=1.9  Score=31.07  Aligned_cols=66  Identities=12%  Similarity=-0.072  Sum_probs=27.4

Q ss_pred             cCHHHHHHHHHHHHHcCChHH---HHHHHHHHHhCCCCC-chHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          282 INENMAQKLVKCYCELGRVDE---LEEQLETLTKCNQSP-EVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       282 ~~~~~~~~li~~~~~~g~~~~---a~~~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      ++..+-..+..++.++.+..+   +..+++++...+ .| ...-. .-.|.-++.+.|++++|.+.++.+++
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~-lY~LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDY-VFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHH-HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHH-HHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            444444444444444444333   444444444322 11 11111 12233344455555555555555543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=92.89  E-value=8  Score=38.26  Aligned_cols=256  Identities=9%  Similarity=0.001  Sum_probs=143.6

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCC-CCC--HHHHHHHHHHHhccCChhHHHHHHHHHHHCCC-------CcCHhHHHHHH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGN-ESC--LDEYACLIALSGKVQNVPFAMHVFTSMEAQGI-------KPDSAVFNSLI  150 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~-~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-------~p~~~~~~~li  150 (375)
                      ...|+.++++..    ++.-...+ ..+  ...-..+.-+....|...++..++.......-       .+....-.++.
T Consensus       385 Ih~g~~~~gl~~----L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLG  460 (963)
T 4ady_A          385 IHKGNLLEGKKV----MAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLG  460 (963)
T ss_dssp             HTSSCTTTHHHH----HTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHH
T ss_pred             hccCchHHHHHH----HHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHH
Confidence            477888888888    44443321 122  33333444445566665677777766554311       01122233344


Q ss_pred             HHHHcCCC-hHHHHHHHHHHHhCCCCCCChhcHH--HHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHcc
Q 017234          151 CACLCSGD-VVTALSLFEIMVSSEEYKPNSKTYD--AFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKA  227 (375)
Q Consensus       151 ~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  227 (375)
                      -+++-.|. -+++.+.+..+.....  +......  +|...+.-.|+.+....++..+.+.. .-+..-+-++.-++...
T Consensus       461 LGla~~GS~~eev~e~L~~~L~dd~--~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~  537 (963)
T 4ady_A          461 IGLAAMGSANIEVYEALKEVLYNDS--ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINY  537 (963)
T ss_dssp             HHHHSTTCCCHHHHHHHHHHHHTCC--HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTT
T ss_pred             HHHHhcCCCCHHHHHHHHHHHhcCC--HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhC
Confidence            44444453 2456666666654111  1111122  33344567788888888888777642 11233333444455578


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHH---HHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHH
Q 017234          228 RDFDSVDRFYEEMMSLGIIPSIPILE---KVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELE  304 (375)
Q Consensus       228 g~~~~a~~~~~~m~~~~~~p~~~~~~---~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  304 (375)
                      |+.+.+..+.+.+.... .|. .-|.   .+.-+|+..|+.....+++..+.+.. ..+..-...+.-++...|+.+.+.
T Consensus       538 g~~e~~~~li~~L~~~~-dp~-vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~  614 (963)
T 4ady_A          538 GRQELADDLITKMLASD-ESL-LRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVP  614 (963)
T ss_dssp             TCGGGGHHHHHHHHHCS-CHH-HHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHH
T ss_pred             CChHHHHHHHHHHHhCC-CHH-HHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHH
Confidence            99999999999988742 222 2233   23346778899888888999988753 233333333444555578877778


Q ss_pred             HHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCH-HHHHHHHHHHHh
Q 017234          305 EQLETLTKCNQSPEVLLHFFSGIIRLYALSDRL-DDVEYSVGRMGK  349 (375)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~  349 (375)
                      ++++.+.+.+ .|....  -..+.-+....|.. .+|++++..+..
T Consensus       615 rlv~~L~~~~-d~~VR~--gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          615 RIVQLLSKSH-NAHVRC--GTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             HHTTTGGGCS-CHHHHH--HHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHHHHhcC-CHHHHH--HHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            8877666543 454444  33444444445543 678888888864

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.81  E-value=2.1  Score=41.27  Aligned_cols=128  Identities=9%  Similarity=-0.039  Sum_probs=73.1

Q ss_pred             HHHHHHHHcCCC-HHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCCh-HHHHHHHHHHHHC------CCCC-CHH---
Q 017234          183 DAFISGFSSLGN-VDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDF-DSVDRFYEEMMSL------GIIP-SIP---  250 (375)
Q Consensus       183 ~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~-~~a~~~~~~m~~~------~~~p-~~~---  250 (375)
                      ..++..+...++ .+.|.++|+++.+.....+......++..+...++- -+|.+++.+..+.      ...+ +..   
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            345555555555 577888888887764332222223333333333321 1344444433211      1111 110   


Q ss_pred             -------HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          251 -------ILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       251 -------~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                             ....=..-|...|+++-|+.+-++....- +.+-.+|..|..+|...|+++.|.-.++-+.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                   11222334557788888888888887642 3456788888888888888888888887763

>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=92.72  E-value=6.7  Score=36.98  Aligned_cols=289  Identities=8%  Similarity=0.020  Sum_probs=158.6

Q ss_pred             hHHHHHHhhcCCcchHHHHHHHhhhccCCCCcccHHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCC-HHHHHHHHHHH
Q 017234           40 SNPLISRLLQVPVSQIKTTLDSVDIFAFNSSQFSWDALITSLQSSSPKKAQLVLEWRLDKMLKGNESC-LDEYACLIALS  118 (375)
Q Consensus        40 ~~~ll~~l~~~~~~~~~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~-~~~~~~li~~~  118 (375)
                      |.....++.+.....+..+...+...-+.|- ..|..+........+.+....    +.+-  .+.|- ...-+..+..+
T Consensus        10 ~~~a~~a~~~~~~~~~~~l~~~l~~~pL~~y-l~y~~l~~~l~~~~~~ev~~F----l~~~--~~~p~~~~Lr~~~l~~l   82 (618)
T 1qsa_A           10 YAQIKQAWDNRQMDVVEQMMPGLKDYPLYPY-LEYRQITDDLMNQPAVTVTNF----VRAN--PTLPPARTLQSRFVNEL   82 (618)
T ss_dssp             HHHHHHHHHTTCHHHHHHHSGGGTTSTTHHH-HHHHHHHHTGGGCCHHHHHHH----HHHC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhhcCCCcHHH-HHHHHHHhCcccCCHHHHHHH----HHHC--CCChhHHHHHHHHHHHH
Confidence            3444444444333344555555544333333 255444433444456655555    3321  12232 23335566777


Q ss_pred             hccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHH-
Q 017234          119 GKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDA-  197 (375)
Q Consensus       119 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~-  197 (375)
                      .+.+++....+.+..     .+.+...--....+....|+..+|....+.+.. .| ......+..++..+.+.|.... 
T Consensus        83 ~~~~~w~~~l~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~-~~-~~~p~~c~~l~~~~~~~g~lt~~  155 (618)
T 1qsa_A           83 ARREDWRGLLAFSPE-----KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWL-TG-KSQPNACDKLFSVWRASGKQDPL  155 (618)
T ss_dssp             HHTTCHHHHHHHCCS-----CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHS-CS-SCCCTHHHHHHHHHHHTTCSCHH
T ss_pred             HhCCCHHHHHHhccC-----CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHh-CC-CCCcHHHHHHHHHHHHCCCCCHH
Confidence            788888877765443     133555545567778888998888888888886 33 3455678899999887665422 


Q ss_pred             -HHHHHHHHHHCC-----------CCcCH----------------------------Hh---HHHHHHHHHccCChHHHH
Q 017234          198 -MNKWYAANIAAG-----------FSVNV----------------------------QT---YESLIHGSLKARDFDSVD  234 (375)
Q Consensus       198 -a~~~~~~m~~~~-----------~~~~~----------------------------~~---~~~ll~~~~~~g~~~~a~  234 (375)
                       ...=+..+...|           +.++.                            ..   +...+.-+.+ .+.+.|.
T Consensus       156 ~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~rlar-~d~~~A~  234 (618)
T 1qsa_A          156 AYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTVLTFARTTGATDFTRQMAAVAFASVAR-QDAENAR  234 (618)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHHHHHHHSCCCHHHHHHHHHHHHHHHH-HCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhChHhHHHHHhccCCChhhHHHHHHHHHHHHh-cCHHHHH
Confidence             111111111111           11111                            00   0011112222 3677888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHH----HHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 017234          235 RFYEEMMSLGIIPSIPILEKVL----EGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETL  310 (375)
Q Consensus       235 ~~~~~m~~~~~~p~~~~~~~li----~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  310 (375)
                      ..+....+.. ..+......+-    ......+...++...+.......  ++.......+....+.|+++.|...|+.|
T Consensus       235 ~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a~~~~~~l  311 (618)
T 1qsa_A          235 LMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNTWLARL  311 (618)
T ss_dssp             HHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHHHHHHHHc
Confidence            8887776543 23333322222    22333443455566666554432  44555556666667889999999999988


Q ss_pred             HhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          311 TKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       311 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      ......-+...+ |  +.+++...|+.++|..+|.++..
T Consensus       312 ~~~~~~~~r~~Y-W--~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          312 PMEAKEKDEWRY-W--QADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             CTTGGGSHHHHH-H--HHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cccccccHhHHH-H--HHHHHHHcCCHHHHHHHHHHHhc
Confidence            764332222221 3  45577889999999999988864

>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=92.25  E-value=0.66  Score=41.10  Aligned_cols=69  Identities=16%  Similarity=0.057  Sum_probs=41.9

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHH-----CCCCCCHHH
Q 017234          182 YDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMS-----LGIIPSIPI  251 (375)
Q Consensus       182 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~  251 (375)
                      ...++..+...|+++++...+..+....+ .+...|..+|.++.+.|+..+|++.|+...+     .|+.|...+
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P-~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            33455556666666666666666655443 2666666667777777777666666666543     366665443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=92.18  E-value=3.6  Score=42.10  Aligned_cols=53  Identities=15%  Similarity=0.074  Sum_probs=30.3

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHH
Q 017234          113 CLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMV  170 (375)
Q Consensus       113 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  170 (375)
                      .++..+.+.+.++.+.++....     +.++..--.+..++...|++++|.+.|++.-
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa  869 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTS  869 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCC
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHh
Confidence            3455555666666555544322     2234444455666777777777777776653

>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=91.93  E-value=2.1  Score=29.32  Aligned_cols=66  Identities=9%  Similarity=0.079  Sum_probs=45.5

Q ss_pred             hcC-CHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 017234          261 ARR-KLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIR  329 (375)
Q Consensus       261 ~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~  329 (375)
                      +.. +.-++.+-+..+....+.|++.+..+.+++|.+.+++..|.++|+.++.+--.. ...  |..+++
T Consensus        21 ~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~-~~i--Y~~~lq   87 (109)
T 1v54_E           21 KPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH-KEI--YPYVIQ   87 (109)
T ss_dssp             CTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC-TTH--HHHHHH
T ss_pred             CcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc-hhh--HHHHHH
Confidence            344 556677777777777778888888888888888888888888888777643222 223  555553

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.62  E-value=0.92  Score=43.73  Aligned_cols=127  Identities=11%  Similarity=0.037  Sum_probs=79.1

Q ss_pred             HHHHHHHHHccCC-hHHHHHHHHHHHHCCCCCCHHH-H-HHHHHHHHhcC-CHHHHHHHHHHHHhC------CCCc-CH-
Q 017234          217 YESLIHGSLKARD-FDSVDRFYEEMMSLGIIPSIPI-L-EKVLEGLCARR-KLDRVKSFLKFLLGG------GWKI-NE-  284 (375)
Q Consensus       217 ~~~ll~~~~~~g~-~~~a~~~~~~m~~~~~~p~~~~-~-~~li~~~~~~g-~~~~a~~~~~~~~~~------~~~~-~~-  284 (375)
                      -..++..+...|+ .+.|..+|+++....  |.... + ..++..+...+ +--+|.+++.+..+.      ...+ +. 
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~  328 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDAD  328 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccc
Confidence            3455555666666 578999999998864  43222 2 22333332222 122344444443321      1111 11 


Q ss_pred             ---------HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Q 017234          285 ---------NMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMG  348 (375)
Q Consensus       285 ---------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  348 (375)
                               .....-.+.+...|+++.|.++-++...  ..|+.... |..|..+|...|+++.|+-.++.+-
T Consensus       329 ~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~--~aPseF~t-W~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          329 SARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTE--LALDSFES-WYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHH-HHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHh--cCchhhHH-HHHHHHHHHHhccHHHHHHHHhcCC
Confidence                     1223334567789999999999999887  44654332 9999999999999999999998874

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.56  E-value=7.5  Score=34.99  Aligned_cols=56  Identities=14%  Similarity=-0.016  Sum_probs=37.5

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCC--CCCHHHHHHHHHHHhccCChhHHHHHHHHHHH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGN--ESCLDEYACLIALSGKVQNVPFAMHVFTSMEA  136 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  136 (375)
                      ...|+++.|++.+-.+-.+....+  .........++..|.+.|+++...+.+..+.+
T Consensus        27 l~~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lsk   84 (445)
T 4b4t_P           27 LAQNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSK   84 (445)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            456788889888532222222222  24677788899999999999988777766553

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=91.08  E-value=1.1  Score=39.74  Aligned_cols=71  Identities=6%  Similarity=-0.029  Sum_probs=50.7

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCcCHHHHH
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG-----GGWKINENMAQ  288 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~  288 (375)
                      ...++..+...|++++|...+..+.... +.+...+..+|.++.+.|+..+|.+.|+.+.+     .|+.|...+-.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            4456677777888888887777776654 45677788888888888888888888777632     47777766533

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=90.94  E-value=7.9  Score=34.12  Aligned_cols=167  Identities=7%  Similarity=-0.067  Sum_probs=102.1

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh---hcHHHHHHHHHcCCC-HHHHHHHHHHHHHCCCCcCHHhH-
Q 017234          143 SAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS---KTYDAFISGFSSLGN-VDAMNKWYAANIAAGFSVNVQTY-  217 (375)
Q Consensus       143 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~-  217 (375)
                      ......+...|.+.|+.++..+++...+.-.+.-|-.   .....++..+....+ .+.-.++..+..+..-. .-.+| 
T Consensus        19 e~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~fl   97 (394)
T 3txn_A           19 EQGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFL   97 (394)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHH
Confidence            4567788889999999999999988876522222322   235577777776543 44444444444321100 11222 


Q ss_pred             -----HHHHHHHHccCChHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCcCHH
Q 017234          218 -----ESLIHGSLKARDFDSVDRFYEEMMSLGIIPS-----IPILEKVLEGLCARRKLDRVKSFLKFLLGG--GWKINEN  285 (375)
Q Consensus       218 -----~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~  285 (375)
                           .-++..|...|++.+|.+++.++.+.=-..|     ...|..-++.|...+++.++...+......  .+.+++.
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                 3577888888999999888888876311112     234556667778888888888888877542  2224444


Q ss_pred             HHHHH----HHHHH-HcCChHHHHHHHHHH
Q 017234          286 MAQKL----VKCYC-ELGRVDELEEQLETL  310 (375)
Q Consensus       286 ~~~~l----i~~~~-~~g~~~~a~~~~~~~  310 (375)
                      +...+    ...+. ..+++..|...|-+.
T Consensus       178 i~a~i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          178 VQGALDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHhccCHHHHHHHHHHH
Confidence            33221    22344 678888887777554

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=90.08  E-value=3.3  Score=28.36  Aligned_cols=59  Identities=15%  Similarity=0.339  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          126 FAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       126 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      +..+-++.+...++.|++.+..+.+++|-+.+++.-|..+++-.+.+-  .+...+|..++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~--~~~~~iY~~~l   86 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVI   86 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh--cCchhhHHHHH
Confidence            455555555555566666666666666666666666666666665422  22233455444

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=89.64  E-value=4.6  Score=29.33  Aligned_cols=63  Identities=11%  Similarity=0.137  Sum_probs=45.1

Q ss_pred             CHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 017234          264 KLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIR  329 (375)
Q Consensus       264 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~  329 (375)
                      |.-+..+-++.+....+.|++.+..+-+++|.+.+|+..|.++|+-++.+-- +....  |..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~-~~~~i--Y~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG-PHKEI--YPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-TCTTH--HHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcC-Cchhh--HHHHHH
Confidence            4556667777777777888888888888888888888888888888876532 22333  665553

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.51  E-value=6.3  Score=40.35  Aligned_cols=147  Identities=9%  Similarity=0.030  Sum_probs=97.7

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCC------------------
Q 017234          184 AFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGI------------------  245 (375)
Q Consensus       184 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~------------------  245 (375)
                      .++..+...+..+.+.++....     +.+....-.+..+|...|++++|.+.|.+.-. |+                  
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccc
Confidence            3444455555555555443322     23455555667788899999999999966421 11                  


Q ss_pred             -----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCH----HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC
Q 017234          246 -----IPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINE----NMAQKLVKCYCELGRVDELEEQLETLTKCNQS  316 (375)
Q Consensus       246 -----~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  316 (375)
                           ..-..-|..++..+-+.+.++.+.++-...++..-.-+.    ..|..+.+++...|++++|...+-.+......
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r  970 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK  970 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH
Confidence                 011234778888888999999999888877654322222    25888999999999999999999888775543


Q ss_pred             CchHHHHHHHHHHHHHhhCCHHHH
Q 017234          317 PEVLLHFFSGIIRLYALSDRLDDV  340 (375)
Q Consensus       317 ~~~~~~~~~~li~~~~~~g~~~~A  340 (375)
                      .+  .  ...|+..++..|..++-
T Consensus       971 ~~--c--Lr~LV~~lce~~~~~~L  990 (1139)
T 4fhn_B          971 KS--C--LLDFVNQLTKQGKINQL  990 (1139)
T ss_dssp             HH--H--HHHHHHHHHHHCCHHHH
T ss_pred             HH--H--HHHHHHHHHhCCChhhh
Confidence            32  2  66677777777665444

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=89.38  E-value=0.71  Score=38.30  Aligned_cols=91  Identities=13%  Similarity=0.003  Sum_probs=42.7

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCcCHHH--HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHH
Q 017234          261 ARRKLDRVKSFLKFLLGGGWKINENM--AQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLD  338 (375)
Q Consensus       261 ~~g~~~~a~~~~~~~~~~~~~~~~~~--~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  338 (375)
                      ..+..+...++.+.+.+.|..++...  -.+.+...++.|+.+-+..+++.   .|..++.....-..-++.-++.|+.+
T Consensus       191 ~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~---~g~~~~~~~~~g~t~l~~A~~~~~~~  267 (285)
T 1wdy_A          191 LSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEKKHLGLVQRLLEQ---EHIEINDTDSDGKTALLLAVELKLKK  267 (285)
T ss_dssp             HCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHTTCHHHHHHHHHS---SSCCTTCCCTTSCCHHHHHHHTTCHH
T ss_pred             HccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHcCCHHHHHHHHhc---cCCCccccCCCCCcHHHHHHHcCcHH
Confidence            44554445566666666665544321  11233444566776655555441   23322211000112233345556653


Q ss_pred             HHHHHHHHHHhCCCCccCch
Q 017234          339 DVEYSVGRMGKQGLSFKSAE  358 (375)
Q Consensus       339 ~A~~~~~~m~~~~~~~~~~~  358 (375)
                          +.+-+.+.|..|+.++
T Consensus       268 ----i~~~Ll~~Ga~~~~~d  283 (285)
T 1wdy_A          268 ----IAELLCKRGASTDCGD  283 (285)
T ss_dssp             ----HHHHHHHHSSCSCCSS
T ss_pred             ----HHHHHHHcCCCCCccc
Confidence                4445556677766654

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.77  E-value=4.6  Score=36.21  Aligned_cols=98  Identities=12%  Similarity=-0.029  Sum_probs=63.3

Q ss_pred             HhHHHHHHHHHccCChHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh---CCCCcCHHH--H
Q 017234          215 QTYESLIHGSLKARDFDSVDRFYEEMMSLG--IIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG---GGWKINENM--A  287 (375)
Q Consensus       215 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~--~  287 (375)
                      .+...+...|.+.|++++|.+.|.++...-  ..--...+-.++..+...+++..+...+.++..   .+-.|+...  .
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            367778888888999999999998887642  222346677778888888888888888887643   222222211  1


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          288 QKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       288 ~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      ..-...+...+++..|-+.|-+...
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhc
Confidence            1112223456777777777766544

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=87.52  E-value=6.5  Score=30.83  Aligned_cols=56  Identities=14%  Similarity=0.136  Sum_probs=39.8

Q ss_pred             cCCHHHHHHHHHHHHhCCCCcC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC
Q 017234          262 RRKLDRVKSFLKFLLGGGWKIN-ENMAQKLVKCYCELGRVDELEEQLETLTKCNQSP  317 (375)
Q Consensus       262 ~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  317 (375)
                      .+.......+|..|...|+... ...|......+...|++++|..+|+.-++.+..|
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            3446677778887777665433 4456777777777888888888888877777777

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=86.80  E-value=3.6  Score=33.94  Aligned_cols=116  Identities=12%  Similarity=0.131  Sum_probs=77.8

Q ss_pred             HHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCcCHHHHHHHHHHHHHcC
Q 017234          221 IHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGG--WKINENMAQKLVKCYCELG  298 (375)
Q Consensus       221 l~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g  298 (375)
                      +....+.|++++|+.....-.+.. +.|...-..+++.+|-.|++++|..-++...+..  ..|-..+|..+|++-    
T Consensus         4 ~~~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            4 WKNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAA----   78 (273)
T ss_dssp             HHHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHH----
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHH----
Confidence            345678899999998888887775 6678888899999999999999999988887642  223333455555431    


Q ss_pred             ChHHHHHHHHHHHhCCC------CCchHHHHHHHHHHHHH--hhCCHHHHHHHHHHHHhC
Q 017234          299 RVDELEEQLETLTKCNQ------SPEVLLHFFSGIIRLYA--LSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       299 ~~~~a~~~~~~~~~~~~------~~~~~~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~  350 (375)
                            ..=.++-.-+.      .|...   ...++.+..  ..|+.++|.++-.++.+.
T Consensus        79 ------~~R~~vfaG~~~P~~~g~~~~w---~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           79 ------QARKDFAQGAATAKVLGENEEL---TKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             ------HHHHHHTTSCCCEECCCSCHHH---HHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ------HHHHHHHcCCCCCCCCCCCHHH---HHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence                  21122222111      23333   455565554  459999999999888764

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=86.60  E-value=6.6  Score=28.52  Aligned_cols=60  Identities=15%  Similarity=0.322  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHH
Q 017234          126 FAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFIS  187 (375)
Q Consensus       126 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~  187 (375)
                      +..+-++.+...++.|++.+..+.+++|-+.+++..|..+|+-.+.+  ..+....|..++.
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K--~~~~~~iY~y~lq  130 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--cCCchhhHHHHHH
Confidence            35556666666777777777777777777777777777777777763  2344455666554

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.55  E-value=2.9  Score=37.50  Aligned_cols=137  Identities=7%  Similarity=-0.109  Sum_probs=89.7

Q ss_pred             hHHHHHHHHHHHHCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CcCHHHHHHHHHHHHHcCChHHHHH
Q 017234          230 FDSVDRFYEEMMSLG-IIP-SIPILEKVLEGLCARRKLDRVKSFLKFLLGGGW--KINENMAQKLVKCYCELGRVDELEE  305 (375)
Q Consensus       230 ~~~a~~~~~~m~~~~-~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~  305 (375)
                      .++..+......+.. ... -..+...+...|.+.|+++.|.+.+.++.+.-.  .--...+-.+++.+...+++..+..
T Consensus       110 l~~l~~~~~~~~~~~~~e~e~~~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~  189 (429)
T 4b4t_R          110 IKELNEKIQKLEEDDEGELEQAQAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKE  189 (429)
T ss_dssp             HHHHHHHHHHHHHCCSCCCCCSSCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHH
Confidence            344444444444432 122 223577888999999999999999999977532  2334678889999999999999999


Q ss_pred             HHHHHHh---CCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHHHHHH
Q 017234          306 QLETLTK---CNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEMESWF  366 (375)
Q Consensus       306 ~~~~~~~---~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~  366 (375)
                      .+.+...   .+..|.........-...+...+++.+|...|-+....--..+.+.......+.
T Consensus       190 ~~~ka~~~~~~~~d~~~~~~lk~~~gl~~l~~r~f~~Aa~~f~e~~~t~~~~e~~~~~~~~~y~  253 (429)
T 4b4t_R          190 KLEAVNSMIEKGGDWERRNRYKTYYGIHCLAVRNFKEAAKLLVDSLATFTSIELTSYESIATYA  253 (429)
T ss_dssp             HHHHHHHHHTTCCCTHHHHHHHHHHHHGGGGTSCHHHHHHHHHHHHHHSCCSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhcCCCHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHhccCCccchhhHHHHHHHH
Confidence            9988754   344444443333333444466799999999999987654433333333333333

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=86.14  E-value=0.054  Score=48.79  Aligned_cols=218  Identities=11%  Similarity=0.061  Sum_probs=140.0

Q ss_pred             CCCcccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHH
Q 017234           68 NSSQFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVF  146 (375)
Q Consensus        68 ~p~~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  146 (375)
                      .-|...|..+|.+ -+.|.+++-+..+     +|.+....++.+=+.|+-+|++.++..+-++++.       .|+..-.
T Consensus        80 A~Dps~y~eVi~~A~~~~~~edLv~yL-----~MaRk~~ke~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~i  147 (624)
T 3lvg_A           80 ADDPSSYMEVVQAANTSGNWEELVKYL-----QMARKKARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHI  147 (624)
T ss_dssp             CSCCCSSSHHHHHTTTSSCCTTHHHHH-----HTTSTTCCSTTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCT
T ss_pred             CCChHHHHHHHHHHHhCCCHHHHHHHH-----HHHHHHhcccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccH
Confidence            3466778888888 5788888877763     5555555556666789999999998776554432       3666667


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHHhC-------------------CCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 017234          147 NSLICACLCSGDVVTALSLFEIMVSS-------------------EEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIA  207 (375)
Q Consensus       147 ~~li~~~~~~g~~~~a~~~~~~m~~~-------------------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  207 (375)
                      ..+.+-|...|.++.|.-+|..+..-                   ..-..++.||..+..+|...+.+.-|--.--.+.-
T Consensus       148 q~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIv  227 (624)
T 3lvg_A          148 QQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV  227 (624)
T ss_dssp             HHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC
T ss_pred             HHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcc
Confidence            77777788888887777776655431                   11135678999999999999988776554444332


Q ss_pred             CCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCC-----
Q 017234          208 AGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGG-GWK-----  281 (375)
Q Consensus       208 ~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~-----  281 (375)
                      .   ||  -...++..|-..|.+++.+.+++.-.... +...-.|+.|.-.|++-. .++..+.++....+ +++     
T Consensus       228 h---ad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY~-PeKlmEHlklf~sriNipKvira  300 (624)
T 3lvg_A          228 H---AD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWSRVNIPKVLRA  300 (624)
T ss_dssp             C---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSSC-TTHHHHHHTTSSSSSCCTTTHHH
T ss_pred             c---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhcC-HHHHHHHHHHHHHhccHHHHHHH
Confidence            2   11  23445677888888888888887776433 466777888877777653 45444444332221 111     


Q ss_pred             -cCHHHHHHHHHHHHHcCChHHHH
Q 017234          282 -INENMAQKLVKCYCELGRVDELE  304 (375)
Q Consensus       282 -~~~~~~~~li~~~~~~g~~~~a~  304 (375)
                       -....|.-++-.|..-.++|.|.
T Consensus       301 cE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          301 AEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHhhHHHHHHHHhcchhHHHHH
Confidence             12334566666666666666544

>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=85.88  E-value=8.1  Score=27.99  Aligned_cols=69  Identities=10%  Similarity=0.103  Sum_probs=41.8

Q ss_pred             CCCCCHHHHHHHHHHHhccCC---hhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHh
Q 017234          103 GNESCLDEYACLIALSGKVQN---VPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus       103 ~~~~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      ++.|+..+--....++.++.+   ...++.+++.+.+.+..-....+--+.-++.+.|++++|.+..+.+.+
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            344666665555555655554   345677777766654211244455556667777777777777777776

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=85.60  E-value=3.1  Score=33.32  Aligned_cols=25  Identities=12%  Similarity=0.008  Sum_probs=12.7

Q ss_pred             HHHHHhhCCHHHHHHHHHHHHhCCCCccC
Q 017234          328 IRLYALSDRLDDVEYSVGRMGKQGLSFKS  356 (375)
Q Consensus       328 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~  356 (375)
                      ++..+..|+.+    +++.+.+.|..++.
T Consensus       187 L~~A~~~~~~~----~v~~Ll~~ga~~~~  211 (241)
T 1k1a_A          187 LHSASGRGLLP----LVRTLVRSGADSSL  211 (241)
T ss_dssp             HHHHHHHTCHH----HHHHHHHTTCCTTC
T ss_pred             HHHHHHcCCHH----HHHHHHhcCCCCCC
Confidence            33445666654    33444456665543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=83.73  E-value=5.1  Score=30.32  Aligned_cols=60  Identities=7%  Similarity=-0.018  Sum_probs=31.0

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCCh-------hcHHHHHHHHHcCCCHHHHHHHHHHH
Q 017234          146 FNSLICACLCSGDVVTALSLFEIMVSSEEYKPNS-------KTYDAFISGFSSLGNVDAMNKWYAAN  205 (375)
Q Consensus       146 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~m  205 (375)
                      +-.-+..+...|.++.|+-+.+.+....+..|+.       .++..+.+++...+++..|...|++.
T Consensus        23 l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            3344555556666666665555544321122331       23445556666666666666666654

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=83.58  E-value=8.4  Score=26.25  Aligned_cols=78  Identities=9%  Similarity=-0.144  Sum_probs=36.4

Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 017234          194 NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLK  273 (375)
Q Consensus       194 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  273 (375)
                      ..++|..+-+.+...+.  ...+--+-+..+...|++++|..+.+.+-    .||...|..|  +-.+.|..+++...+.
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~AL--ce~rlGl~s~le~rL~   92 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFAL--CEWHLGLGAALDRRLA   92 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHH--HHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHH--HHHhcccHHHHHHHHH
Confidence            34555555555554432  22222222334455556665555443322    4555554444  2235555555555555


Q ss_pred             HHHhCC
Q 017234          274 FLLGGG  279 (375)
Q Consensus       274 ~~~~~~  279 (375)
                      ++...|
T Consensus        93 ~la~sg   98 (115)
T 2uwj_G           93 GLGGSS   98 (115)
T ss_dssp             HHHTCS
T ss_pred             HHHhCC
Confidence            555544

>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=83.14  E-value=8.9  Score=26.19  Aligned_cols=78  Identities=10%  Similarity=-0.074  Sum_probs=36.1

Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 017234          194 NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLK  273 (375)
Q Consensus       194 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  273 (375)
                      ..++|..+-+.+...+.  ...+--+-+..+...|++++|..+.+.+-    .||...|..|  +-.+.|..+++...+.
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~AL--ce~rlGl~s~le~rL~   93 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLAL--CEYRLGLGSALESRLN   93 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHH--HHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHH--HHHhcccHHHHHHHHH
Confidence            34555555555544432  22222222334455555555555443332    4555554444  2235555555555555


Q ss_pred             HHHhCC
Q 017234          274 FLLGGG  279 (375)
Q Consensus       274 ~~~~~~  279 (375)
                      ++...|
T Consensus        94 ~la~sg   99 (116)
T 2p58_C           94 RLARSQ   99 (116)
T ss_dssp             HHTTCC
T ss_pred             HHHhCC
Confidence            554444

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=82.36  E-value=10  Score=31.27  Aligned_cols=115  Identities=17%  Similarity=0.138  Sum_probs=78.6

Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCC
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGI--IPSIPILEKVLEGLCARRK  264 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~  264 (375)
                      ....+.|.++++++....-++..+. |...-..++..+|-.|+|+.|.+-++...+...  .|...+|..+|.+      
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~P~-da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~a------   77 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA------   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH------
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH------
Confidence            4567889999999999998888765 888999999999999999999998888877531  1222334444433      


Q ss_pred             HHHHHHHHHHHHhCCCC-----cCHHHHHHHHHHHH--HcCChHHHHHHHHHHHh
Q 017234          265 LDRVKSFLKFLLGGGWK-----INENMAQKLVKCYC--ELGRVDELEEQLETLTK  312 (375)
Q Consensus       265 ~~~a~~~~~~~~~~~~~-----~~~~~~~~li~~~~--~~g~~~~a~~~~~~~~~  312 (375)
                          +..=.+....+-.     ....-...++.+..  ..|+.++|..+-....+
T Consensus        78 ----E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e  128 (273)
T 1zbp_A           78 ----AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  128 (273)
T ss_dssp             ----HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ----HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Confidence                2222333333322     22334555666654  46999999998887755

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=81.46  E-value=5  Score=29.93  Aligned_cols=53  Identities=9%  Similarity=-0.031  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCc
Q 017234          301 DELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSF  354 (375)
Q Consensus       301 ~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  354 (375)
                      +++..+|..|...++....... |......+...|++++|.++|+.-++.+-.|
T Consensus        82 ~dp~~if~~L~~~~IG~~~Alf-Ye~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P  134 (152)
T 4a1g_A           82 SDLHQFFEFLYNHGIGTLSSPL-YIAWAGHLEAQGELQHASAVLQRGIQNQAEP  134 (152)
T ss_dssp             SCHHHHHHHHHTTTTTTTBHHH-HHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             CCHHHHHHHHHHCCCcHHHHHH-HHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            3466777777777665544443 6777777777777777777777777766644

>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=80.91  E-value=14  Score=26.82  Aligned_cols=67  Identities=6%  Similarity=-0.191  Sum_probs=29.8

Q ss_pred             CcCHHHHHHHHHHHHHcCChH---HHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          281 KINENMAQKLVKCYCELGRVD---ELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       281 ~~~~~~~~~li~~~~~~g~~~---~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      .|+..+--.+..++.++.+.+   ++..+++++.+.+  |.......-.|.-++.+.|++++|.+..+.+.+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~--~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--cchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            344444444455555544432   3444555544433  211111123344445555555555555555553

---

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	375
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.82
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.78
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.61
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.59
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.34
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.29
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.23
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.21
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.15
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.05
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.03
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.02
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.94
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.71
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.63
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.62
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.6
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.6
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.51
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.45
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.45
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.43
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.42
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.41
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.39
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.34
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.2
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.18
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.18
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.04
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.97
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.9
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.86
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.86
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.83
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.82
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.79
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.79
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.76
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.74
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.68
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.66
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.6
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.56
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.53
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.42
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.41
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.37
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.32
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.27
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.15
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.12
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.82
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.79
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.4
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.34
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.27
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.13
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	91.88
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	89.28
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	87.31
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	84.74

>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=99.82  E-value=1.7e-16  Score=140.08  Aligned_cols=298  Identities=12%  Similarity=0.037  Sum_probs=233.9

Q ss_pred             HhhcCCcc-hHHHHHHHhhhccCCCC-cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccC
Q 017234           46 RLLQVPVS-QIKTTLDSVDIFAFNSS-QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQ  122 (375)
Q Consensus        46 ~l~~~~~~-~~~~~~~~m~~~~~~p~-~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~  122 (375)
                      .+.+.|+. +|.+.+++..+.  .|+ ...+..+... ...|++++|...+    ++..+..+.+..+|..+...+.+.|
T Consensus         8 ~~~~~G~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~----~~al~~~p~~~~a~~~l~~~~~~~g   81 (388)
T d1w3ba_           8 REYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFS----TLAIKQNPLLAEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHH----HHHHHHCTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHH----HHHHHhCCCCHHHHHHHHHHhhhhc
Confidence            34455555 667777777543  343 4455555555 6888999999884    4555555667788888888888999


Q ss_pred             ChhHHHHHHHHHHHCCCC--------------------------------------------------------------
Q 017234          123 NVPFAMHVFTSMEAQGIK--------------------------------------------------------------  140 (375)
Q Consensus       123 ~~~~a~~~~~~m~~~g~~--------------------------------------------------------------  140 (375)
                      ++++|...+....+....                                                              
T Consensus        82 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          82 QLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHh
Confidence            999888888776543211                                                              


Q ss_pred             -----cCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHH
Q 017234          141 -----PDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQ  215 (375)
Q Consensus       141 -----p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~  215 (375)
                           -+...+..+...+...|++++|...+++..+..  +-+...+..+...+...|++++|...+++....... +..
T Consensus       162 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~  238 (388)
T d1w3ba_         162 IETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD--PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAV  238 (388)
T ss_dssp             HHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHH
T ss_pred             hccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC--cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-HHH
Confidence                 123455666777888899999999999888722  334567888999999999999999999998887644 778


Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYC  295 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  295 (375)
                      .+..+...+.+.|++++|...|++..+.. +-+..++..+...+...|++++|...++...... +.+...+..+...+.
T Consensus       239 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  316 (388)
T d1w3ba_         239 VHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHH
Confidence            88889999999999999999999998864 3457888999999999999999999999987764 667888999999999


Q ss_pred             HcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchh
Q 017234          296 ELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAED  359 (375)
Q Consensus       296 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  359 (375)
                      ..|++++|...|++..+.  .|+.... +..+...|.+.|++++|...|++..+  +.|+.++.
T Consensus       317 ~~~~~~~A~~~~~~al~~--~p~~~~~-~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a  375 (388)
T d1w3ba_         317 EQGNIEEAVRLYRKALEV--FPEFAAA-HSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADA  375 (388)
T ss_dssp             TTTCHHHHHHHHHHHTTS--CTTCHHH-HHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHH
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHH
Confidence            999999999999998874  4554333 78899999999999999999999886  45555543

>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=99.78  E-value=7e-16  Score=136.12  Aligned_cols=265  Identities=11%  Similarity=0.029  Sum_probs=219.5

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVV  160 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  160 (375)
                      ++.|++++|.+.    +++..+..+.+..++..+...+.+.|++++|...|++..+.. +-+..+|..+..++.+.|+++
T Consensus        10 ~~~G~~~~A~~~----~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_          10 YQAGDFEAAERH----CMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHTCHHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHcCCHHHHHHH----HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccc
Confidence            799999999999    455555566678999999999999999999999999998874 336789999999999999999


Q ss_pred             HHHHHHHHHHhCCCC-----------------------------------------------------------------
Q 017234          161 TALSLFEIMVSSEEY-----------------------------------------------------------------  175 (375)
Q Consensus       161 ~a~~~~~~m~~~~~~-----------------------------------------------------------------  175 (375)
                      +|...+....+....                                                                 
T Consensus        85 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (388)
T d1w3ba_          85 EAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIET  164 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhcc
Confidence            999999887662110                                                                 


Q ss_pred             -CCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 017234          176 -KPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEK  254 (375)
Q Consensus       176 -~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  254 (375)
                       +.+...+..+...+...|++++|...+++..+..+. +..++..+...+...|++++|...+++....+ ..+...+..
T Consensus       165 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  242 (388)
T d1w3ba_         165 QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGN  242 (388)
T ss_dssp             CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             CcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHH
Confidence             112344556667788899999999999998886543 67889999999999999999999999998865 456778888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhh
Q 017234          255 VLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALS  334 (375)
Q Consensus       255 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  334 (375)
                      +...+.+.|++++|...+++..+.. +-+..++..+...+...|++++|.+.++........ +...  +..+...+.+.
T Consensus       243 l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~--~~~l~~~~~~~  318 (388)
T d1w3ba_         243 LACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPT-HADS--LNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTT-CHHH--HHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCc-cchh--hhHHHHHHHHC
Confidence            9999999999999999999998864 446788999999999999999999999998875432 2233  78889999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCccCch
Q 017234          335 DRLDDVEYSVGRMGKQGLSFKSAE  358 (375)
Q Consensus       335 g~~~~A~~~~~~m~~~~~~~~~~~  358 (375)
                      |++++|+..|++..+.  .|+.+.
T Consensus       319 ~~~~~A~~~~~~al~~--~p~~~~  340 (388)
T d1w3ba_         319 GNIEEAVRLYRKALEV--FPEFAA  340 (388)
T ss_dssp             TCHHHHHHHHHHHTTS--CTTCHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCCHH
Confidence            9999999999998864  455543

>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=99.61  E-value=6.1e-13  Score=114.65  Aligned_cols=258  Identities=10%  Similarity=0.050  Sum_probs=196.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHH
Q 017234           74 WDALITSLQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICAC  153 (375)
Q Consensus        74 ~~~li~~~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  153 (375)
                      |.--+..+..|++++|...    +++..+..+.+..+|..+...+...|+++.|...|++..+.. +-+...|..+..++
T Consensus        23 ~~~g~~~~~~g~~~~A~~~----~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~   97 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLL----FEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSF   97 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHH----HHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHH----HHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccc
Confidence            4433334799999999999    567777777789999999999999999999999999988764 33678899999999


Q ss_pred             HcCCChHHHHHHHHHHHhCCCCCCChhc----------------HHHHHHHHHcCCCHHHHHHHHHHHHHCCC-CcCHHh
Q 017234          154 LCSGDVVTALSLFEIMVSSEEYKPNSKT----------------YDAFISGFSSLGNVDAMNKWYAANIAAGF-SVNVQT  216 (375)
Q Consensus       154 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~----------------~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~  216 (375)
                      ...|++++|.+.+++....   .|+...                ....+..+...+...+|.+.|.+..+... ..+..+
T Consensus        98 ~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~  174 (323)
T d1fcha_          98 TNESLQRQACEILRDWLRY---TPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDV  174 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHT---STTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHH
T ss_pred             cccccccccccchhhHHHh---ccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhccccccc
Confidence            9999999999999998872   232111                11122233445567788888888776543 235778


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCE  296 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  296 (375)
                      +..+...+...|++++|...|++..... +-+...|..+...+...|++++|...+++..+.. +-+..++..+..+|.+
T Consensus       175 ~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  252 (323)
T d1fcha_         175 QCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCIN  252 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHH
Confidence            8888999999999999999999988764 3457888999999999999999999999998753 3467789999999999


Q ss_pred             cCChHHHHHHHHHHHhCCCC--------CchHHHHHHHHHHHHHhhCCHHHHH
Q 017234          297 LGRVDELEEQLETLTKCNQS--------PEVLLHFFSGIIRLYALSDRLDDVE  341 (375)
Q Consensus       297 ~g~~~~a~~~~~~~~~~~~~--------~~~~~~~~~~li~~~~~~g~~~~A~  341 (375)
                      .|++++|...|++..+....        .......|..+-.++...|+.+.+.
T Consensus       253 ~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         253 LGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             CCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999987652110        0011112566666666667665443

>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=99.59  E-value=7.1e-13  Score=114.21  Aligned_cols=230  Identities=9%  Similarity=-0.045  Sum_probs=183.6

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcC
Q 017234          113 CLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSL  192 (375)
Q Consensus       113 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~  192 (375)
                      .....+.+.|++++|...|++..+.. +-+..+|..+..++...|++++|...|++..+..  +-+...+..+...|...
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK--PDNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc--ccccccccccccccccc
Confidence            45667889999999999999999874 3368899999999999999999999999998732  34567788888999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCc--------------CHHhHHHHHHHHHccCChHHHHHHHHHHHHCC-CCCCHHHHHHHHH
Q 017234          193 GNVDAMNKWYAANIAAGFSV--------------NVQTYESLIHGSLKARDFDSVDRFYEEMMSLG-IIPSIPILEKVLE  257 (375)
Q Consensus       193 ~~~~~a~~~~~~m~~~~~~~--------------~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~li~  257 (375)
                      |++++|.+.+++........              +.......+..+...+.+.+|...|.+..+.. -.++...+..+..
T Consensus       101 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~  180 (323)
T d1fcha_         101 SLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  180 (323)
T ss_dssp             TCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             ccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            99999999999988754221              01111122233445567788888888877643 2345678888889


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCH
Q 017234          258 GLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRL  337 (375)
Q Consensus       258 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  337 (375)
                      .+...|++++|...+++..... +-+..+|..+..+|...|++++|.+.|++..+..  |+.... |..+..+|.+.|++
T Consensus       181 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a-~~~lg~~~~~~g~~  256 (323)
T d1fcha_         181 LFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ--PGYIRS-RYNLGISCINLGAH  256 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHHTCH
T ss_pred             HHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh--hccHHH-HHHHHHHHHHCCCH
Confidence            9999999999999999988754 3467889999999999999999999999998854  544333 88899999999999


Q ss_pred             HHHHHHHHHHHh
Q 017234          338 DDVEYSVGRMGK  349 (375)
Q Consensus       338 ~~A~~~~~~m~~  349 (375)
                      ++|+..|++.++
T Consensus       257 ~~A~~~~~~al~  268 (323)
T d1fcha_         257 REAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999999886

>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=99.34  E-value=4.2e-10  Score=95.97  Aligned_cols=190  Identities=11%  Similarity=0.017  Sum_probs=142.9

Q ss_pred             ChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHH
Q 017234          158 DVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFY  237 (375)
Q Consensus       158 ~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~  237 (375)
                      ..++|..+|++..+ ...+.+...|...+....+.|+++.|..+|+++.+........+|...+..+.+.|+.+.|.++|
T Consensus        79 ~~~~a~~i~~ral~-~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          79 FSDEAANIYERAIS-TLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHT-TTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             chHHHHHHHHHHHH-HcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            45778888888886 33344455677778888888999999999999887654434557888888888899999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC-C
Q 017234          238 EEMMSLGIIPSIPILEKVLEG-LCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCN-Q  315 (375)
Q Consensus       238 ~~m~~~~~~p~~~~~~~li~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~  315 (375)
                      +...+.+. .+...|...... +...|+.+.|..+|+.+.+. .+.+...+...++.+.+.|+++.|+.+|++..... .
T Consensus       158 ~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            99887653 333344433332 34568889999999998875 35567888899999999999999999999987754 3


Q ss_pred             CCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          316 SPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       316 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      .|......|...+.--...|+.+.+..+++++.+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            44433334888888778889999999999888664

>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=99.29  E-value=5.7e-10  Score=95.33  Aligned_cols=234  Identities=10%  Similarity=0.051  Sum_probs=140.7

Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCC-ChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          108 LDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSG-DVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       108 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      ..+|+.+-..+.+.+.+++|+.++++..+.. +-+...|+....++...| ++++|+..++...+.  -+-+..+|..+.
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~--~p~~~~a~~~~~  119 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--HHhhhhHHHHHh
Confidence            3445555566666677777777777777653 224556666666666655 367777777776652  134456677777


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC--
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRK--  264 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~--  264 (375)
                      ..+.+.|++++|++.++++.+..+. +..+|..+...+...|++++|++.+++..+.+ +-+...|+.+...+.+.+.  
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~  197 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYN  197 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccc
Confidence            7777777777777777777766543 66777777777777777777777777777654 3345566665555554443  


Q ss_pred             ----HHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhh------
Q 017234          265 ----LDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALS------  334 (375)
Q Consensus       265 ----~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~------  334 (375)
                          +++|...+...++.. +.+...|..+...+.. ...+++.+.++...+....+..... +..+...|...      
T Consensus       198 ~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~-~~~l~~~y~~~~~~~~~  274 (315)
T d2h6fa1         198 DRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYL-IAFLVDIYEDMLENQCD  274 (315)
T ss_dssp             SHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHH-HHHHHHHHHHHHHTTCS
T ss_pred             hhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHH-HHHHHHHHHHHHhcCHH
Confidence                456676676666543 3355666655554433 3456666777666654443332221 44555555432      


Q ss_pred             ---CCHHHHHHHHHHHHh
Q 017234          335 ---DRLDDVEYSVGRMGK  349 (375)
Q Consensus       335 ---g~~~~A~~~~~~m~~  349 (375)
                         +.+++|.+++..+.+
T Consensus       275 ~~~~~~~ka~~l~~~l~~  292 (315)
T d2h6fa1         275 NKEDILNKALELCEILAK  292 (315)
T ss_dssp             SHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence               224555566555443

>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=99.23  E-value=3.1e-09  Score=90.46  Aligned_cols=188  Identities=6%  Similarity=0.004  Sum_probs=150.5

Q ss_pred             ChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHH
Q 017234          123 NVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWY  202 (375)
Q Consensus       123 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  202 (375)
                      ..++|..+|++..+...+.+...|...+....+.|+++.|..+|+.+.+ ........+|...+....+.|+.+.|.++|
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~-~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA-IEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT-SSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH-HhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            4577889999988765555677888889999999999999999999987 221122346889999999999999999999


Q ss_pred             HHHHHCCCCcCHHhHHHHHHH-HHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-C
Q 017234          203 AANIAAGFSVNVQTYESLIHG-SLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGG-W  280 (375)
Q Consensus       203 ~~m~~~~~~~~~~~~~~ll~~-~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~  280 (375)
                      ++..+.+.. +...|...... +...|+.+.|..+|+.+.+.. +.+...+...+..+.+.|+.+.|..+|++..+.. .
T Consensus       158 ~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            999887654 44444444333 445689999999999999863 4567889999999999999999999999987753 3


Q ss_pred             CcC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          281 KIN--ENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       281 ~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      .|+  ...|...+..-...|+.+.+.++++++.+.
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  467888898888999999999999988663

>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=99.21  E-value=1.7e-08  Score=86.70  Aligned_cols=268  Identities=12%  Similarity=0.034  Sum_probs=187.4

Q ss_pred             HhcCChHHHHHHHHHHHHHhhcCCC-CCHHHHHHHHHHHhccCChhHHHHHHHHHHHCC----CCc-CHhHHHHHHHHHH
Q 017234           81 LQSSSPKKAQLVLEWRLDKMLKGNE-SCLDEYACLIALSGKVQNVPFAMHVFTSMEAQG----IKP-DSAVFNSLICACL  154 (375)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~m~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g----~~p-~~~~~~~li~~~~  154 (375)
                      ...|++++|.+.++..++....... ....++..+...+...|++++|...+++..+..    ..+ ....+..+...+.
T Consensus        23 ~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  102 (366)
T d1hz4a_          23 INDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILF  102 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHH
Confidence            5999999999996544332211110 013567778889999999999999999876431    111 2345677778888


Q ss_pred             cCCChHHHHHHHHHHHhC---CCCCCC---hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCC----CCcCHHhHHHHHHHH
Q 017234          155 CSGDVVTALSLFEIMVSS---EEYKPN---SKTYDAFISGFSSLGNVDAMNKWYAANIAAG----FSVNVQTYESLIHGS  224 (375)
Q Consensus       155 ~~g~~~~a~~~~~~m~~~---~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~~~~~ll~~~  224 (375)
                      ..|++..+...+......   .+....   ...+..+...+...|+++.+...+.......    ......++......+
T Consensus       103 ~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (366)
T d1hz4a_         103 AQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCS  182 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHH
Confidence            999999999988876541   111111   2345566778889999999999998876542    223455666777778


Q ss_pred             HccCChHHHHHHHHHHHHC--CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC---cCHHHHHHHHHHHH
Q 017234          225 LKARDFDSVDRFYEEMMSL--GIIPS----IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWK---INENMAQKLVKCYC  295 (375)
Q Consensus       225 ~~~g~~~~a~~~~~~m~~~--~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~  295 (375)
                      ...+++..+...+.+....  .....    ...+..+...+...|+.+.|...++...+....   .....+..+...+.
T Consensus       183 ~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~  262 (366)
T d1hz4a_         183 LARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQI  262 (366)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHH
T ss_pred             HhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHH
Confidence            8889999998888776542  11111    234555666778999999999999887654322   23455667888999


Q ss_pred             HcCChHHHHHHHHHHHh----CCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          296 ELGRVDELEEQLETLTK----CNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       296 ~~g~~~~a~~~~~~~~~----~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                      ..|++++|...++....    .+..|+.. ..+..+...|.+.|++++|.+.+++..+
T Consensus       263 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~-~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         263 LLGEFEPAEIVLEELNENARSLRLMSDLN-RNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHH-HHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHhhcccChHHH-HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999988753    23334332 2378888999999999999999988765

>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=99.15  E-value=1.9e-08  Score=85.59  Aligned_cols=214  Identities=12%  Similarity=0.061  Sum_probs=165.4

Q ss_pred             cHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccC-ChhHHHHHHHHHHHCCCCcCHhHHHHHH
Q 017234           73 SWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQ-NVPFAMHVFTSMEAQGIKPDSAVFNSLI  150 (375)
Q Consensus        73 ~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~li  150 (375)
                      .|+.+-.. .+.+..++|++.    +++....++.+..+|+....++...| ++++|+..++...+.. +-+..+|+.+.
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~----~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~  119 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKL----TRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHH----HHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHh
Confidence            34444334 477889999999    66777777888999999999988876 5899999999998775 33788999999


Q ss_pred             HHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCC-
Q 017234          151 CACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARD-  229 (375)
Q Consensus       151 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~-  229 (375)
                      ..+.+.|++++|++.++++.+.  -+.+...|..+...+...|++++|.+.+++..+..+. +...|+.+...+.+.+. 
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCS
T ss_pred             HHHHhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHcccc
Confidence            9999999999999999999983  2456788999999999999999999999999998755 78888887777666655 


Q ss_pred             -----hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CcCHHHHHHHHHHHHH
Q 017234          230 -----FDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGW-KINENMAQKLVKCYCE  296 (375)
Q Consensus       230 -----~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~  296 (375)
                           +++|.+.+....+.. +.+...|+.+...+.. ...+++...++...+... ..+...+..+...|..
T Consensus       197 ~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             chhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence                 578888888887765 3467777777665544 446777777777755322 2345667777777654

>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=99.05  E-value=4.3e-09  Score=86.88  Aligned_cols=96  Identities=7%  Similarity=-0.111  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHH
Q 017234          145 VFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGS  224 (375)
Q Consensus       145 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~  224 (375)
                      +|..+..+|.+.|++++|+..|++..+..  +-+..+|..+..+|.+.|++++|.+.|++..+..+. +..++..+..+|
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~  115 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR--PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC--CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHH
Confidence            44455555555566666666655555411  223445555555566666666666666655554432 344555555555


Q ss_pred             HccCChHHHHHHHHHHHHC
Q 017234          225 LKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       225 ~~~g~~~~a~~~~~~m~~~  243 (375)
                      ...|++++|...|+...+.
T Consensus       116 ~~~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhh
Confidence            5566666666666555544

>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=99.03  E-value=2.5e-09  Score=88.36  Aligned_cols=201  Identities=12%  Similarity=-0.058  Sum_probs=134.3

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      ...+|..+...|.+.|++++|...|++..+.. +-++.+|+.+..++.+.|++++|++.|++..+..  +-+..++..+.
T Consensus        36 ~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg  112 (259)
T d1xnfa_          36 RAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--PTYNYAHLNRG  112 (259)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH--hhhhhhHHHHH
Confidence            35577888899999999999999999998874 3368899999999999999999999999999832  33456788888


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLD  266 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  266 (375)
                      .++...|++++|.+.|++..+..+. +......+..++.+.+..+.+..+..........+  ..++ ++..+.......
T Consensus       113 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~~~~~  188 (259)
T d1xnfa_         113 IALYYGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQ--WGWN-IVEFYLGNISEQ  188 (259)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCS--THHH-HHHHHTTSSCHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhh--hhhh-HHHHHHHHHHHH
Confidence            9999999999999999998886543 45544445555566666666666666655543222  2222 222222221111


Q ss_pred             HHHHHHHHHHhCC--CCc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          267 RVKSFLKFLLGGG--WKI-NENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       267 ~a~~~~~~~~~~~--~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      .............  ..| ...+|..+...|...|++++|.+.|+.....+
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         189 TLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             HHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            1111111111100  112 22456667788888888888888888887744

>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=99.02  E-value=2.5e-09  Score=92.13  Aligned_cols=271  Identities=11%  Similarity=-0.035  Sum_probs=188.8

Q ss_pred             HHHHHHHHhcC-ChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHH----------hccCChhHHHHHHHHHHHCCCCcC
Q 017234           74 WDALITSLQSS-SPKKAQLVLEWRLDKMLKGNESCLDEYACLIALS----------GKVQNVPFAMHVFTSMEAQGIKPD  142 (375)
Q Consensus        74 ~~~li~~~~~~-~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~----------~~~~~~~~a~~~~~~m~~~g~~p~  142 (375)
                      +..++.....+ ..++|+++    +++.....+.+...|+..-..+          ...|++++|+.+++...+.. +-+
T Consensus        32 ~~~~~~~~~~~~~~~~al~~----~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~  106 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLEL----TSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKS  106 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHhcccccHHHHHH----HHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCc
Confidence            33344443333 45899988    4555555555666665433332          23345788999999988764 337


Q ss_pred             HhHHHHHHHHHHcCC--ChHHHHHHHHHHHhCCCCCCChhcHH-HHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHH
Q 017234          143 SAVFNSLICACLCSG--DVVTALSLFEIMVSSEEYKPNSKTYD-AFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYES  219 (375)
Q Consensus       143 ~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  219 (375)
                      ...|..+..++...+  ++++|...++.+.+.  -+++...+. .....+...+.+++|+..++...+..+. +...|+.
T Consensus       107 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~  183 (334)
T d1dcea1         107 YGTWHHRCWLLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHY  183 (334)
T ss_dssp             HHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHH
T ss_pred             HHHHHHhhHHHHHhccccHHHHHHHHHHHHhh--CchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHH
Confidence            778888877777765  488999999999872  234555554 4456777889999999999999888765 8889999


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCC
Q 017234          220 LIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGR  299 (375)
Q Consensus       220 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  299 (375)
                      +...+...|++++|...++.....  .|+   .......+...+..+++...+....... +++...+..+...+...|+
T Consensus       184 l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~  257 (334)
T d1dcea1         184 RSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQS  257 (334)
T ss_dssp             HHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhh
Confidence            999999999998876655443332  111   1223344556677777888888777654 4455566777788888899


Q ss_pred             hHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhCCCCccCchhHHHH
Q 017234          300 VDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQGLSFKSAEDVEME  363 (375)
Q Consensus       300 ~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~  363 (375)
                      .++|...+.+..+.+  |+... .|..+...|...|++++|.+.+++..+.  .|+.+.....+
T Consensus       258 ~~~a~~~~~~~~~~~--p~~~~-~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L  316 (334)
T d1dcea1         258 ELESCKELQELEPEN--KWCLL-TIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDL  316 (334)
T ss_dssp             HHHHHHHHHHHCTTC--HHHHH-HHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHhhC--chHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHH
Confidence            999999998887643  44333 2888899999999999999999999875  45554444433

>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=98.94  E-value=7.3e-07  Score=76.06  Aligned_cols=267  Identities=6%  Similarity=-0.114  Sum_probs=186.4

Q ss_pred             HhhcCCcc-hHHHHHHHhhhccCCCC----cccHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCC--CCHHHHHHHHHH
Q 017234           46 RLLQVPVS-QIKTTLDSVDIFAFNSS----QFSWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNE--SCLDEYACLIAL  117 (375)
Q Consensus        46 ~l~~~~~~-~~~~~~~~m~~~~~~p~----~~~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~--~~~~~~~~li~~  117 (375)
                      .+...|+. +|.+.+++........+    ...+..+... ...|++++|...++..+......+.  .....+..+...
T Consensus        21 ~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  100 (366)
T d1hz4a_          21 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  100 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHH
Confidence            34555655 77888887754322211    2345555555 6999999999998766655444433  235567778888


Q ss_pred             HhccCChhHHHHHHHHHHH----CCCCcC---HhHHHHHHHHHHcCCChHHHHHHHHHHHhCC---CCCCChhcHHHHHH
Q 017234          118 SGKVQNVPFAMHVFTSMEA----QGIKPD---SAVFNSLICACLCSGDVVTALSLFEIMVSSE---EYKPNSKTYDAFIS  187 (375)
Q Consensus       118 ~~~~~~~~~a~~~~~~m~~----~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~~~~~~~~~~ll~  187 (375)
                      +...|++..+...+.....    .+....   ...+..+...+...|+++.+...+.......   +......++.....
T Consensus       101 ~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  180 (366)
T d1hz4a_         101 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  180 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHH
Confidence            9999999999999987653    222211   2356667788899999999999998887622   11122344556667


Q ss_pred             HHHcCCCHHHHHHHHHHHHHC----CCCc--CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHH
Q 017234          188 GFSSLGNVDAMNKWYAANIAA----GFSV--NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIP---SIPILEKVLEG  258 (375)
Q Consensus       188 ~~~~~~~~~~a~~~~~~m~~~----~~~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~  258 (375)
                      .+...++...+...+.+....    +..+  ....+..+...+...|++++|...++.........   ....+..+..+
T Consensus       181 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~  260 (366)
T d1hz4a_         181 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA  260 (366)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHH
Confidence            788889999998888766542    1111  23456667778889999999999998876543222   23556678889


Q ss_pred             HHhcCCHHHHHHHHHHHHh----CCCCcC-HHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          259 LCARRKLDRVKSFLKFLLG----GGWKIN-ENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       259 ~~~~g~~~~a~~~~~~~~~----~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      +...|++++|...++.+..    .+..|+ ..++..+..+|...|++++|.+.+++..+
T Consensus       261 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         261 QILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999998753    344444 45678888999999999999999988654

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.71  E-value=1.2e-08  Score=87.70  Aligned_cols=261  Identities=10%  Similarity=0.015  Sum_probs=184.2

Q ss_pred             chHHHHHHHhhhccCCCCccc-HHH---HHHH-H-------hcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc
Q 017234           53 SQIKTTLDSVDIFAFNSSQFS-WDA---LITS-L-------QSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGK  120 (375)
Q Consensus        53 ~~~~~~~~~m~~~~~~p~~~~-~~~---li~~-~-------~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~  120 (375)
                      .++.+++.....  ..|+..+ |+.   ++.. .       ..+.+++|+..    ++......+.+...|..+..++..
T Consensus        46 ~~al~~~~~~l~--~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~----~~~~l~~~pk~~~~~~~~~~~~~~  119 (334)
T d1dcea1          46 ESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGF----LESCLRVNPKSYGTWHHRCWLLSR  119 (334)
T ss_dssp             HHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHH----HHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHH--HCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHH----HHHHHHhCCCcHHHHHHhhHHHHH
Confidence            367777777754  5566543 432   1222 1       33446788888    556666677788888888777776


Q ss_pred             cC--ChhHHHHHHHHHHHCCCCcCHhHHH-HHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHH
Q 017234          121 VQ--NVPFAMHVFTSMEAQGIKPDSAVFN-SLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDA  197 (375)
Q Consensus       121 ~~--~~~~a~~~~~~m~~~g~~p~~~~~~-~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~  197 (375)
                      .+  ++++|...+....+.. +++...+. .....+...|.+++|+..++...+.  -+-+...|+.+...+.+.|++++
T Consensus       120 ~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~--~p~~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         120 LPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             CSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT--TCCCHHHHHHHHHHHHHHSCCCC
T ss_pred             hccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCHHH
Confidence            65  4789999999998764 33566654 4456777889999999999999872  24467788889999999999887


Q ss_pred             HHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          198 MNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       198 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      |...+....+..  |+   .......+...+..+++...+....... +++...+..+...+...|+.++|...+.+..+
T Consensus       197 A~~~~~~~~~~~--~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  270 (334)
T d1dcea1         197 SGPQGRLPENVL--LK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEP  270 (334)
T ss_dssp             SSSCCSSCHHHH--HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhHHhH--HH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            766555433321  11   1223344556677788888888887764 34455667777788888999999999998877


Q ss_pred             CCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHH
Q 017234          278 GGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYA  332 (375)
Q Consensus       278 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~  332 (375)
                      .. +.+..++..+..+|...|++++|.+.+++..+  +.|+...+ |+.+...+.
T Consensus       271 ~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~~y-~~~L~~~~~  321 (334)
T d1dcea1         271 EN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAY-LDDLRSKFL  321 (334)
T ss_dssp             TC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGHHH-HHHHHHHHH
T ss_pred             hC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccHHH-HHHHHHHHh
Confidence            54 33567788899999999999999999999988  45755443 666655554

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.63  E-value=1.1e-06  Score=73.57  Aligned_cols=199  Identities=12%  Similarity=-0.031  Sum_probs=113.3

Q ss_pred             HHHHHcCCChHHHHHHHHHHHhC---CCCCC-ChhcHHHHHHHHHcCCCHHHHHHHHHHHHHC----CC-CcCHHhHHHH
Q 017234          150 ICACLCSGDVVTALSLFEIMVSS---EEYKP-NSKTYDAFISGFSSLGNVDAMNKWYAANIAA----GF-SVNVQTYESL  220 (375)
Q Consensus       150 i~~~~~~g~~~~a~~~~~~m~~~---~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~~~~~l  220 (375)
                      ...|...|++++|.+.|.+..+.   .+-++ -..+|..+..+|.+.|++++|.+.+++..+.    |. .....++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            44566666677776666666541   01111 1245666677777777777777777655432    11 1113445555


Q ss_pred             HHHHH-ccCChHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----cCH-HHHH
Q 017234          221 IHGSL-KARDFDSVDRFYEEMMS----LGIIPS-IPILEKVLEGLCARRKLDRVKSFLKFLLGGGWK-----INE-NMAQ  288 (375)
Q Consensus       221 l~~~~-~~g~~~~a~~~~~~m~~----~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~-~~~~  288 (375)
                      ...|- ..|++++|.+.|++..+    .+..+. ..++..+...+...|++++|...++++......     ... ..+.
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHH
Confidence            55553 45788888888776643    221121 245677777888888888888888887654211     111 2234


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhCCCCCch-H-HHHHHHHHHHHHh--hCCHHHHHHHHHHHH
Q 017234          289 KLVKCYCELGRVDELEEQLETLTKCNQSPEV-L-LHFFSGIIRLYAL--SDRLDDVEYSVGRMG  348 (375)
Q Consensus       289 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~-~~~~~~li~~~~~--~g~~~~A~~~~~~m~  348 (375)
                      ..+..+...|+++.|...+++..+..+.... . ......++.++..  .+.+++|+..|+++.
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            4455666788888888888887765422111 1 1114556666554  245778887776544

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.62  E-value=1.3e-06  Score=68.06  Aligned_cols=120  Identities=13%  Similarity=0.033  Sum_probs=64.7

Q ss_pred             HHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChH
Q 017234          152 ACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFD  231 (375)
Q Consensus       152 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~  231 (375)
                      .+...|++++|++.|+++.     +|+..+|..+..+|...|++++|.+.|++..+..+. +...|..+..+|.+.|+++
T Consensus        14 ~~~~~~d~~~Al~~~~~i~-----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~   87 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYD   87 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHCCCHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHH
Confidence            3455566666666665432     245555556666666666666666666666655433 5556666666666666666


Q ss_pred             HHHHHHHHHHHCCCC--------------CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          232 SVDRFYEEMMSLGII--------------PS-IPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       232 ~a~~~~~~m~~~~~~--------------p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      +|.+.|++.......              ++ ..++..+..++.+.|++++|.+.+....+
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            666666655432100              00 12333444455555555555555555544

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.60  E-value=3.2e-06  Score=65.82  Aligned_cols=124  Identities=10%  Similarity=-0.096  Sum_probs=76.9

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      ...+...|+++.|++.|.++    .+|+..+|..+..+|...|++++|.+.|++..+.+ +-+...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            44456667777777777643    23566667777777777777777777777776654 34456666777777777777


Q ss_pred             HHHHHHHHHHHhCCCC-c--------------CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          266 DRVKSFLKFLLGGGWK-I--------------NENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       266 ~~a~~~~~~~~~~~~~-~--------------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      ++|...|++.....-. +              ...++..+..++.+.|++++|.+.++...+..
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            7777777766543110 0              02344455556666666666666666655543

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.60  E-value=1.1e-06  Score=73.59  Aligned_cols=201  Identities=8%  Similarity=0.021  Sum_probs=136.1

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHC----CCCc-CHhHHHHHHHHHHcCCChHHHHHHHHHHHhC---CC-CCCChhc
Q 017234          111 YACLIALSGKVQNVPFAMHVFTSMEAQ----GIKP-DSAVFNSLICACLCSGDVVTALSLFEIMVSS---EE-YKPNSKT  181 (375)
Q Consensus       111 ~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~-~~~~~~~  181 (375)
                      |......|...|++++|...|.+..+.    +-++ -..+|+.+..+|.+.|++++|.+.+++..+.   .+ ......+
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            444567888999999999999887643    2222 2358899999999999999999999977651   11 1111344


Q ss_pred             HHHHHHHHH-cCCCHHHHHHHHHHHHHC----CCCc-CHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCC-----H-
Q 017234          182 YDAFISGFS-SLGNVDAMNKWYAANIAA----GFSV-NVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPS-----I-  249 (375)
Q Consensus       182 ~~~ll~~~~-~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~-----~-  249 (375)
                      +..+...|. ..|++++|.+.+++..+.    +..+ -..++..+...+...|++++|...|++.........     . 
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            556666664 469999999999876542    2211 245678889999999999999999999887532211     1 


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-cC---HHHHHHHHHHHHH--cCChHHHHHHHHHHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWK-IN---ENMAQKLVKCYCE--LGRVDELEEQLETLT  311 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~---~~~~~~li~~~~~--~g~~~~a~~~~~~~~  311 (375)
                      ..+...+..+...|+++.|...++...+.... ++   ......++.++..  .+.+++|..-|+.+.
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            22344555677889999999999998765311 12   2345566666654  234677777776544

>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=98.51  E-value=3.3e-06  Score=59.90  Aligned_cols=87  Identities=16%  Similarity=0.048  Sum_probs=35.8

Q ss_pred             HHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 017234          189 FSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRV  268 (375)
Q Consensus       189 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  268 (375)
                      +.+.|++++|...|.+..+..+. +...|..+..+|...|++++|+..++...+.+ +.+...|..+..++...|++++|
T Consensus        13 ~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~A   90 (117)
T d1elwa_          13 ALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEEA   90 (117)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHHH
Confidence            33444444444444444433322 33344444444444444444444444444332 22333444444444444444444


Q ss_pred             HHHHHHHHh
Q 017234          269 KSFLKFLLG  277 (375)
Q Consensus       269 ~~~~~~~~~  277 (375)
                      ...++...+
T Consensus        91 ~~~~~~a~~   99 (117)
T d1elwa_          91 KRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            444444443

>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=98.45  E-value=4.5e-06  Score=62.77  Aligned_cols=90  Identities=12%  Similarity=0.026  Sum_probs=47.6

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 017234          186 ISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKL  265 (375)
Q Consensus       186 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  265 (375)
                      .+.|.+.|++++|...|++..+..+. +...|..+..+|...|++++|...|++..+.. +-+...|..+..++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            34455555555555555555554432 45555555555555555555555555555443 23344555555555555555


Q ss_pred             HHHHHHHHHHHh
Q 017234          266 DRVKSFLKFLLG  277 (375)
Q Consensus       266 ~~a~~~~~~~~~  277 (375)
                      ++|...+++..+
T Consensus        95 ~eA~~~~~~a~~  106 (159)
T d1a17a_          95 RAALRDYETVVK  106 (159)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555544

>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=98.45  E-value=0.00023  Score=57.86  Aligned_cols=226  Identities=11%  Similarity=-0.028  Sum_probs=144.7

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHc----CCChHHHHHHHHHHHhCCCCCCChhcH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLC----SGDVVTALSLFEIMVSSEEYKPNSKTY  182 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~  182 (375)
                      |+..+..|...+.+.+++++|.+.|++..+.|   +...+..|-..|..    ..+...|...++...+ .+   +....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~-~~---~~~a~   73 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACD-LN---YSNGC   73 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccc-cc---ccchh
Confidence            45566667677777888888888888887765   55566666666665    4577788888887776 22   33333


Q ss_pred             HHHHHHHH----cCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHH----ccCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 017234          183 DAFISGFS----SLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSL----KARDFDSVDRFYEEMMSLGIIPSIPILEK  254 (375)
Q Consensus       183 ~~ll~~~~----~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~----~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  254 (375)
                      ..+...+.    ..++.+.|...++...+.|..   .....+...+.    .......+...+......   .+...+..
T Consensus        74 ~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~  147 (265)
T d1ouva_          74 HLLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTI  147 (265)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHH
T ss_pred             hccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhh
Confidence            33433333    245677888888887776643   22222222222    234566677777666653   45566666


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCchHHHHHHH
Q 017234          255 VLEGLCA----RRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCE----LGRVDELEEQLETLTKCNQSPEVLLHFFSG  326 (375)
Q Consensus       255 li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  326 (375)
                      +...+..    ..+...+...++...+.|   +......+...|..    ..++++|...|+...+.|.   ...  +..
T Consensus       148 L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~---~~a--~~~  219 (265)
T d1ouva_         148 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN---GGG--CFN  219 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC---HHH--HHH
T ss_pred             hhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhcccC---HHH--HHH
Confidence            7777664    456777777877777765   55555556656654    5678889999988887653   222  455


Q ss_pred             HHHHHHh----hCCHHHHHHHHHHHHhCCCC
Q 017234          327 IIRLYAL----SDRLDDVEYSVGRMGKQGLS  353 (375)
Q Consensus       327 li~~~~~----~g~~~~A~~~~~~m~~~~~~  353 (375)
                      |...|.+    ..+.++|.+.|++..+.|..
T Consensus       220 LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         220 LGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            6666654    33788899999888888763

>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=98.43  E-value=6.3e-06  Score=61.93  Aligned_cols=122  Identities=11%  Similarity=0.030  Sum_probs=94.3

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH
Q 017234          217 YESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCE  296 (375)
Q Consensus       217 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  296 (375)
                      +......|.+.|++++|...|++..+.+ +-+...|..+..+|...|++++|...|+.+++.. +-+..+|..+..++..
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHH
Confidence            3344667889999999999999999876 4567889999999999999999999999998865 4567889999999999


Q ss_pred             cCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHH--HHhhCCHHHHHHH
Q 017234          297 LGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRL--YALSDRLDDVEYS  343 (375)
Q Consensus       297 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~  343 (375)
                      .|++++|...+++.....  |+.... +..+..+  ....+.+++|...
T Consensus        91 ~g~~~eA~~~~~~a~~~~--p~~~~~-~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVK--PHDKDA-KMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHS--TTCHHH-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcC--CCCHHH-HHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999998855  443321 3333222  3344455666544

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.42  E-value=2.9e-06  Score=66.32  Aligned_cols=100  Identities=10%  Similarity=-0.002  Sum_probs=86.0

Q ss_pred             cCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHH
Q 017234          212 VNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLV  291 (375)
Q Consensus       212 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  291 (375)
                      |+...+......|.+.|++++|+..|++..... +.+...|..+..+|.+.|++++|...++..++.. +-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            677777888899999999999999999988765 4567889999999999999999999999998753 33577899999


Q ss_pred             HHHHHcCChHHHHHHHHHHHhC
Q 017234          292 KCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       292 ~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      .+|...|++++|...|++..+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999987663

>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=98.41  E-value=7.7e-06  Score=57.89  Aligned_cols=88  Identities=10%  Similarity=0.028  Sum_probs=42.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCH
Q 017234          258 GLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRL  337 (375)
Q Consensus       258 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  337 (375)
                      .+...|++++|...|++.++.. +.+...|..+..+|...|++++|...+....+.+  |+.... |..+..++...|++
T Consensus        12 ~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~-~~~~g~~~~~~~~~   87 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--PDWGKG-YSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHTTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc--cchhhH-HHHHHHHHHHccCH
Confidence            3444555555555555554432 3344445555555555555555555555554432  222211 44455555555555


Q ss_pred             HHHHHHHHHHHh
Q 017234          338 DDVEYSVGRMGK  349 (375)
Q Consensus       338 ~~A~~~~~~m~~  349 (375)
                      ++|+..|++..+
T Consensus        88 ~~A~~~~~~a~~   99 (117)
T d1elwa_          88 EEAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHH
Confidence            555555555553

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.39  E-value=3e-06  Score=66.25  Aligned_cols=99  Identities=8%  Similarity=-0.006  Sum_probs=73.6

Q ss_pred             cCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHH
Q 017234          141 PDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESL  220 (375)
Q Consensus       141 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  220 (375)
                      |+...+......+.+.|++++|+..|++..+..  +.+...|..+..+|.+.|++++|...|++..+..+. +..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~--p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHH
Confidence            566667777778888888888888888777622  445566777778888888888888888887765433 57777778


Q ss_pred             HHHHHccCChHHHHHHHHHHHH
Q 017234          221 IHGSLKARDFDSVDRFYEEMMS  242 (375)
Q Consensus       221 l~~~~~~g~~~~a~~~~~~m~~  242 (375)
                      ..+|...|++++|...|++..+
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8888888888888888877654

>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=98.34  E-value=1.9e-06  Score=61.61  Aligned_cols=93  Identities=12%  Similarity=0.018  Sum_probs=43.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCCCchHHHHHHHHHHHH
Q 017234          255 VLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRV---DELEEQLETLTKCNQSPEVLLHFFSGIIRLY  331 (375)
Q Consensus       255 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~  331 (375)
                      +++.+...+++++|.+.|+..+..+ +.+..++..+..++.+.++.   ++|..+++++...+..|+.. ..|..+..+|
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~-~~~~~Lg~~y   82 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQR-DYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHH-HHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHH-HHHHHHHHHH
Confidence            4444445555555555555555443 33444555555555443322   23555555554433222211 1144445555


Q ss_pred             HhhCCHHHHHHHHHHHHh
Q 017234          332 ALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       332 ~~~g~~~~A~~~~~~m~~  349 (375)
                      .+.|++++|.+.|+++.+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            555555555555555554

>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=98.20  E-value=8.4e-06  Score=58.09  Aligned_cols=93  Identities=14%  Similarity=0.097  Sum_probs=49.3

Q ss_pred             HHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCcC-HHHHHHHHHHH
Q 017234          219 SLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRK---LDRVKSFLKFLLGGGWKIN-ENMAQKLVKCY  294 (375)
Q Consensus       219 ~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~  294 (375)
                      .+++.+...+++++|.+.|++....+ +.+..++..+..++.+.++   +++|..+++++.+.+..|+ ..++..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            44555555556666666666655544 3445555555555554332   3345555555554432222 12445555666


Q ss_pred             HHcCChHHHHHHHHHHHh
Q 017234          295 CELGRVDELEEQLETLTK  312 (375)
Q Consensus       295 ~~~g~~~~a~~~~~~~~~  312 (375)
                      .+.|++++|.+.|+++.+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            666666666666666655

>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=98.18  E-value=9.6e-06  Score=56.88  Aligned_cols=27  Identities=7%  Similarity=-0.119  Sum_probs=10.2

Q ss_pred             HHhHHHHHHHHHccCChHHHHHHHHHH
Q 017234          214 VQTYESLIHGSLKARDFDSVDRFYEEM  240 (375)
Q Consensus       214 ~~~~~~ll~~~~~~g~~~~a~~~~~~m  240 (375)
                      ..+|..+..++.+.|++++|...|++.
T Consensus        50 ~~a~~~lg~~~~~~~~~~~A~~~~~~a   76 (112)
T d1hxia_          50 EEAWRSLGLTQAENEKDGLAIIALNHA   76 (112)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             chhhhhhhhhhhhhhhHHHhhcccccc
Confidence            333333333333333333333333333

>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=98.18  E-value=1.2e-05  Score=56.41  Aligned_cols=89  Identities=8%  Similarity=-0.092  Sum_probs=53.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhh
Q 017234          255 VLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALS  334 (375)
Q Consensus       255 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  334 (375)
                      +...+.+.|++++|...+++..+.. +-+..+|..+..++.+.|++++|+..|++..+.+  |+.... |..+...|...
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~a-~~~la~~y~~~   97 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAV-HAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH-HHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc--cccccc-hHHHHHHHHHC
Confidence            3445556666666666666666543 2345666666666666666666666666666533  333222 56666666666


Q ss_pred             CCHHHHHHHHHHH
Q 017234          335 DRLDDVEYSVGRM  347 (375)
Q Consensus       335 g~~~~A~~~~~~m  347 (375)
                      |++++|.+.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            6666666666654

>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=98.04  E-value=0.00011  Score=55.61  Aligned_cols=61  Identities=15%  Similarity=0.081  Sum_probs=33.6

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      +|+.+..+|.+.|++++|+..++...+.+ +.+...+..+..++...|++++|...|+...+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34445555555566666665555555543 22455555555555555555555555555554

>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=97.97  E-value=0.00012  Score=55.32  Aligned_cols=63  Identities=11%  Similarity=0.050  Sum_probs=47.0

Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCC
Q 017234          181 TYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLG  244 (375)
Q Consensus       181 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~  244 (375)
                      +|+.+..+|.+.|++++|+..++...+..+. ++.++..+..+|...|++++|...|++..+.+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            4556667777788888888888877776543 67777777888888888888888888877653

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.90  E-value=0.00015  Score=55.13  Aligned_cols=70  Identities=6%  Similarity=-0.017  Sum_probs=35.9

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----hCCCCcCHHH
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLL-----GGGWKINENM  286 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~~~  286 (375)
                      .+..+...+...|++++|...++...+.. +-+...|..++.++.+.|+.++|.+.|+++.     +.|+.|...+
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            34445555555555555555555555443 3344555555555555555555555555542     2355555443

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.86  E-value=0.00013  Score=52.16  Aligned_cols=92  Identities=11%  Similarity=0.098  Sum_probs=43.6

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCC-CCC-----HHHHHHHHH
Q 017234          184 AFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGI-IPS-----IPILEKVLE  257 (375)
Q Consensus       184 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~-~p~-----~~~~~~li~  257 (375)
                      .+...+.+.|++++|...|.+..+.++. +..++..+..+|.+.|++++|...+++..+... .+.     ..+|..+..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            3444455555555555555555554332 455555555555555555555555555443210 000     123444444


Q ss_pred             HHHhcCCHHHHHHHHHHHH
Q 017234          258 GLCARRKLDRVKSFLKFLL  276 (375)
Q Consensus       258 ~~~~~g~~~~a~~~~~~~~  276 (375)
                      .+...+++++|...+....
T Consensus        88 ~~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHH
Confidence            4455555555555555444

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.86  E-value=0.00012  Score=52.30  Aligned_cols=94  Identities=12%  Similarity=0.077  Sum_probs=41.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-Cch---HHHHHHHHHHH
Q 017234          255 VLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQS-PEV---LLHFFSGIIRL  330 (375)
Q Consensus       255 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~---~~~~~~~li~~  330 (375)
                      +...+.+.|++++|...|.+.++.+ +.+..++..+..+|.+.|++++|...++++.+.+.. +..   ...+|..+...
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            3334444555555555555544432 223444444555555555555555555444332110 000   00114444444


Q ss_pred             HHhhCCHHHHHHHHHHHHh
Q 017234          331 YALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       331 ~~~~g~~~~A~~~~~~m~~  349 (375)
                      +...+++++|+..|++...
T Consensus        89 ~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            5555555555555554443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.83  E-value=0.00058  Score=50.33  Aligned_cols=61  Identities=15%  Similarity=0.035  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          251 ILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       251 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      +|+.+..+|.+.|++++|...++.+++.. +.+..+|..+..++...|++++|...|+...+
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            44555555556666666666666555543 33455555566666666666666666665555

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.82  E-value=0.00022  Score=53.65  Aligned_cols=61  Identities=15%  Similarity=0.077  Sum_probs=27.7

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLG  277 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  277 (375)
                      .|..+..++.+.|++++|+..+++..+.. +.+...|..+..++...|++++|...|+..++
T Consensus        79 ~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          79 CVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            33444444444444444444444444432 22334444444444444444444444444444

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.79  E-value=0.00072  Score=50.69  Aligned_cols=79  Identities=14%  Similarity=0.138  Sum_probs=43.0

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 017234          216 TYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYC  295 (375)
Q Consensus       216 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  295 (375)
                      .|+.+..+|.+.|++++|+..++.....+ +.+...|..+..++...|++++|...|+.+++.. +.+..+...+-.+..
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~~  143 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQK  143 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34455555666666666666666665543 3445556666666666666666666666665543 233344444333333


Q ss_pred             H
Q 017234          296 E  296 (375)
Q Consensus       296 ~  296 (375)
                      +
T Consensus       144 ~  144 (168)
T d1kt1a1         144 K  144 (168)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.79  E-value=0.00039  Score=51.28  Aligned_cols=123  Identities=8%  Similarity=0.007  Sum_probs=78.4

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHH
Q 017234          144 AVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHG  223 (375)
Q Consensus       144 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~  223 (375)
                      ..+..-...+.+.|++++|+..|.+.....   +.....           .....   ......    ....+|+.+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~---~~~~~~-----------~~~~~---~~~~~~----~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFF---IHTEEW-----------DDQIL---LDKKKN----IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---TTCTTC-----------CCHHH---HHHHHH----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC---cchhhh-----------hhHHH---HHhhhh----HHHHHHhhHHHH
Confidence            345556667778888888888888777521   111000           00000   000000    123467778888


Q ss_pred             HHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHH
Q 017234          224 SLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQK  289 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  289 (375)
                      |.+.|++++|++.++...+.+ +.+..+|..+..++...|++++|...|+...+.. +-|..+...
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~-P~n~~~~~~  140 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNS  140 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             HHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            888888888888888887765 4567888888888888888888888888887753 223444443

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.76  E-value=0.00031  Score=53.35  Aligned_cols=71  Identities=15%  Similarity=0.054  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHH-----hCCCCCchHH
Q 017234          250 PILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLT-----KCNQSPEVLL  321 (375)
Q Consensus       250 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~~~  321 (375)
                      ..+..+..++...|++++|...++.+.+.. +-+...|..++.+|.+.|+.++|.+.|+++.     +.|+.|...+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            345666777777777777777777776654 4566777777777777777777777777653     3467776544

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.74  E-value=0.00084  Score=50.28  Aligned_cols=63  Identities=11%  Similarity=0.059  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 017234          251 ILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCN  314 (375)
Q Consensus       251 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  314 (375)
                      .|+.+..+|.+.|++++|...++..++.. +.+...|..+..++...|++++|...|++..+.+
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            46667777777888888888887777654 4566777777778888888888888888777643

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.68  E-value=0.00045  Score=51.87  Aligned_cols=61  Identities=8%  Similarity=-0.075  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          251 ILEKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       251 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      .|..+..++.+.|++++|...+..+++.. +.+...|..+..+|...|++++|...|+...+
T Consensus        79 ~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          79 CVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            44455555566666666666666665543 33455566666666666666666666666555

>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=97.66  E-value=0.006  Score=50.86  Aligned_cols=134  Identities=10%  Similarity=0.025  Sum_probs=55.1

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHH
Q 017234          107 CLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFI  186 (375)
Q Consensus       107 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll  186 (375)
                      |..--..+...|-+.|.++.|..++..+.         -|..++..+.+.++++.|.++..+.       -+..+|..+.
T Consensus        13 n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~-------~~~~~~k~~~   76 (336)
T d1b89a_          13 NNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVC   76 (336)
T ss_dssp             ----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH-------TCHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc-------CCHHHHHHHH
Confidence            33333444555555555555555554332         1344455555555555555554433       1233555555


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 017234          187 SGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCAR  262 (375)
Q Consensus       187 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  262 (375)
                      .++.+......+     .+.......++.....++..|-..|.+++...+++...... .++...++.++..|++.
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHh
Confidence            555554443322     11112222233334455555555555555555555443321 33444555555555544

>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=97.60  E-value=0.011  Score=47.35  Aligned_cols=221  Identities=10%  Similarity=-0.031  Sum_probs=152.0

Q ss_pred             cHHHHHHH-HhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc----cCChhHHHHHHHHHHHCCCCcCHhHHH
Q 017234           73 SWDALITS-LQSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGK----VQNVPFAMHVFTSMEAQGIKPDSAVFN  147 (375)
Q Consensus        73 ~~~~li~~-~~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~  147 (375)
                      .+..|-.. ...++.++|.+.|+    +..+.+  +..++..|-..|..    ..++..|...+....+.+   ++....
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~----kAa~~g--~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFE----KACDLK--ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHH----HHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHH----HHHHCC--CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            34444444 78999999999954    444444  56666667777765    668889999998888765   445555


Q ss_pred             HHHHHHHc----CCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHH----cCCCHHHHHHHHHHHHHCCCCcCHHhHHH
Q 017234          148 SLICACLC----SGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFS----SLGNVDAMNKWYAANIAAGFSVNVQTYES  219 (375)
Q Consensus       148 ~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  219 (375)
                      .+...+..    ..+.+.|...++...+ .|.   ......+...+.    .......+...+......   .+...+..
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~-~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~  147 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACD-LKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTI  147 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHH-TTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhh-hhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhh
Confidence            55555443    4578889999998887 332   222333333333    344567778888777664   36677777


Q ss_pred             HHHHHHc----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCcCHHHHHHHH
Q 017234          220 LIHGSLK----ARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA----RRKLDRVKSFLKFLLGGGWKINENMAQKLV  291 (375)
Q Consensus       220 ll~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  291 (375)
                      |...+..    ..+...+...++...+.|   +......+...+..    ..+.++|...|....+.|   ++..+..|.
T Consensus       148 L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG  221 (265)
T d1ouva_         148 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLG  221 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             hhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHH
Confidence            7777775    456778888888887754   55566666655654    568999999999999887   456667777


Q ss_pred             HHHHH----cCChHHHHHHHHHHHhCCC
Q 017234          292 KCYCE----LGRVDELEEQLETLTKCNQ  315 (375)
Q Consensus       292 ~~~~~----~g~~~~a~~~~~~~~~~~~  315 (375)
                      .+|.+    ..+.++|.+.|++..+.|.
T Consensus       222 ~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         222 AMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            77765    3478889999988877664

>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=97.56  E-value=0.015  Score=48.28  Aligned_cols=121  Identities=11%  Similarity=0.130  Sum_probs=60.5

Q ss_pred             hcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHH
Q 017234           82 QSSSPKKAQLVLEWRLDKMLKGNESCLDEYACLIALSGKVQNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVT  161 (375)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~m~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  161 (375)
                      +.|.++.|..+    +..+.        -|..++..+.+.++++.|.+++.+..      +..+|..+...+.+.....-
T Consensus        26 ~~~lye~A~~l----Y~~~~--------d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~~~~e~~l   87 (336)
T d1b89a_          26 DEKMYDAAKLL----YNNVS--------NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGKEFRL   87 (336)
T ss_dssp             ---CTTTHHHH----HHHTT--------CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHHHTTCHHH
T ss_pred             HCCCHHHHHHH----HHhCC--------CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHHhCcHHHH
Confidence            66666666666    33222        25556666666666666655554331      45566666666655554433


Q ss_pred             HHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHcc
Q 017234          162 ALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKA  227 (375)
Q Consensus       162 a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  227 (375)
                      +     .+.. .....+......++..|-..|.+++...+++...... ..+...++.++..|++.
T Consensus        88 a-----~i~~-~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          88 A-----QMCG-LHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             H-----HHTT-TTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             H-----HHHH-HHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHh
Confidence            2     1111 1222344444556666666666666666666554321 23555556666666654

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.53  E-value=9.2e-05  Score=60.23  Aligned_cols=52  Identities=19%  Similarity=0.169  Sum_probs=30.4

Q ss_pred             cCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHC
Q 017234          191 SLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSL  243 (375)
Q Consensus       191 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  243 (375)
                      +.|++++|...+++.++..+. |...+..+...++..|++++|...|+...+.
T Consensus         8 ~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            445666666666665555443 5556666666666666666666666655554

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.42  E-value=7e-05  Score=67.25  Aligned_cols=168  Identities=8%  Similarity=-0.051  Sum_probs=96.2

Q ss_pred             hhHHHHHHHHHHHCCCCcCHhHHHHHHHHHH--cCCChHHHHHHHHHHHhCCCCC-CChhcHHHHHHHHHcCCCHHHHHH
Q 017234          124 VPFAMHVFTSMEAQGIKPDSAVFNSLICACL--CSGDVVTALSLFEIMVSSEEYK-PNSKTYDAFISGFSSLGNVDAMNK  200 (375)
Q Consensus       124 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~--~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~  200 (375)
                      +..+.+.++...+....++..-....+..+.  ..+.++.++..+....+   +. ++...+..+...+.+.|+.++|..
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~---l~~~~~~~~~~lg~~~~~~~~~~~A~~  141 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFN---VDLPCRVKSSQLGIISNKQTHTSAIVK  141 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---CChhhHHHHHHhHHHHHhCCCHHHHHH
Confidence            4456666666665443344333322222222  23445555544443332   23 345667778888889999999998


Q ss_pred             HHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 017234          201 WYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGW  280 (375)
Q Consensus       201 ~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  280 (375)
                      .+....+..   ...++..+...+...|++++|...|++..+.. +-+...|+.+...+...|+..+|...|.+.+... 
T Consensus       142 ~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-  216 (497)
T d1ya0a1         142 PQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-  216 (497)
T ss_dssp             -CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-
T ss_pred             HHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-
Confidence            887765532   23567788899999999999999999998874 3446899999999999999999999999998875 


Q ss_pred             CcCHHHHHHHHHHHHHcCC
Q 017234          281 KINENMAQKLVKCYCELGR  299 (375)
Q Consensus       281 ~~~~~~~~~li~~~~~~g~  299 (375)
                      +|-..++..|...+.+..+
T Consensus       217 ~~~~~a~~nL~~~~~~~~~  235 (497)
T d1ya0a1         217 FPFPAASTNLQKALSKALE  235 (497)
T ss_dssp             BCCHHHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHhhh
Confidence            6788889999888766544

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.41  E-value=0.0002  Score=58.22  Aligned_cols=122  Identities=12%  Similarity=0.021  Sum_probs=84.1

Q ss_pred             HHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcC-HHHHHHHHHHHHHcCChHH
Q 017234          224 SLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWKIN-ENMAQKLVKCYCELGRVDE  302 (375)
Q Consensus       224 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~  302 (375)
                      ..+.|++++|+..+++..+.. +-|...+..+...++..|++++|...++...+..  |+ ...+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccHH
Confidence            456799999999999999886 5678999999999999999999999999998753  44 4445444444443333332


Q ss_pred             HHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          303 LEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       303 a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      +..-...-.. -..|+... .+......+...|+.++|...+.++.+.
T Consensus        83 a~~~~~~~~~-~~~p~~~~-~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAKV-LGENEELT-KSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEEC-CCSCHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhc-ccCchHHH-HHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            2211111000 01233222 2445566788899999999999998775

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.37  E-value=0.00064  Score=49.58  Aligned_cols=126  Identities=10%  Similarity=0.068  Sum_probs=64.0

Q ss_pred             HcCCCHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 017234          190 SSLGNVDAMNKWYAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVK  269 (375)
Q Consensus       190 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  269 (375)
                      -+.+.+++|...|+...+..+. +..++..+..++...+++..+.+                         ..+.+++|.
T Consensus         8 ~r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e-------------------------~~~~~~~Ai   61 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISD-------------------------AKQMIQEAI   61 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHH-------------------------HHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhH-------------------------HHHHHHHHH
Confidence            3444556666666666655433 55555555555554332211111                         112234455


Q ss_pred             HHHHHHHhCCCCcCHHHHHHHHHHHHHcC-----------ChHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHH
Q 017234          270 SFLKFLLGGGWKINENMAQKLVKCYCELG-----------RVDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLD  338 (375)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----------~~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  338 (375)
                      ..+++.++.. +.+..+|..+..+|...|           .+++|.+.|++..+  +.|+...  |..-+..+      .
T Consensus        62 ~~~~kAl~l~-P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~--~~~~L~~~------~  130 (145)
T d1zu2a1          62 TKFEEALLID-PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTH--YLKSLEMT------A  130 (145)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHH--HHHHHHHH------H
T ss_pred             HHHHHHHHhc-chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHH--HHHHHHHH------H
Confidence            5555544432 223444544444444333           35778888888877  4466555  33333322      4


Q ss_pred             HHHHHHHHHHhCCC
Q 017234          339 DVEYSVGRMGKQGL  352 (375)
Q Consensus       339 ~A~~~~~~m~~~~~  352 (375)
                      .|.+++.+..++|+
T Consensus       131 ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         131 KAPQLHAEAYKQGL  144 (145)
T ss_dssp             THHHHHHHHHHSSS
T ss_pred             HHHHHHHHHHHHhc
Confidence            56677777766664

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.32  E-value=0.002  Score=57.39  Aligned_cols=174  Identities=10%  Similarity=-0.053  Sum_probs=98.5

Q ss_pred             CChhHHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCCHHHHHHH
Q 017234          122 QNVPFAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGNVDAMNKW  201 (375)
Q Consensus       122 ~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  201 (375)
                      +.++.++..+....+.. +++...+..+...+.+.|+.++|...++.... .  .| ..++..+...+...|++++|...
T Consensus       100 ~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~-~--~~-~~~~~~LG~l~~~~~~~~~A~~~  174 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCS-Y--IC-QHCLVHLGDIARYRNQTSQAESY  174 (497)
T ss_dssp             HHHHHHHHHHTC--------------------------------CCHHHH-H--HH-HHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhC-C--CH-HHHHHHHHHHHHHcccHHHHHHH
Confidence            44444544444333322 33566788888889999999999988887765 1  12 35677888999999999999999


Q ss_pred             HHHHHHCCCCcCHHhHHHHHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 017234          202 YAANIAAGFSVNVQTYESLIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGGWK  281 (375)
Q Consensus       202 ~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  281 (375)
                      |++..+..+. +...|+.|...+...|+..+|...|.+..... .|-..++..|...+.+..+..++         ....
T Consensus       175 y~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~~~~~~~---------~~~~  243 (497)
T d1ya0a1         175 YRHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKALESRDE---------VKTK  243 (497)
T ss_dssp             HHHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHHTTSCCC---------CCSS
T ss_pred             HHHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHhhhhhhh---------hccc
Confidence            9999987654 77899999999999999999999999998876 57788888888877654332111         0111


Q ss_pred             cC-HH---HHHHHHHHHHHcCChHHHHHHHHHHH
Q 017234          282 IN-EN---MAQKLVKCYCELGRVDELEEQLETLT  311 (375)
Q Consensus       282 ~~-~~---~~~~li~~~~~~g~~~~a~~~~~~~~  311 (375)
                      .. ..   .+..+...+....+++....+.+++.
T Consensus       244 ~~~~~~~~~f~~~~~~l~~~~~~~~~~~~~~~~~  277 (497)
T d1ya0a1         244 WGVSDFIKAFIKFHGHVYLSKSLEKLSPLREKLE  277 (497)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTCCGGGHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHhCCchhhHHHHHHHHH
Confidence            11 11   23334444556667777766665554

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.27  E-value=0.00075  Score=49.19  Aligned_cols=73  Identities=4%  Similarity=-0.159  Sum_probs=49.5

Q ss_pred             HHcCCChHHHHHHHHHHHhCCCCCCChhcHHHHHHHHHcCCC----------HHHHHHHHHHHHHCCCCcCHHhHHHHHH
Q 017234          153 CLCSGDVVTALSLFEIMVSSEEYKPNSKTYDAFISGFSSLGN----------VDAMNKWYAANIAAGFSVNVQTYESLIH  222 (375)
Q Consensus       153 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~ll~  222 (375)
                      |-+.+.+++|...|+...+..  +.+..++..+..++...++          +++|...|++..+..+. +..+|..+..
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~--P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~   83 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC--CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHH
Confidence            445677999999999998732  4566777778777765433          45677777777665543 5666666666


Q ss_pred             HHHccC
Q 017234          223 GSLKAR  228 (375)
Q Consensus       223 ~~~~~g  228 (375)
                      +|...|
T Consensus        84 ~y~~~g   89 (145)
T d1zu2a1          84 AYTSFA   89 (145)
T ss_dssp             HHHHHH
T ss_pred             HHHHcc
Confidence            665543

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.15  E-value=0.0034  Score=46.08  Aligned_cols=92  Identities=7%  Similarity=-0.063  Sum_probs=54.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCC-Cc----------CHHHHHHHHHHHHHcCChHHHHHHHHHHHhC-----CCCCch--
Q 017234          258 GLCARRKLDRVKSFLKFLLGGGW-KI----------NENMAQKLVKCYCELGRVDELEEQLETLTKC-----NQSPEV--  319 (375)
Q Consensus       258 ~~~~~g~~~~a~~~~~~~~~~~~-~~----------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~--  319 (375)
                      .+.+.|++++|...|++.++..- .|          ....|+.+..+|...|++++|..-+++..+.     ...++.  
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            34455666666666666543110 01          1345666777777777777777776665431     111111  


Q ss_pred             -HHHHHHHHHHHHHhhCCHHHHHHHHHHHHh
Q 017234          320 -LLHFFSGIIRLYALSDRLDDVEYSVGRMGK  349 (375)
Q Consensus       320 -~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  349 (375)
                       ....++.+..+|...|++++|+..|++..+
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence             111256677888888888888888887665

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.12  E-value=0.0039  Score=45.75  Aligned_cols=56  Identities=11%  Similarity=0.046  Sum_probs=28.0

Q ss_pred             HHHHcCCChHHHHHHHHHHHhCCCCCCC----------hhcHHHHHHHHHcCCCHHHHHHHHHHHH
Q 017234          151 CACLCSGDVVTALSLFEIMVSSEEYKPN----------SKTYDAFISGFSSLGNVDAMNKWYAANI  206 (375)
Q Consensus       151 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~----------~~~~~~ll~~~~~~~~~~~a~~~~~~m~  206 (375)
                      ..+.+.|++++|+..|++..+...-.|+          ..+|+.+..+|...|++++|.+.+++..
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            3444556666666666666542111111          1344455555555555555555555443

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.82  E-value=0.0092  Score=39.45  Aligned_cols=61  Identities=10%  Similarity=-0.005  Sum_probs=30.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCC-----CCcC-HHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 017234          252 LEKVLEGLCARRKLDRVKSFLKFLLGGG-----WKIN-ENMAQKLVKCYCELGRVDELEEQLETLTK  312 (375)
Q Consensus       252 ~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  312 (375)
                      +-.+...+.+.|++++|...+++.++..     ..++ ..++..+..++.+.|++++|...+++..+
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            3344555555566666655555553310     0111 33455555555555555555555555555

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.79  E-value=0.0043  Score=41.16  Aligned_cols=64  Identities=9%  Similarity=-0.063  Sum_probs=29.2

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHhCC----CCCCC-hhcHHHHHHHHHcCCCHHHHHHHHHHHHHCC
Q 017234          146 FNSLICACLCSGDVVTALSLFEIMVSSE----EYKPN-SKTYDAFISGFSSLGNVDAMNKWYAANIAAG  209 (375)
Q Consensus       146 ~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  209 (375)
                      +-.+...+.+.|++++|+..|++..+..    ...++ ..+++.+..++.+.|++++|.+.+++..+..
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            3344445555555555555555443310    00111 2334445555555555555555555555443

>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=96.40  E-value=0.073  Score=36.44  Aligned_cols=59  Identities=14%  Similarity=0.057  Sum_probs=26.7

Q ss_pred             HHHHHHccCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 017234          220 LIHGSLKARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCARRKLDRVKSFLKFLLGGG  279 (375)
Q Consensus       220 ll~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  279 (375)
                      .++.+...|+-+.-.++++++.+.+ +|++...-.+..+|.+.|...++.+++.+.-+.|
T Consensus        92 ALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          92 ALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            3444444444444444444444433 3444444444444555555555554444444444

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.34  E-value=0.26  Score=34.29  Aligned_cols=16  Identities=6%  Similarity=0.075  Sum_probs=6.9

Q ss_pred             CHHHHHHHHHHHHhCC
Q 017234          336 RLDDVEYSVGRMGKQG  351 (375)
Q Consensus       336 ~~~~A~~~~~~m~~~~  351 (375)
                      +.++|.++|++..+.|
T Consensus       110 d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         110 NEKQAVKTFEKACRLG  125 (133)
T ss_dssp             CHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCC
Confidence            3444444444444443

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.27  E-value=0.27  Score=34.17  Aligned_cols=80  Identities=9%  Similarity=-0.017  Sum_probs=34.7

Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHhHHHHHHHHHc----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCH
Q 017234          194 NVDAMNKWYAANIAAGFSVNVQTYESLIHGSLK----ARDFDSVDRFYEEMMSLGIIPSIPILEKVLEGLCA----RRKL  265 (375)
Q Consensus       194 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~  265 (375)
                      +.++|++++++..+.|   ++..+..|-..|..    ..+.++|.++|++..+.|   +......|...|..    ..+.
T Consensus        38 ~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~  111 (133)
T d1klxa_          38 NKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNE  111 (133)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCH
Confidence            4444555555444443   22333333333322    234455555555555543   12223333333332    2355


Q ss_pred             HHHHHHHHHHHhCC
Q 017234          266 DRVKSFLKFLLGGG  279 (375)
Q Consensus       266 ~~a~~~~~~~~~~~  279 (375)
                      ++|..+++...+.|
T Consensus       112 ~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         112 KQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHCC
Confidence            55555555555554

>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=94.13  E-value=0.52  Score=32.16  Aligned_cols=62  Identities=15%  Similarity=0.212  Sum_probs=32.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC
Q 017234          253 EKVLEGLCARRKLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKCNQ  315 (375)
Q Consensus       253 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  315 (375)
                      ...+......|+-++..++++.+.+.+ +|++...-.+..+|.+.|+..++.+++.+.-+.|.
T Consensus        90 dlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          90 NKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            334444555555555555555554433 45555555555555555555555555555555443

>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=91.88  E-value=0.96  Score=29.11  Aligned_cols=50  Identities=10%  Similarity=0.072  Sum_probs=38.6

Q ss_pred             CHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 017234          264 KLDRVKSFLKFLLGGGWKINENMAQKLVKCYCELGRVDELEEQLETLTKC  313 (375)
Q Consensus       264 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  313 (375)
                      +.-++.+-+..+....+.|++.+..+-+++|.+.+++..|.++|+.++.+
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            55566777777777777888888888888888888888888888877754

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.28  E-value=2.2  Score=28.91  Aligned_cols=67  Identities=4%  Similarity=-0.225  Sum_probs=33.5

Q ss_pred             cCHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhC
Q 017234          282 INENMAQKLVKCYCELGR---VDELEEQLETLTKCNQSPEVLLHFFSGIIRLYALSDRLDDVEYSVGRMGKQ  350 (375)
Q Consensus       282 ~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  350 (375)
                      |...+--....++.++.+   ++++..+|+++.+.+  |......+-.|.-+|.+.|++++|.+.++.+++.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~--p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC--chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            444444445555554433   345566666655432  3222111334455566666666666666666643

>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=87.31  E-value=2.4  Score=27.16  Aligned_cols=46  Identities=13%  Similarity=0.307  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHCCCCcCHhHHHHHHHHHHcCCChHHHHHHHHHHHh
Q 017234          126 FAMHVFTSMEAQGIKPDSAVFNSLICACLCSGDVVTALSLFEIMVS  171 (375)
Q Consensus       126 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  171 (375)
                      ++.+-++.+...++.|++....+.+++|-+.+++.-|..+++..+.
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444445555555555555555555555555555555555555554

>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=84.74  E-value=4.2  Score=27.43  Aligned_cols=72  Identities=13%  Similarity=0.010  Sum_probs=44.4

Q ss_pred             CCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCcCH-HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCchH
Q 017234          246 IPSIPILEKVLEGLCARR---KLDRVKSFLKFLLGGGWKINE-NMAQKLVKCYCELGRVDELEEQLETLTKCNQSPEVL  320 (375)
Q Consensus       246 ~p~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  320 (375)
                      .|...|--....++.++.   +.+++..+++++.+.+ +.+. ..+..|.-+|.+.|++++|.+.++.+.+  +.|+..
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n~  107 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNK  107 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCcH
Confidence            345555555555555543   4556777777776543 2232 3555666777788888888888888777  445443